Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= Dr_sW_002_C24
(792 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q12267|SMC4_YEAST Structural maintenance of chromosome 4 47 8e-05
sp|Q8NB25|CF060_HUMAN Hypothetical protein C6orf60 46 1e-04
sp|Q59037|SMC_METJA Chromosome partition protein smc homolog 44 5e-04
sp|Q9Y4K3|TRAF6_HUMAN TNF receptor-associated factor 6 (Int... 44 7e-04
sp|P70388|RAD50_MOUSE DNA repair protein RAD50 (mRad50) 43 0.001
sp|Q97WH0|RAD50_SULSO DNA double-strand break repair rad50 ... 42 0.001
sp|Q13114|TRAF3_HUMAN TNF receptor-associated factor 3 (CD4... 42 0.002
sp|Q60803|TRAF3_MOUSE TNF receptor-associated factor 3 (CD4... 42 0.002
sp|Q86UP2|KTN1_HUMAN Kinectin (Kinesin receptor) (CG-1 anti... 42 0.002
sp|Q61382|TRAF4_MOUSE TNF receptor-associated factor 4 (Cys... 42 0.002
>sp|Q12267|SMC4_YEAST Structural maintenance of chromosome 4
Length = 1418
Score = 46.6 bits (109), Expect = 8e-05
Identities = 39/132 (29%), Positives = 71/132 (53%), Gaps = 10/132 (7%)
Frame = +3
Query: 402 NEMRELREKVKGNRLEIEMLKENDRIKNEIIGSMTEEIKSIKEENEDLRDQMELGDRNLW 581
+E++ + E++K +L L END NE + E +KE++E L++QME + ++
Sbjct: 1028 DELKVIEEQLKHTKLA---LAENDTNMNETLNLKVE----LKEQSEQLKEQMEDMEESI- 1079
Query: 582 YKFDEIDIEMKNKCKKDELLIEF-------DEKFDMKMNARYCDMKEEWNEKFDEKIEKM 740
+F I+IEMKNK +K L+ + EK +++ R D+ D K++ +
Sbjct: 1080 NEFKSIEIEMKNKLEKLNSLLTYIKSEITQQEKGLNELSIR--DVTHTLGMLDDNKMDSV 1137
Query: 741 REE---NEKLDQ 767
+E+ N++LDQ
Sbjct: 1138 KEDVKNNQELDQ 1149
>sp|Q8NB25|CF060_HUMAN Hypothetical protein C6orf60
Length = 1020
Score = 45.8 bits (107), Expect = 1e-04
Identities = 39/159 (24%), Positives = 80/159 (50%), Gaps = 11/159 (6%)
Frame = +3
Query: 306 HGDVINDKLNDHM-LADIHNHNKILIDLIGN-LRNEMRELRE----KVKGNRLEIEMLKE 467
H + I DK M L + HN +K+ ++ N L+ E+ L+E K+ EI L++
Sbjct: 378 HSNAIRDKKKLQMDLEEQHNKDKLNLEEDKNQLQQELENLKEVLEDKLNTANQEIGHLQD 437
Query: 468 NDRIKNEIIGSMTEEIKSIKEENEDLRDQMELGDRNLWYKFDEI-----DIEMKNKCKKD 632
R + +GS I S+++ E L+++++L +L D + ++E + + + +
Sbjct: 438 MVRKSEQGLGSAEGLIASLQDSQERLQNELDLTKDSLKETKDALLNVEGELEQERQ-QHE 496
Query: 633 ELLIEFDEKFDMKMNARYCDMKEEWNEKFDEKIEKMREE 749
E + E+ +K++ D++ +W E ++ K+REE
Sbjct: 497 ETIAAMKEEEKLKVDKMAHDLEIKWTENLRQECSKLREE 535
>sp|Q59037|SMC_METJA Chromosome partition protein smc homolog
Length = 1169
Score = 43.9 bits (102), Expect = 5e-04
Identities = 39/189 (20%), Positives = 92/189 (48%), Gaps = 26/189 (13%)
