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_018_N04
(691 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P42527|KMHA_DICDI Myosin heavy chain kinase A (MHCK A) 36 0.11
sp|Q75G41|RMAR_ASHGO Mitochondrial ribosomal protein VAR1 36 0.11
sp|P25644|PAT1_YEAST Topoisomerase II-associated protein PAT1 34 0.32
sp|P27625|RPC1_PLAFA DNA-directed RNA polymerase III larges... 34 0.32
sp|Q660Q0|ACKA_BORGA Acetate kinase (Acetokinase) 33 0.71
sp|Q60299|Y3544_METJA Hypothetical protein MJECL44 33 0.71
sp|Q8K991|TIG_BUCAP Trigger factor (TF) 33 0.71
sp|Q9JIL8|RAD50_RAT DNA repair protein RAD50 33 0.71
sp|Q9XUA5|PME6_CAEEL Poly(ADP-ribose) polymerase pme-6 (Pol... 33 0.93
sp|Q6AXS3|DEK_RAT Protein DEK 32 1.2
>sp|P42527|KMHA_DICDI Myosin heavy chain kinase A (MHCK A)
Length = 1146
Score = 35.8 bits (81), Expect = 0.11
Identities = 39/161 (24%), Positives = 71/161 (44%), Gaps = 6/161 (3%)
Frame = -2
Query: 672 RKHHTEEIVFIKKSNSKIHDKYKINEKPRISKPISVSLVDMFNKETIQSFIAVNRNIIES 493
+K +++F K S + DK KI E ++ V + + + + +N
Sbjct: 286 KKSEQNQLLFDSKIES-LKDKIKIIETQQLDTSSEVRKLKLESTSSGNLMAGLN-GTSGR 343
Query: 492 PSLITHQIPNLHKAFLNNIPSST--PELCKIEAN-QMILSKENSNP---LNLFNLVLNDN 331
PS +H IP+ A NNI + E+ K+E Q + +E N L+ + DN
Sbjct: 344 PSSSSHFIPSSVSAAANNINKNEIMEEVKKVEEKLQKKIREEIDNTKAELSKVERSVKDN 403
Query: 330 SSQIANLQNNSSSILDMISDETSKSKDDIHKIYSYLKSIEN 208
S+I L+ + + D ++ + +DD+ K S L ++N
Sbjct: 404 RSEIEGLEKDCKNQFDKQDNKIKQVEDDLKKSDSLLLLMQN 444
>sp|Q75G41|RMAR_ASHGO Mitochondrial ribosomal protein VAR1
Length = 339
Score = 35.8 bits (81), Expect = 0.11
Identities = 34/140 (24%), Positives = 62/140 (44%), Gaps = 5/140 (3%)
Frame = -2
Query: 684 SLLNRKHHTEEIVFIKKSNSKIH-DKYKINEKPRISKPISVSLVDMFNKETIQSFIAVNR 508
+LLN +++ + K N K++ + YK+N ++ +S +L +++N
Sbjct: 142 NLLNNDNNSLNNLMTKYYNKKVYINTYKLNYMYLDTELLSQTLTNIYNN----------- 190
Query: 507 NIIESPSLITHQIPNLHKAFLNNIPSSTPELCKIEANQMILSKENSNPLNLFNLV----L 340
N + SL K +N +P + N M+LSK N +N +NL L
Sbjct: 191 NGLSLKSL---------KMIINKLPFN---------NDMLLSKNYVNKMNKYNLTINNNL 232
Query: 339 NDNSSQIANLQNNSSSILDM 280
N+N + NL + +LD+
Sbjct: 233 NNNKKDLINLYTLDNKLLDL 252
>sp|P25644|PAT1_YEAST Topoisomerase II-associated protein PAT1
Length = 796
Score = 34.3 bits (77), Expect = 0.32
Identities = 26/91 (28%), Positives = 42/91 (46%)
Frame = -2
Query: 621 IHDKYKINEKPRISKPISVSLVDMFNKETIQSFIAVNRNIIESPSLITHQIPNLHKAFLN 442
I YK KP +++ V L M + I SF++ N N IE L+ I N + +FL
Sbjct: 566 ILSSYKTTPKPTLTQLKKVDLFQMIILKIIVSFLSNNSNFIEIMGLLLQLIRNNNVSFLT 625
