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_025_D07
(844 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P0A0C7|pre2_STAAU Plasmid recombination enzyme (Mobiliza... 36 0.15
sp|P30319|DPOL_CBEPV DNA polymerase 34 0.58
sp|P62134|RAD50_METMP DNA double-strand break repair rad50 ... 34 0.58
sp|P40750|PBPD_BACSU Penicillin-binding protein 4 precursor... 32 1.7
sp|Q20060|SMC4_CAEEL Structural maintenance of chromosome 4... 32 1.7
sp|P47729|DPO3_MYCPU DNA polymerase III polC-type (PolIII) 32 2.9
sp|Q58718|RAD50_METJA DNA double-strand break repair rad50 ... 32 2.9
sp|Q00799|RBP2_PLAVB Reticulocyte binding protein 2 precurs... 31 3.7
sp|Q9Z1N5|UAP56_MOUSE Spliceosome RNA helicase Bat1 (DEAD-b... 31 4.9
sp|Q13838|UAP56_HUMAN Spliceosome RNA helicase BAT1 (DEAD-b... 31 4.9
>sp|P0A0C7|pre2_STAAU Plasmid recombination enzyme (Mobilization protein)
sp|P0A0C6|pre2_STAAN Plasmid recombination enzyme (Mobilization protein)
sp|P0A0C5|pre2_STAAM Plasmid recombination enzyme (Mobilization protein)
Length = 420
Score = 35.8 bits (81), Expect = 0.15
Identities = 19/54 (35%), Positives = 32/54 (59%)
Frame = +3
Query: 474 ISQKHREVTNYYDGIIERFIKEQNNMNELVKIFNDWKIKCEKNISELPKDIDKI 635
+S++H +V Y G++ERF + N+ NEL++ K K IS+L +D+ I
Sbjct: 302 LSKEHGQVKEKYSGLVERFNENVNDYNELLEENKSLKSK----ISDLKRDVSLI 351
>sp|P30319|DPOL_CBEPV DNA polymerase
Length = 964
Score = 33.9 bits (76), Expect = 0.58
Identities = 15/60 (25%), Positives = 31/60 (51%)
Frame = +3
Query: 75 IDNSCIMMTIEQMNRYFRENITLQEIIEQYKNVVMLKFRNFSNEIKSIFQNQHDKNEIYS 254
I + + TI+ + Y N T+Q++ + N +M F+N I+++ N+ K+ Y+
Sbjct: 849 IHKTILKNTIDILKEYLTNNCTIQDVNNKINNYLMFTFKNIIENIQNLDINEFKKSVKYT 908
>sp|P62134|RAD50_METMP DNA double-strand break repair rad50 ATPase
Length = 993
Score = 33.9 bits (76), Expect = 0.58
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Frame = +3
Query: 402 NEKKLAENINDELKECL-NSHIEILISQKHREVTNYYD---GIIERFIKEQNNMNELVKI 569
NEKK EN+ DELK + N EI + ++ + + N GI+E ++K + ++
Sbjct: 652 NEKKSLENLKDELKNTIYNLEREINLKKELKNIQNDISSKIGIVECYVKWETEKSDFENK 711
Query: 570 FNDWKIKCEKNISEL 614
++ K EK + L
Sbjct: 712 LSECKENYEKYMESL 726
>sp|P40750|PBPD_BACSU Penicillin-binding protein 4 precursor (PBP 4)
Length = 624
Score = 32.3 bits (72), Expect = 1.7
Identities = 20/70 (28%), Positives = 34/70 (48%)
Frame = +3
Query: 33 KHMNGLDGQLKQIFIDNSCIMMTIEQMNRYFRENITLQEIIEQYKNVVMLKFRNFSNEIK 212
K M LD Q+ ID I + ++ Y R+ + EI+ ++N V++ F E+K
Sbjct: 32 KQMKSLD-QVLDKNIDLKDISL-VQNSYMYDRDGSLVSEIVSDHENRVLVPFNKIPEEVK 89
Query: 213 SIFQNQHDKN 242
IF D++
Sbjct: 90 QIFLTSEDRH 99
>sp|Q20060|SMC4_CAEEL Structural maintenance of chromosome 4 (Protein smc-4)
Length = 1549
Score = 32.3 bits (72), Expect = 1.7
Identities = 20/71 (28%), Positives = 37/71 (52%)
Frame = +3
Query: 405 EKKLAENINDELKECLNSHIEILISQKHREVTNYYDGIIERFIKEQNNMNELVKIFNDWK 584
E ++A ++LK+ NS + LI K R + E + KE++ +++L F+ W
Sbjct: 504 EARIAREDFEDLKKLANSGTDKLIELKKR-----LESSEESYAKEKDELDKLKPEFDSWN 558
Query: 585 IKCEKNISELP 617
K ++ +ELP
Sbjct: 559 DKLKQLSTELP 569
>sp|P47729|DPO3_MYCPU DNA polymerase III polC-type (PolIII)
Length = 1435
Score = 31.6 bits (70), Expect = 2.9
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 4/87 (4%)
Frame = +3
Query: 387 IPEDNNEKKLAENINDELKECLNSHIEILISQKHREVTNYYDGIIERFIKEQNNMNELVK 566