Frame = +3
Query: 297 GCEHGDVINDKLNDHMLADIHNHNKILIDLIGNLRNEMRELREKVK----------GNRL 446
G G K + D+ NKI ++I + +E+R+++E+++ ++
Sbjct: 656 GAMIGGTFKSKAKIKVDVDLSKLNKIADEIIA-IESELRKIKEEIERLSKIVKRSSAKKM 714
Query: 447 EIE----MLKENDRIKNEIIGSMTEEIKSIKEENEDLRDQME---LGDRNLWYKFDEIDI 605
EIE ++K+N+ K EI T +IK ++ +N+D+ +++E L + + +EI+
Sbjct: 715 EIENTLEIIKKNEMRKREIAEKNTIKIKELELKNKDILEELEELNLKREEILNRINEIES 774
Query: 606 EMKNKCKKDELLIEFDEKFDMKMNARYCDMKEEWNEKFDEKIEKMREENEK--------- 758
++ ++ E +I ++++ N + + E + +++ K++ E +K
Sbjct: 775 KINELIERREKIINELKEYESDENLKRMNEIEGELKILEKEKAKLKNEIDKGLTLVKEIL 834
Query: 759 LDQIERVNK 785
+ +IE +NK
Sbjct: 835 IPKIEELNK 843
Score = 39.3 bits (90), Expect = 0.012
Identities = 50/216 (23%), Positives = 95/216 (43%), Gaps = 12/216 (5%)
Frame = +3
Query: 159 KINKLISKLIVRCSNEMCSHECQLIEMENHLNSCLNKAVKCPFNDVGCEHGDVINDK--L 332
++N +I++L + + E+ + E+E + + K + N++ ++ N K +
Sbjct: 279 RLNNIINELNEKGNEEVLELHKSIKELEVEIEND-KKVLDSSINELKKVEVEIENKKKEI 337
Query: 333 NDHMLADIHNHNKILIDLIGNLRNEMRELREKVKGNRLEIEMLKENDRIKNEIIGSMTEE 512
+ I N + I+ +++E+ EK+K E E LKE II + E
Sbjct: 338 KETQKKIIENRDSII-----EKEQQIKEIEEKIKNLNYEKERLKEAIAESESIIKHLKES 392
Query: 513 IKSI-----KEENEDLRDQMELGDRNLWYKFDEIDIEMKNK-CKKDELLIEFDEKFDMK- 671
I K +NE R + EL D + +IE N+ KK + +E E D K
Sbjct: 393 EMEIADEIAKNQNELYRLKKELNDLDNLINRKNFEIEKNNEMIKKLKEELETVEDVDTKP 452
Query: 672 --MNARYCDMKEEWNEK-FDEKIEKMREENEKLDQI 770
+ +++ E++++ E EK +E KLD++
Sbjct: 453 LYLELENLNVEIEFSKRGIKELEEKKKELQAKLDEL 488
>sp|Q9Y4K3|TRAF6_HUMAN TNF receptor-associated factor 6 (Interleukin 1 signal transducer)
(RING finger protein 85)
Length = 522
Score = 43.5 bits (101), Expect = 7e-04
Identities = 26/94 (27%), Positives = 40/94 (42%)
Frame = +3
Query: 3 CKNILINAHQAICGCHFCYECINQYMANGAIDCPXXXXXXXXXXXXXIAQNHKINKLISK 182
C L A Q CG FC CI + + + CP + ++ + I
Sbjct: 73 CLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ---LFPDNFAKREILS 129
Query: 183 LIVRCSNEMCSHECQLIEMENHLNSCLNKAVKCP 284
L+V+C NE C H+ +L +E+H C + CP
Sbjct: 130 LMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCP 163
>sp|P70388|RAD50_MOUSE DNA repair protein RAD50 (mRad50)
Length = 1312
Score = 42.7 bits (99), Expect = 0.001
Identities = 49/225 (21%), Positives = 102/225 (45%), Gaps = 19/225 (8%)
Frame = +3
Query: 168 KLISKLIVRCSN-EMCSHECQLIEMENHLNSCLNKAVKCPFNDVGCEHGD----VINDKL 332