Query: 441 NIPSSTPELCKIEANQMILSKENSNPLNLFN 349
L I ++ L K++S+ N+ +
Sbjct: 626 TSKIGL-NLITILISRAALIKQDSSRSNILS 655
>sp|P27625|RPC1_PLAFA DNA-directed RNA polymerase III largest subunit
Length = 2339
Score = 34.3 bits (77), Expect = 0.32
Identities = 22/85 (25%), Positives = 49/85 (57%)
Frame = -2
Query: 447 LNNIPSSTPELCKIEANQMILSKENSNPLNLFNLVLNDNSSQIANLQNNSSSILDMISDE 268
+NNI ++ + ++N+ I+ +SN N+ N+N S + ++ NN+S++ ++ +++
Sbjct: 1071 MNNIYNNMNNINNNDSNRSIIYNNDSNMNNI-----NNNDSNMNSIHNNNSNMNNIHNND 1125
Query: 267 TSKSKDDIHKIYSYLKSIENLTRNI 193
+++S IH S + SI N N+
Sbjct: 1126 SNRS--IIHNNDSNMNSIHNNDSNM 1148
>sp|Q660Q0|ACKA_BORGA Acetate kinase (Acetokinase)
Length = 405
Score = 33.1 bits (74), Expect = 0.71
Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Frame = -2
Query: 363 LNLFNLVLNDNSSQIANLQNNSSSILDMISDETSKSKDDIHKI----YSYLKSIENLTRN 196
+NL + +LN N+ QI + N S IL IS++++ +D +KI Y ++E +T
Sbjct: 251 INLMSTILNKNTKQIEEILNKESGILG-ISEKSNDMRDIWNKIEEGEYQSKLAVEIMTYR 309
Query: 195 IPKQL--LKKILDIN 157
+ K + ILD N
Sbjct: 310 VKKYIGSYIAILDFN 324
>sp|Q60299|Y3544_METJA Hypothetical protein MJECL44
Length = 331
Score = 33.1 bits (74), Expect = 0.71
Identities = 32/161 (19%), Positives = 67/161 (41%), Gaps = 6/161 (3%)
Frame = -2
Query: 594 KPRISKPISVSLVDMFNKETIQSFIAVNRNIIESPSLITHQIPNLHKAFLNNIPSSTPEL 415
K I++ I ++ DM NK F + ++ + Q+ ++ K F + + +
Sbjct: 116 KVDINEDILINFEDMLNKIQFLKFEKYADGLFKT-YIYDDQLEDITKEFYDCFKNVISKK 174
Query: 414 CKIEANQMILSKENSNPLNLFNLVLNDNSSQIANLQNNSS------SILDMISDETSKSK 253
++ +I + + N+ N S+ +AN++ N + ILD I ++
Sbjct: 175 TPLDLFNLIYEEVLKEEVKKQNIPENQISNAVANIRGNPNFNNHYRKILDEI-----RTL 229
Query: 252 DDIHKIYSYLKSIENLTRNIPKQLLKKILDINTFSLYPSSI 130
+ + Y K IEN+ ++IP + + L P +I
Sbjct: 230 NTFEEFYEICKRIENIVKSIPNTSVSISIPGRNIQLNPYNI 270
>sp|Q8K991|TIG_BUCAP Trigger factor (TF)
Length = 442
Score = 33.1 bits (74), Expect = 0.71
Identities = 41/183 (22%), Positives = 78/183 (42%), Gaps = 5/183 (2%)
Frame = -2
Query: 678 LNRK---HHTEEIVFIKKSNSKIHDKYKINEKPRISKPISVSLVDMFNKETIQSFIAVNR 508
LN K H T +++F K + K H + ++ K K + + N E Q I + +
Sbjct: 200 LNNKLINHFTNDVIFFKINFCKFHPEEELQGKDITFK------IKILNVEEKQENIEIEK 253
Query: 507 NIIESPSLITHQIPNL-HKAFLNNIPSSTPELCKIE-ANQMILSKENSNPLNLFNLVLND 334
NI ++ +++ L ++ NNI L + NQ+I NP+N+ +L +
Sbjct: 254 NI---KTIKINKLSKLNYQTIKNNIIEKIKSLTQNHLQNQIIKQLIIKNPINIPPTLLRE 310
Query: 333 NSSQIANLQNNSSSILDMISDETSKSKDDIHKIYSYLKSIENLTRNIPKQLLKKILDINT 154
