BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 047202
(735 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 130 bits (327), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 119/496 (23%), Positives = 211/496 (42%), Gaps = 71/496 (14%)
Query: 168 LNEDVIDYDLLEDLVCHVDETCGEGAILVFLPGVAEIHILLDRLAAS----YRFGGPSSD 223
D +D + L H E G+ IL+FL G EI + +++ R G
Sbjct: 282 FQRDYLDSAIRTVLQIHATEEAGD--ILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPL 339
Query: 224 WLLALHSSVASVDQKKVFLRPPEKI-----RKVIIATNIAETSITIDDVVYVFDCGRHKE 278
+ L+ S+ Q+++F PE RKV+I+TNIAETS+TID +VYV D G K+
Sbjct: 340 SVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQ 399
Query: 279 NRYNSQKKLSSMVEDWISXXXXXXXXXXXXXVKPGICYSLYTRHRYEKLMRPYQVPEMQR 338
YN + ++ S++ IS +PG C+ LYT ++K + PE+ R
Sbjct: 400 KVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILR 459
Query: 339 MPLVELCLQIKLLSLGRIKIFLSKALEPPKEEAITTAISVLYEVGAIEGDEELTPLGHHL 398
L L++K L + + F ++PP E + A+ L + ++ + LTPLG
Sbjct: 460 SNLSSTVLELKKLGIDDLVHF--DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLA 517
Query: 399 AKLPVDVLIGKMMLFGGIFGCLSPILSISAFLSYKSPFIYPKDEKQNVERAKLALLTDKL 458
++ P+D ++ M++ F C IL+I A LS + FI P +K+ + AK
Sbjct: 518 SQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKRADDAKNIF----- 572
Query: 459 EGLSDSNDSSTQSDHLVLMVAYKKWQKILLKRGTKAAQQFCSKYFLSSSVMYMIRDMRIQ 518
+ DH+ L+ Y ++ + ++C ++L+ + ++R Q
Sbjct: 573 --------AHPDGDHITLLNVYHAFKSD--EAYEYGIHKWCRDHYLNYRSLSAADNIRSQ 622
Query: 519 FGTLLADIGLINLPNKNQTGGKKKDDLDSWFSDESQMFNMYANHSSIVKAILCAGLYPNV 578
L+ L +L++ + + F+ ++ L +G + V
Sbjct: 623 LERLMNRYNL---------------ELNTTDYESPKYFDN-------IRKALASGFFMQV 660
Query: 579 AATEQGVAGAALSNLRKSSNSAAKAHPVWYDGRREVHIHPSSINSQLKSFEHPFLVFLEK 638
A G G + ++V IHPS++ + ++++ E
Sbjct: 661 AKKRSGAKGY-----------------ITVKDNQDVLIHPSTVLGH----DAEWVIYNEF 699
Query: 639 VETNKVFLRDTTIVSP 654
V T+K ++R T V P
Sbjct: 700 VLTSKNYIRTVTSVRP 715
Score = 75.9 bits (185), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 69/114 (60%), Gaps = 12/114 (10%)
Query: 9 DKNLTGVTHVIVDEVHERSLLGDFLLIVLKDLLEKQSAHDTPKLKVILMSATVDSNLFSR 68
D +L+ + +I+DE HER+L D L+ +LK +++++ P LK+I+MSAT+D+ F R
Sbjct: 203 DHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRR-----PDLKIIIMSATLDAEKFQR 257
Query: 69 YFGDCPVITAEGRTHPVTTYFLEDVYESINYRLALDSA--AAIRYEASSKSGPV 120
YF D P++ GRT+PV Y+ + R LDSA ++ A+ ++G +
Sbjct: 258 YFNDAPLLAVPGRTYPVELYYTPEF-----QRDYLDSAIRTVLQIHATEEAGDI 306
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 130 bits (327), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 119/496 (23%), Positives = 211/496 (42%), Gaps = 71/496 (14%)
Query: 168 LNEDVIDYDLLEDLVCHVDETCGEGAILVFLPGVAEIHILLDRLAAS----YRFGGPSSD 223
D +D + L H E G+ IL+FL G EI + +++ R G
Sbjct: 282 FQRDYLDSAIRTVLQIHATEEAGD--ILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPL 339
Query: 224 WLLALHSSVASVDQKKVFLRPPEKI-----RKVIIATNIAETSITIDDVVYVFDCGRHKE 278
+ L+ S+ Q+++F PE RKV+I+TNIAETS+TID +VYV D G K+
Sbjct: 340 SVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQ 399
Query: 279 NRYNSQKKLSSMVEDWISXXXXXXXXXXXXXVKPGICYSLYTRHRYEKLMRPYQVPEMQR 338
YN + ++ S++ IS +PG C+ LYT ++K + PE+ R
Sbjct: 400 KVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILR 459
Query: 339 MPLVELCLQIKLLSLGRIKIFLSKALEPPKEEAITTAISVLYEVGAIEGDEELTPLGHHL 398
L L++K L + + F ++PP E + A+ L + ++ + LTPLG
Sbjct: 460 SNLSSTVLELKKLGIDDLVHF--DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLA 517
Query: 399 AKLPVDVLIGKMMLFGGIFGCLSPILSISAFLSYKSPFIYPKDEKQNVERAKLALLTDKL 458
++ P+D ++ M++ F C IL+I A LS + FI P +K+ + AK
Sbjct: 518 SQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKRADDAKNIF----- 572
Query: 459 EGLSDSNDSSTQSDHLVLMVAYKKWQKILLKRGTKAAQQFCSKYFLSSSVMYMIRDMRIQ 518
+ DH+ L+ Y ++ + ++C ++L+ + ++R Q
Sbjct: 573 --------AHPDGDHITLLNVYHAFKSD--EAYEYGIHKWCRDHYLNYRSLSAADNIRSQ 622