K + +I R + E S + E++ + SCL + N + C D + K
Sbjct: 112 KTLEGVITRMKHGEKVSLSSKCAEIDREMISCLGVSKSVLNNVIFCHQEDSNWPLSEGKA 171
Query: 333 NDHMLADIHNHNKILIDLIGNLRNEMRELREKVKGNRLEIEMLKEN--------DRI--K 482
+I + + I + LR + +KVK + E++ LK+N D+I K
Sbjct: 172 LKQKFDEIFSATRY-IKALDTLRQVRQTQGQKVKECQTELKYLKQNKEKACEIRDQITSK 230
Query: 483 NEIIGSMTEEIKSIKEENEDLRDQMELGDRNLWYKFDEIDIEMKNKCKKDELLIEFDEKF 662
+ S E ++S ++E E L+++++ + NL K ++D E+K + + + + + +
Sbjct: 231 EAQLASSQEIVRSYEDELEPLKNRLKEIEHNL-SKIMKLDNEIKALESRKKQMEKDNSEL 289
Query: 663 DMKMNARYCDMKEEWNEKFDEKIEKMREENEKL----DQIERVNK 785
+ KM + E+ N+ + +RE+ +L ++E++NK
Sbjct: 290 EQKMEKVFQGTDEQLNDLYHNHQRTVREKERRLVDCQRELEKLNK 334
>sp|Q97WH0|RAD50_SULSO DNA double-strand break repair rad50 ATPase
Length = 864
Score = 42.4 bits (98), Expect = 0.001
Identities = 37/139 (26%), Positives = 68/139 (48%)
Frame = +3
Query: 360 NHNKILIDLIGNLRNEMRELREKVKGNRLEIEMLKENDRIKNEIIGSMTEEIKSIKEENE 539
++NK D N+ ++++L E+++ EIE LK D EEIK I EE +
Sbjct: 481 SNNKASYD---NVMRQLKKLNEEIENLHSEIESLKNID-----------EEIKKINEEVK 526
Query: 540 DLRDQMELGDRNLWYKFDEIDIEMKNKCKKDELLIEFDEKFDMKMNARYCDMKEEWNEKF 719
+L+ E R Y +E+D K + K DE+ + E+ + +M ++K +
Sbjct: 527 ELKLYYEEFMRLSKYTKEELD---KKRVKLDEMK-KKKEEIEKEMRGLESELKGLDRKAL 582
Query: 720 DEKIEKMREENEKLDQIER 776
+ KI + + KLD++++
Sbjct: 583 ESKILDLENKRVKLDEMKK 601
Score = 33.1 bits (74), Expect = 0.89
Identities = 31/150 (20%), Positives = 67/150 (44%), Gaps = 11/150 (7%)
Frame = +3
Query: 375 LIDLIGNLRNEMREL----------REKVKGNRLEIEMLKENDRIKNEIIGSMTEEIKSI 524
+++ NL N++REL ++ V+ R + LK++ + +EIK++
Sbjct: 164 IVEFRKNLENKLRELDRIEQDYNNFKKTVEEKRARVLELKKDKE-------KLEDEIKNL 216
Query: 525 KEENEDLRDQMELGDRNLWYKFDEIDIEMKNKCKKDELLIEFDEKFDMKMNARYCDMKEE 704
++ +D++DQ FDE + + K L +KE
Sbjct: 217 EKRIKDIKDQ-----------FDEYEKKRNQYLKLTTTL----------------KIKEG 249
Query: 705 WNEKFDEKIEKMREENEKLDQIER-VNKID 791
+ + IE++R++ E +DQ+E+ +N+++
Sbjct: 250 ELNELNRSIEELRKQTENMDQLEKEINELE 279
>sp|Q13114|TRAF3_HUMAN TNF receptor-associated factor 3 (CD40 receptor associated factor
1) (CRAF1) (CD40 binding protein) (CD40BP) (LMP1
associated protein) (LAP1) (CAP-1)
Length = 568
Score = 42.0 bits (97), Expect = 0.002
Identities = 34/151 (22%), Positives = 61/151 (40%), Gaps = 26/151 (17%)
Frame = +3
Query: 195 CSNEMCSHECQL-----IEMENHLNSCLNKAVKCPFNDVGCEHGDVINDKLNDHMLADIH 359
C C H+C + E+ HL+ C+N C F GC N ++ H +