++ + N I + K ++ + K Y + TR K +++KI+ N
Sbjct: 311 ETNFLRN---------KFIKEYKEKQENILKKKYHTNLESKAKTRLHIKLIIEKIIRDNK 361
Query: 153 FSL 145
S+
Sbjct: 362 ISV 364
>sp|Q9JIL8|RAD50_RAT DNA repair protein RAD50
Length = 1312
Score = 33.1 bits (74), Expect = 0.71
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 20/131 (15%)
Frame = -2
Query: 540 ETIQSFIAVNRNIIESPSLITHQIPNLHKAFLNNIPSSTPELC-------KIEANQMILS 382
+T+ S I +NR +I+ QI +L K+ N + S ++ ++E + LS
Sbjct: 840 DTVSSKIELNRKLIQDQQ---EQIQHL-KSKTNELKSEKLQIATNLQRRQQMEEQTVELS 895
Query: 381 -------------KENSNPLNLFNLVLNDNSSQIANLQNNSSSILDMISDETSKSKDDIH 241
KE NPL + L ++ + +N S+ M D+ + K+ +
Sbjct: 896 TEVQSLNREIKDAKEQINPLEIALEKLQQEKEELIHRKNTSNK---MAQDKINDIKEKVK 952
Query: 240 KIYSYLKSIEN 208
I+ Y+K IEN
Sbjct: 953 NIHGYMKDIEN 963
>sp|Q9XUA5|PME6_CAEEL Poly(ADP-ribose) polymerase pme-6 (Poly ADP-ribose metabolism
enzyme 6)
Length = 737
Score = 32.7 bits (73), Expect = 0.93
Identities = 29/98 (29%), Positives = 45/98 (45%), Gaps = 14/98 (14%)
Frame = -2
Query: 411 KIEANQMILSKENSNPLNLFNLVLNDNSSQIANLQNNSSSILDMISD-----------ET 265
+I+ N+M L + + N +NL VLND S + L ++S ILD +
Sbjct: 396 EIDVNKMPLGRLSHNQINLAFEVLNDISDLLVKLPIDASKILDFSNKFYTIIPHNFGMRV 455
Query: 264 SKSKDDIHKIYSYLKSIENLTRNIPKQ---LLKKILDI 160
+ D HKI +ENL + K+ +L +LDI
Sbjct: 456 PEPIDSFHKI-----KVENLWKIKKKEKNNMLNALLDI 488
>sp|Q6AXS3|DEK_RAT Protein DEK
Length = 378
Score = 32.3 bits (72), Expect = 1.2
Identities = 34/144 (23%), Positives = 68/144 (47%), Gaps = 9/144 (6%)
Frame = -2
Query: 543 KETIQSFIAVNRNIIESPSLITHQIPNLHKAFLNNIPSSTPELCKIEANQMILSKENSNP 364
+E +S I + +T Q+ +L + +LC+IE LSK+ ++
Sbjct: 48 EEKEKSLIVEGKREKRKVERLTMQVSSLQREPFTIAQGKGQKLCEIERIHFFLSKKKTDE 107
Query: 363 LNLFNLVLNDNSSQIANLQNNSSSILDMISDETS---KSKDDIHKIY--SYLKSI---EN 208
L + +L + +++L+ N ++ S K K+++ K Y + LKSI +
Sbjct: 108 LRNLHKLLYNRPGTVSSLKKNVGQFSGFPFEKGSTQYKKKEEMLKKYRNAMLKSICEVLD 167
Query: 207 LTRN-IPKQLLKKILDINTFSLYP 139
L R+ + +L+K+IL+ F ++P
Sbjct: 168 LERSGVNSELVKRILN---FLMHP 188
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: 58,259,041
Number of Sequences: 369166
Number of extensions: 1009269
Number of successful extensions: 3596
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3371
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): 3574
length of database: 68,354,980
effective HSP length: 107
effective length of database: 48,588,335
effective search space used: 5927776870
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)