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_020_G18
(831 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P53064|RTF1_YEAST Protein RTF1 75 2e-13
sp|Q97FK1|SBCC_CLOAB Nuclease sbcCD subunit C 39 0.013
sp|P35415|MYSP1_DROME Paramyosin, long form 34 0.56
sp|Q9PKW5|RECF_CHLMU DNA replication and repair protein recF 33 0.74
sp|P14242|PMS1_YEAST DNA mismatch repair protein PMS1 33 1.3
sp|P59242|CING_MOUSE Cingulin 32 1.6
sp|P57997|IF2C_PHAVU Translation initiation factor IF-2, ch... 32 2.1
sp|P53959|COG6_YEAST Conserved oligomeric Golgi complex com... 32 2.8
sp|P32908|SMC1_YEAST Structural maintenance of chromosome 1... 31 3.7
sp|O83521|CLPX_TREPA ATP-dependent Clp protease ATP-binding... 31 3.7
>sp|P53064|RTF1_YEAST Protein RTF1
Length = 558
Score = 75.1 bits (183), Expect = 2e-13
Identities = 57/243 (23%), Positives = 118/243 (48%), Gaps = 6/243 (2%)
Frame = +2
Query: 116 LDQLSRIRLSRNKMEKWVHMPFFKDLVKGCFVRVNIG-EGPSVQPIYRCAEVIEVVETVK 292
+ +++R+ R+ + K+ P F+D VKGC+ RVN+G + + + YR IE V K
Sbjct: 241 ISDFNKLRIGRSFVAKFCFYPGFEDAVKGCYGRVNVGTDKRTGKTSYRMVR-IERVFLQK 299
Query: 293 IYDLGSTRTNVGLKLKIGKSVTTFRLIFVSNQDFQSVEFESWRRRVISDGMPLPKLSFIE 472
Y++G TN + GK F++ + S+ F E++ + R + + M P L +
Sbjct: 300 PYNMGKFYTNQYFGVTQGKDRKVFQMNYFSDGLFAEDEYQRYLRALDNSQMIKPSLHSLS 359
Query: 473 EKARQIKEYSNFSINDEQTMQKVLMSKQRFQK--GPVNFAVRKAEL-TRLKLAAETDG-- 637
K +++ ++ N + D +T +V+ + +F K N + K L +L+ A ET+
Sbjct: 360 NKTKEVMDFVNTPLTD-KTTDEVVRHRMQFNKKLSGTNAVLEKTVLREKLQYAKETNNEK 418
Query: 638 DIVQANKFQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQNHVEKAIELEIAENR 817
DI + + ++ EK + IK + + +NR++ +++ A ++ ++
Sbjct: 419 DIAKYSAQLRNFEKRMSVYEKHHENDQSDIKKLGELTSKNRKLNMSNIRNAEHVKKEDSN 478
Query: 818 EWE 826
++
Sbjct: 479 NFD 481
>sp|Q97FK1|SBCC_CLOAB Nuclease sbcCD subunit C
Length = 1163
Score = 39.3 bits (90), Expect = 0.013
Identities = 38/134 (28%), Positives = 64/134 (47%), Gaps = 13/134 (9%)
Frame = +2
Query: 455 KLSFIEEKARQ-----IKEYSNFS------INDEQTMQKVLMSK--QRFQKGPVNFAVRK 595
K++ IE+K R+ IK +SN S +ND + K+LM + + +K N+ K
Sbjct: 844 KMNEIEDKYRKCSDEIIKYHSNLSSLKDRKVNDIDKLNKILMEEKFENIEKAKENYLNDK 903
Query: 596 AELTRLKLAAETDGDIVQANKFQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQN 775
E+ LK E K+++E+ ++N E L +K +KN ++ EI N
Sbjct: 904 -EINLLKSDVE---------KYKNELSKVNGAVEVLSKK----LKNRKLTEEKWIEIQNN 949
Query: 776 HVEKAIELEIAENR 817
VEKA + + + R
Sbjct: 950 RVEKASKAKALQER 963
>sp|P35415|MYSP1_DROME Paramyosin, long form
Length = 879
Score = 33.9 bits (76), Expect = 0.56
Identities = 31/115 (26%), Positives = 54/115 (46%), Gaps = 4/115 (3%)
Frame = +2
Query: 470 EEKARQIKEYSNFSINDEQTMQKVLM-SKQRFQKGPVNFAVRKAELTRLKLAAETDGDIV 646
EE +K+ N I D Q ++L +K R +K F EL ++ + IV
Sbjct: 115 EETTLLLKKKHNEIITDFQEQVEILTKNKARAEKDKAKFQTEVYELLS-QIESYNKEKIV 173
Query: 647 QA---NKFQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQNHVEKAIELE 802
+K + I ELN+K E+L R + S ++Q N E+T++ + ++L+
Sbjct: 174 SEKHISKLEVSISELNVKIEELNRTVIDISSHRSRLSQENIELTKDVQDLKVQLD 228
>sp|Q9PKW5|RECF_CHLMU DNA replication and repair protein recF
Length = 365
Score = 33.5 bits (75), Expect = 0.74
Identities = 29/105 (27%), Positives = 50/105 (47%), Gaps = 6/105 (5%)
Frame = +2
Query: 167 VHMPFFKDLVKGCFVRVNIGEGPSVQPIY--RCAEVIEVVETVKIYDLG-STRTN-VGLK 334
VH F KD +R+ +G P + I+ ++E + I LG S RT+ +
Sbjct: 3 VHSLFLKDFRNYSELRLELG--PEMNSIFGLNAQGKTNILEALYILSLGRSFRTSRLTEA 60
Query: 335 LKIGKSVTTFRLIFVSNQDFQ--SVEFESWRRRVISDGMPLPKLS 463
++ G S +F NQ F S++ + ++++ DG P+ KLS