IPE K+A +DE K + I+ L + K + ++Y +K +N +N+LVK
Sbjct: 16 IPEYLKNTKIANPYHDEEKSFFSCEIDFLETPKFEDFKSFY-------LKTKNFLNQLVK 68
Query: 567 ----IFNDWKIKCEKNISELPKDIDKI 635
+F I EK SE+ K +D I
Sbjct: 69 EQKLLFKIENIFYEK--SEIKKYLDWI 93
>sp|Q58718|RAD50_METJA DNA double-strand break repair rad50 ATPase
Length = 1005
Score = 31.6 bits (70), Expect = 2.9
Identities = 40/180 (22%), Positives = 75/180 (41%), Gaps = 4/180 (2%)
Frame = +3
Query: 105 EQMNRYFRENITLQEIIEQYKNVVMLKFRNFSNEIKSIFQNQHDKNEIYSQLRLLFKVAP 284
E+ Y+ + + L+E +Y N + L++ E KSI +N N++ +++ L +
Sbjct: 388 EECKEYYEKYLELEEKAVEY-NKLTLEYITLLQEKKSIEKNI---NDLETRINKLLEETK 443
Query: 285 PVLLAAGTALMKINPXXXXXXXXXXXXXXXXDSSIPEDNNEKKLAENINDELKE----CL 452
+ + + +K + + E N+E K + I DELKE C
Sbjct: 444 NIDIESIENSLKEIEEKKKVLENLQKEKIELNKKLGEINSEIKRLKKILDELKEVEGKCP 503
Query: 453 NSHIEILISQKHREVTNYYDGIIERFIKEQNNMNELVKIFNDWKIKCEKNISELPKDIDK 632
I K E+ N + + E +N+ ++ + EK+I +L K+IDK
Sbjct: 504 LCKTPI-DENKKMELINQHKTQLNNKYTELEEINKKIR-------EIEKDIEKLKKEIDK 555
>sp|Q00799|RBP2_PLAVB Reticulocyte binding protein 2 precursor (PvRBP-2)
Length = 2867
Score = 31.2 bits (69), Expect = 3.7
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Frame = +3
Query: 84 SCIMMTIEQMNRYFRENITLQEIIEQYKNVVMLKFRNFSNEIKSIFQ--NQHDKNEIYSQ 257
S IM +E +NR F EN+ +E + Q +N N+ NEI SIF N D +E ++
Sbjct: 2471 SDIMKRVEDLNRRFTENLPEKEKLHQIEN-------NY-NEISSIFSEINLQDVDEFVAK 2522
Query: 258 L 260
+
Sbjct: 2523 I 2523
>sp|Q9Z1N5|UAP56_MOUSE Spliceosome RNA helicase Bat1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein) (HLA-B associated transcript
1)
sp|Q63413|UAP56_RAT Spliceosome RNA helicase Bat1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein) (ATP-dependent RNA helicase
p47)
Length = 428
Score = 30.8 bits (68), Expect = 4.9
Identities = 16/39 (41%), Positives = 24/39 (61%)
Frame = +3
Query: 513 GIIERFIKEQNNMNELVKIFNDWKIKCEKNISELPKDID 629
G+ F+ ++N+ KI ND + + E NISELP +ID
Sbjct: 385 GLAITFVSDEND----AKILNDVQDRFEVNISELPDEID 419
>sp|Q13838|UAP56_HUMAN Spliceosome RNA helicase BAT1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein) (ATP-dependent RNA helicase
p47) (HLA-B associated transcript-1)
sp|Q29024|UAP56_PIG Spliceosome RNA helicase BAT1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein)
sp|P60024|UAP56_PANTR Spliceosome RNA helicase BAT1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein)
sp|Q5TM17|UAP56_MACMU Spliceosome RNA helicase BAT1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein)
sp|Q5RE47|UAP56_PONPY Spliceosome RNA helicase BAT1 (DEAD-box protein UAP56) (56 kDa
U2AF65 associated protein)
Length = 428
Score = 30.8 bits (68), Expect = 4.9
Identities = 16/39 (41%), Positives = 24/39 (61%)
Frame = +3
Query: 513 GIIERFIKEQNNMNELVKIFNDWKIKCEKNISELPKDID 629
G+ F+ ++N+ KI ND + + E NISELP +ID
Sbjct: 385 GLAITFVSDEND----AKILNDVQDRFEVNISELPDEID 419
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: 76,667,908
Number of Sequences: 369166
Number of extensions: 1358209
Number of successful extensions: 4168
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3983
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): 4146
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8245425915
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)