Query: 519 FGTLLADIGLINLPNKNQTGGKKKDDLDSWFSDESQMFNMYANHSSIVKAILCAGLYPNV 578
L+ L +L++ + + F+ ++ L +G + V
Sbjct: 623 LERLMNRYNL---------------ELNTTDYESPKYFDN-------IRKALASGFFMQV 660
Query: 579 AATEQGVAGAALSNLRKSSNSAAKAHPVWYDGRREVHIHPSSINSQLKSFEHPFLVFLEK 638
A G G + ++V IHPS++ + ++++ E
Sbjct: 661 AKKRSGAKGY-----------------ITVKDNQDVLIHPSTVLGH----DAEWVIYNEF 699
Query: 639 VETNKVFLRDTTIVSP 654
V T+K ++R T V P
Sbjct: 700 VLTSKNYIRTVTSVRP 715
Score = 75.9 bits (185), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 69/114 (60%), Gaps = 12/114 (10%)
Query: 9 DKNLTGVTHVIVDEVHERSLLGDFLLIVLKDLLEKQSAHDTPKLKVILMSATVDSNLFSR 68
D +L+ + +I+DE HER+L D L+ +LK +++++ P LK+I+MSAT+D+ F R
Sbjct: 203 DHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRR-----PDLKIIIMSATLDAEKFQR 257
Query: 69 YFGDCPVITAEGRTHPVTTYFLEDVYESINYRLALDSA--AAIRYEASSKSGPV 120
YF D P++ GRT+PV Y+ + R LDSA ++ A+ ++G +
Sbjct: 258 YFNDAPLLAVPGRTYPVELYYTPEF-----QRDYLDSAIRTVLQIHATEEAGDI 306
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 75.5 bits (184), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 66/293 (22%), Positives = 128/293 (43%), Gaps = 68/293 (23%)
Query: 370 EAITTAISVLYEVGAIEGDEELTPLGHHLAKLPVDVLIGKMMLFGGIFGCLSPILSISAF 429
E + TA+ LY +GA++ + LT LG +A+ P++ ++ KM++ GC +L+I +
Sbjct: 18 ETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSM 77
Query: 430 LSYKSPFIYPKDEKQNVERAKLALLTDKLEGLSDSNDSSTQSDHLVLMVAYKKWQKILLK 489
LS ++ F PKD++ ++ K T+ DHL L+ Y W
Sbjct: 78 LSVQNVFYRPKDKQALADQKKAKF-------------HQTEGDHLTLLAVYNSW------ 118
Query: 490 RGTKAAQQFCSKYFLSSSVMYMIRDMRIQFGTLLADIGLINLPNKNQTGGKKKDDLDSWF 549
+ K + +C + F+ + + +D+R Q +G+++ + K D+ S
Sbjct: 119 KNNKFSNPWCYENFIQARSLRRAQDIRKQM------LGIMD---------RHKLDVVS-- 161
Query: 550 SDESQMFNMYANHSSI-VKAILCAGLYPNVAATEQGVAGAALSNLRKSSNSAAKAHPVWY 608
S++ V+ +C+G + N A + L +
Sbjct: 162 ----------CGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLID---------------- 195
Query: 609 DGRREVHIHPSSINSQLKSFEHPFLVFLEKVETNKVFLRDTTIVSPFSILLFG 661
++ V+IHPSS L + + ++V+ E V T K ++R+ T + P ++ F
Sbjct: 196 --QQVVYIHPSSA---LFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFA 243
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 70.9 bits (172), Expect = 2e-12, Method: Composition-based stats.
Identities = 29/68 (42%), Positives = 50/68 (73%), Gaps = 5/68 (7%)
Query: 9 DKNLTGVTHVIVDEVHERSLLGDFLLIVLKDLLEKQSAHDTPKLKVILMSATVDSNLFSR 68
+ + G++HVIVDE+HER + DFLL+VL+D+++ P+++++L SAT+D++ F
Sbjct: 171 EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAY-----PEVRIVLXSATIDTSXFCE 225
Query: 69 YFGDCPVI 76
YF +CP+I
Sbjct: 226 YFFNCPII 233
>pdb|2Y7A|A Chain A, Crystal Structure Of Unliganded Gtb P156l
pdb|2Y7A|B Chain B, Crystal Structure Of Unliganded Gtb P156l
pdb|2Y7A|C Chain C, Crystal Structure Of Unliganded Gtb P156l
pdb|2Y7A|D Chain D, Crystal Structure Of Unliganded Gtb P156l
Length = 298
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/98 (20%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 423 ILSISAFLSYKSPFIYPKDEKQNV-ERAKLALLTDKLEGLSDSNDSSTQSDHLVLMVAYK 481
+ +I ++++ F+ ++ V R + TD+L + + + ++ + AYK
Sbjct: 64 VFAIKKYVAFLKLFLETAEKHFMVGHRVHYYVFTDQLAAVPRVTLGTGRQLSVLEVGAYK 123
Query: 482 KWQKILLKRGTKAAQQFCSKYFLSSSVMYMIRDMRIQF 519
+WQ + ++R + FC + FLS + D+ ++F
Sbjct: 124 RWQDVSMRR-MEMISDFCERRFLSEVDYLVCVDVDMEF 160
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,127,928
Number of Sequences: 62578
Number of extensions: 775559
Number of successful extensions: 1762
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1750
Number of HSP's gapped (non-prelim): 7
length of query: 735
length of database: 14,973,337
effective HSP length: 106
effective length of query: 629
effective length of database: 8,340,069
effective search space: 5245903401
effective search space used: 5245903401
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)