Sbjct: 61 IRFGSSHFFIEAVFSQNQVFHTLSIQVDKRGKKILFDGAPITKLS 105
>sp|P14242|PMS1_YEAST DNA mismatch repair protein PMS1
Length = 904
Score = 32.7 bits (73), Expect = 1.3
Identities = 19/55 (34%), Positives = 28/55 (50%)
Frame = +2
Query: 656 KFQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQNHVEKAIELEIAENRE 820
KF+DEI E NL + + G + S I++R E +N ++ ELE E E
Sbjct: 636 KFEDEILEYNLSTKNFKEISKNGKQMSSIISKRKSEAQENIIKNKDELEDFEQGE 690
>sp|P59242|CING_MOUSE Cingulin
Length = 1191
Score = 32.3 bits (72), Expect = 1.6
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 15/115 (13%)
Frame = +2
Query: 521 EQTMQKVLMSKQRFQKGPVNFAVRKAELTRLKLAAET------------DGDIVQAN--- 655
E+T ++ + FQK K EL +L++ E D+ QA
Sbjct: 550 EETSEETGHWQSMFQKNKEELRATKQELLQLRMEKEEMEEELGEKMEVLQRDLEQARAST 609
Query: 656 KFQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQNHVEKAIELEIAENRE 820
+ +++EL K E +RT G Q+N+E+T H + +E ++A RE
Sbjct: 610 RDTHQVEEL-----KKELRRTQGELKELQAEQQNQEVTGRHRNQVLEKQLAALRE 659
>sp|P57997|IF2C_PHAVU Translation initiation factor IF-2, chloroplast precursor (PvIF2cp)
Length = 1012
Score = 32.0 bits (71), Expect = 2.1
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Frame = +2
Query: 623 AETDGDIVQANKFQDEIDELNLKAEKLERKRTTGIKNISYINQ--RNREITQNHVEKAI 793
+ T GD+ + NK + + E+ KAEKL + G KN +N+ RN E+ +
Sbjct: 123 SRTTGDVEERNKVIESLGEVLEKAEKLGSSKVNGDKNNGSVNKPVRNNANASPRTERPV 181
>sp|P53959|COG6_YEAST Conserved oligomeric Golgi complex component 6 (Complexed with DOR1
protein 2)
Length = 839
Score = 31.6 bits (70), Expect = 2.8
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Frame = +2
Query: 584 AVRKAELTRLKLAAETDGDIVQANKFQDEIDELNLKAE--KLERKRTTGIKNISYINQRN 757
+V K + T KL + ++ N EID+ LKAE KL++K I++ +NQ
Sbjct: 231 SVEKIQRTSEKLLSNETNEVPTNNVVLQEIDQYRLKAEQLKLKKKILLSIRDRFTLNQVE 290
Query: 758 REITQNHVEKAIELEIAE 811
++ N I E+ +
Sbjct: 291 DDVITNGTIDNIFFEVVK 308
>sp|P32908|SMC1_YEAST Structural maintenance of chromosome 1 (DA-box protein SMC1)
Length = 1225
Score = 31.2 bits (69), Expect = 3.7
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 2/91 (2%)
Frame = +2
Query: 467 IEEKARQIKEYSNFSINDEQTMQKVLMSKQRFQ--KGPVNFAVRKAELTRLKLAAETDGD 640
I+ K K+YS F N+ +L+ + F +G V ++ + ++ E G
Sbjct: 121 IDGKTVSYKDYSIFLENEN-----ILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGS 175
Query: 641 IVQANKFQDEIDELNLKAEKLERKRTTGIKN 733
I +++ E +EL K EKL + T IKN
Sbjct: 176 I----QYKKEYEELKEKIEKLSKSATESIKN 202
>sp|O83521|CLPX_TREPA ATP-dependent Clp protease ATP-binding subunit clpX
Length = 415
Score = 31.2 bits (69), Expect = 3.7
Identities = 35/121 (28%), Positives = 49/121 (40%), Gaps = 16/121 (13%)
Frame = +2
Query: 494 EYSNFSINDEQTMQKVLMSKQRFQKGPVNFAVRKA-------------ELTRLKLAAETD 634
E SN + K L++K QK V FA+ A E LKL +
Sbjct: 109 EKSNVLLIGPTGSGKTLLAKTLSQKMKVPFAIADATTLTEAGYVGEDVENILLKLVQNAN 168
Query: 635 GDIVQANK---FQDEIDELNLKAEKLERKRTTGIKNISYINQRNREITQNHVEKAIELEI 805
GD+ A + F DEID+++ K+E N+S + E Q + K IE I
Sbjct: 169 GDVALAERGIIFIDEIDKISRKSE-----------NVSITRDVSGEGVQQALLKIIEGTI 217
Query: 806 A 808
A
Sbjct: 218 A 218
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: 78,492,387
Number of Sequences: 369166
Number of extensions: 1419143
Number of successful extensions: 4638
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4497
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): 4633
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8052550455
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)