Sbjct: 199 CVVVSCPHKCSVQTLLRSELSAHLSECVNAPSTCSFKRYGCVFQGT-NQQIKAHEASSAV 257
Query: 360 NHNKILIDLIGNLRNEMRELR-EKVKGNR-----------LEIEMLKENDRIKN------ 485
H +L + +L ++ L+ E V+ N+ EIE+ ++ + ++N
Sbjct: 258 QHVNLLKEWSNSLEKKVSLLQNESVEKNKSIQSLHNQICSFEIEIERQKEMLRNNESKIL 317
Query: 486 ---EIIGSMTEEIKSIKEENEDLRDQMELGD 569
+I S E++K + +E R E D
Sbjct: 318 HLQRVIDSQAEKLKELDKEIRPFRQNWEEAD 348
Score = 31.2 bits (69), Expect = 3.4
Identities = 26/120 (21%), Positives = 47/120 (39%), Gaps = 6/120 (5%)
Frame = +3
Query: 3 CKNILINAHQAICGCHFCYECINQYMANGAIDCPXXXXXXXXXXXXXIAQNHKINKLISK 182
C +L + Q CG FC C+ +++ + P + +++ + I
Sbjct: 56 CHLVLCSPKQTECGHRFCESCMAALLSSSS---PKCTACQESIVKDKVFKDNCCKREILA 112
Query: 183 LIVRCSNEM--CSHECQLIEMENHLNSCLNKAVKCPFNDVGCEHGD----VINDKLNDHM 344
L + C NE C+ + L + HL + C F ++ C D V+ L DH+
Sbjct: 113 LQIYCRNESRGCAEQLTLGHLLVHLKN------DCHFEELPCVRPDCKEKVLRKDLRDHV 166
>sp|Q60803|TRAF3_MOUSE TNF receptor-associated factor 3 (CD40 receptor associated factor
1) (CRAF1) (TRAFAMN)
Length = 567
Score = 42.0 bits (97), Expect = 0.002
Identities = 34/151 (22%), Positives = 61/151 (40%), Gaps = 26/151 (17%)
Frame = +3
Query: 195 CSNEMCSHECQL-----IEMENHLNSCLNKAVKCPFNDVGCEHGDVINDKLNDHMLADIH 359
C C H+C + E+ HL+ C+N C F GC N ++ H +
Sbjct: 198 CVVVSCPHKCSVQTLLRSELSAHLSECVNAPSTCSFKRYGCVFQGT-NQQIKAHEASSAV 256
Query: 360 NHNKILIDLIGNLRNEMRELR-EKVKGNR-----------LEIEMLKENDRIKN------ 485
H +L + +L ++ L+ E V+ N+ EIE+ ++ + ++N
Sbjct: 257 QHVNLLKEWSNSLEKKVSLLQNESVEKNKSIQSLHNQICSFEIEIERQKEMLRNNESKIL 316
Query: 486 ---EIIGSMTEEIKSIKEENEDLRDQMELGD 569
+I S E++K + +E R E D
Sbjct: 317 HLQRVIDSQAEKLKELDKEIRPFRQNWEEAD 347
Score = 35.4 bits (80), Expect = 0.18
Identities = 28/120 (23%), Positives = 49/120 (40%), Gaps = 6/120 (5%)
Frame = +3
Query: 3 CKNILINAHQAICGCHFCYECINQYMANGAIDCPXXXXXXXXXXXXXIAQNHKINKLISK 182
C+ +L N Q CG FC C+ +++ + P + +++ + I
Sbjct: 55 CRLVLCNPKQTECGHRFCESCMAALLSSSS---PKCTACQESIIKDKVFKDNCCKREILA 111
Query: 183 LIVRCSNE--MCSHECQLIEMENHLNSCLNKAVKCPFNDVGCEHGD----VINDKLNDHM 344
L V C NE C+ + L + HL + +C F ++ C D V+ L DH+
Sbjct: 112 LQVYCRNEGRGCAEQLTLGHLLVHLKN------ECQFEELPCLRADCKEKVLRKDLRDHV 165
>sp|Q86UP2|KTN1_HUMAN Kinectin (Kinesin receptor) (CG-1 antigen)
Length = 1357
Score = 42.0 bits (97), Expect = 0.002
Identities = 34/153 (22%), Positives = 79/153 (51%), Gaps = 19/153 (12%)
Frame = +3
Query: 351 DIHNHNKILIDLIGNLRNE----------MRELREKVKGNRLEIEMLKENDRIKNEIIGS 500
D+ K L + IGN++ E ++EL+ +KG ++ +K K + + +
Sbjct: 833 DLKQEIKALKEEIGNVQLEKAQQLSITSKVQELQNLLKGKEEQMNTMKAVLEEKEKDLAN 892
Query: 501 MTEEIKSIKEENEDLRDQM-ELGDRNL-----WYKFDEIDI---EMKNKCKKDELLIEFD 653
+ ++ ++EENE L+ + E+ NL +F+E++I E +N+ K+ E +++ +
Sbjct: 893 TGKWLQDLQEENESLKAHVQEVAQHNLKEASSASQFEELEIVLKEKENELKRLEAMLK-E 951
Query: 654 EKFDMKMNARYCDMKEEWNEKFDEKIEKMREEN 752
+ D+ + ++ N+ F +IE+++++N
Sbjct: 952 RESDLSSKTQLLQDVQDENKLFKSQIEQLKQQN 984
Score = 32.0 bits (71), Expect = 2.0
Identities = 33/132 (25%), Positives = 62/132 (46%), Gaps = 7/132 (5%)
Frame = +3
Query: 384 LIGNLRNEMRELREKVKG--NRLEIEMLKENDRIKNEIIGSMTEEIKSIKEE--NEDLRD 551
L+ L+ + E K+K LE E+LK + K + + + +EIK++KEE N L
Sbjct: 795 LVEELKKVIHEKDGKIKSVEELLEAELLKVAN--KEKTVQDLKQEIKALKEEIGNVQLEK 852
Query: 552 QMELGDRNLWYKFDEIDIEMKNK---CKKDELLIEFDEKFDMKMNARYCDMKEEWNEKFD 722
+L ++ K E+ +K K + ++E EK D+ ++ +E NE
Sbjct: 853 AQQL---SITSKVQELQNLLKGKEEQMNTMKAVLEEKEK-DLANTGKWLQDLQEENESLK 908
Query: 723 EKIEKMREENEK 758
++++ + N K
Sbjct: 909 AHVQEVAQHNLK 920
>sp|Q61382|TRAF4_MOUSE TNF receptor-associated factor 4 (Cysteine-rich motif associated to
RING and Traf domains protein 1)
Length = 470
Score = 42.0 bits (97), Expect = 0.002
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 2/84 (2%)
Frame = +3
Query: 39 CGCHFCYECINQYMANGAIDCPXXXXXXXXXXXXXIAQNHKINKLISKLIVRC--SNEMC 212
CG +C C+ ++++ G CP I + ++ + L +RC S E C
Sbjct: 34 CGHRYCDNCLQEFLSEGVFKCP---EDQLPLDYAKIYPDPELEVQVLGLAIRCIHSEEGC 90
Query: 213 SHECQLIEMENHLNSCLNKAVKCP 284
L ++ HLN+C V CP
Sbjct: 91 RWSGPLRHLQGHLNTCSFNVVPCP 114
Score = 37.7 bits (86), Expect = 0.036
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 1/86 (1%)
Frame = +3
Query: 180 KLIVRCSNEMCSHECQLIEMENHL-NSCLNKAVKCPFNDVGCEHGDVINDKLNDHMLADI 356
+L V C N+ ++ HL +SC V CPF + GC+H + H+ +
Sbjct: 216 RLPVPCPNQCGVGTVAREDLPTHLKDSCRTAFVLCPFKESGCKH-RCPKLAMGRHVEESV 274
Query: 357 HNHNKILIDLIGNLRNEMRELREKVK 434
H ++ L+ R E++ELR +++
Sbjct: 275 KPHLAMMCALVSRQRQELQELRRELE 300
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 70,789,324
Number of Sequences: 369166
Number of extensions: 1314448
Number of successful extensions: 6530
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 5738
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 6404
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 7425705210
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)