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= 008221
(573 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 = 682 bits (1759), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 337/532 (63%), Positives = 414/532 (77%), Gaps = 16/532 (3%)
Query: 43 INRWNGKPYSQRYYEILEKRKSLPVWQQKEEFLQVLKANQVIILVGETGSGKTTQIPQFV 102
IN + G+ ++ +Y +IL+ R+ LPV Q++EFL++ + NQ+++ VGETGSGKTTQIPQFV
Sbjct: 71 INPFTGREFTPKYVDILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFV 130
Query: 103 LEGVDIETPDRRRKMMIACTQPXXXXXXXXXXXXXEEMDVTIGEEVGYSIRFEDCSSART 162
L E P +ACTQP EEMDV +GEEVGYSIRFE+ +S +T
Sbjct: 131 LFD---EMP-HLENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKT 186
Query: 163 VLKYLTDGMLLREAMTDPLLERYKVIVLDEAHERTLATDVLFGLLKEVLKNRPDLKLVVM 222
+LKY+TDGMLLREAM D L RY I+LDEAHERTLATD+L GLLK+V+K RPDLK+++M
Sbjct: 187 ILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIM 246
Query: 223 SATLEAEKFQGYFYGAPLMKVPGRLHPVEIFYTQEPERDYLEAAIRTVVQIHMCEPSGDI 282
SATL+AEKFQ YF APL+ VPGR +PVE++YT E +RDYL++AIRTV+QIH E +GDI
Sbjct: 247 SATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDI 306
Query: 283 LVFLTGEEEIEDACRKITKEITNMGDQV------GPVKVVPLYSTLPPAMQQKIFEXXXX 336
L+FLTGE+EIEDA RKI+ E GDQ+ GP+ V PLY +LPP QQ+IFE
Sbjct: 307 LLFLTGEDEIEDAVRKISLE----GDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPE 362
Query: 337 XXXXXXXXXRKIVVSTNIAETSLTIDGIVYVIDPGFAKQKVYNPRVRVESLLVSPISKAS 396
RK+V+STNIAETSLTIDGIVYV+DPGF+KQKVYNPR+RVESLLVSPISKAS
Sbjct: 363 SHNGRPG--RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKAS 420
Query: 397 AHQRSGRAGRTQPGKCFRLYTEKSFNNDLQPQTYPEILRSNLANTVLTLKKLGIDDLVHF 456
A QR+GRAGRT+PGKCFRLYTE++F +L Q+YPEILRSNL++TVL LKKLGIDDLVHF
Sbjct: 421 AQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHF 480
Query: 457 DFMDPPAPETLMRALEVLNYLGALDDDGNLTEMGEKMSEFPLDPQMSKMLVESPKYNCSN 516
DFMDPPAPET+MRALE LNYL LDD+GNLT +G S+FPLDP ++ ML+ S ++ CS
Sbjct: 481 DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQ 540
Query: 517 EILSISAMLSVPNCFVRPREAQKAADEAKARFGHIDGDHLTLLNVYHAYKQN 568
EIL+I AMLSVPN F+RP + +K AD+AK F H DGDH+TLLNVYHA+K +
Sbjct: 541 EILTIVAMLSVPNVFIRPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSD 592
>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 = 682 bits (1759), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 337/532 (63%), Positives = 414/532 (77%), Gaps = 16/532 (3%)
Query: 43 INRWNGKPYSQRYYEILEKRKSLPVWQQKEEFLQVLKANQVIILVGETGSGKTTQIPQFV 102
IN + G+ ++ +Y +IL+ R+ LPV Q++EFL++ + NQ+++ VGETGSGKTTQIPQFV
Sbjct: 71 INPFTGREFTPKYVDILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFV 130
Query: 103 LEGVDIETPDRRRKMMIACTQPXXXXXXXXXXXXXEEMDVTIGEEVGYSIRFEDCSSART 162
L E P +ACTQP EEMDV +GEEVGYSIRFE+ +S +T
Sbjct: 131 LFD---EMP-HLENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKT 186
Query: 163 VLKYLTDGMLLREAMTDPLLERYKVIVLDEAHERTLATDVLFGLLKEVLKNRPDLKLVVM 222
+LKY+TDGMLLREAM D L RY I+LDEAHERTLATD+L GLLK+V+K RPDLK+++M
Sbjct: 187 ILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIM 246
Query: 223 SATLEAEKFQGYFYGAPLMKVPGRLHPVEIFYTQEPERDYLEAAIRTVVQIHMCEPSGDI 282
SATL+AEKFQ YF APL+ VPGR +PVE++YT E +RDYL++AIRTV+QIH E +GDI
Sbjct: 247 SATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDI 306
Query: 283 LVFLTGEEEIEDACRKITKEITNMGDQV------GPVKVVPLYSTLPPAMQQKIFEXXXX 336
L+FLTGE+EIEDA RKI+ E GDQ+ GP+ V PLY +LPP QQ+IFE
Sbjct: 307 LLFLTGEDEIEDAVRKISLE----GDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPE 362
Query: 337 XXXXXXXXXRKIVVSTNIAETSLTIDGIVYVIDPGFAKQKVYNPRVRVESLLVSPISKAS 396
RK+V+STNIAETSLTIDGIVYV+DPGF+KQKVYNPR+RVESLLVSPISKAS
Sbjct: 363 SHNGRPG--RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKAS 420
Query: 397 AHQRSGRAGRTQPGKCFRLYTEKSFNNDLQPQTYPEILRSNLANTVLTLKKLGIDDLVHF 456
A QR+GRAGRT+PGKCFRLYTE++F +L Q+YPEILRSNL++TVL LKKLGIDDLVHF
Sbjct: 421 AQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHF 480
Query: 457 DFMDPPAPETLMRALEVLNYLGALDDDGNLTEMGEKMSEFPLDPQMSKMLVESPKYNCSN 516
DFMDPPAPET+MRALE LNYL LDD+GNLT +G S+FPLDP ++ ML+ S ++ CS
Sbjct: 481 DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQ 540
Query: 517 EILSISAMLSVPNCFVRPREAQKAADEAKARFGHIDGDHLTLLNVYHAYKQN 568
EIL+I AMLSVPN F+RP + +K AD+AK F H DGDH+TLLNVYHA+K +
Sbjct: 541 EILTIVAMLSVPNVFIRPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSD 592
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 56/104 (53%), Positives = 76/104 (73%)
Query: 465 ETLMRALEVLNYLGALDDDGNLTEMGEKMSEFPLDPQMSKMLVESPKYNCSNEILSISAM 524
ETL+ A+E L LGALDD+G LT +G +M+EFPL+P + KML+ S CS E+L+I +M
Sbjct: 18 ETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSM 77
Query: 525 LSVPNCFVRPREAQKAADEAKARFGHIDGDHLTLLNVYHAYKQN 568
LSV N F RP++ Q AD+ KA+F +GDHLTLL VY+++K N
Sbjct: 78 LSVQNVFYRPKDKQALADQKKAKFHQTEGDHLTLLAVYNSWKNN 121
>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 = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 63/187 (33%), Positives = 104/187 (55%), Gaps = 5/187 (2%)
Query: 58 ILEKRKSLPVWQQKEEFLQVLKANQVIILVGETGSGKTTQIPQFVLEGVDIETPDRRRKM 117
IL++R+ LPV + + E L+ + N V+I+ G TG GKTTQ+PQF+L+ D DR +
Sbjct: 53 ILQERELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILD--DFIQNDRAAEC 110
Query: 118 MIACTQPXXXXXXXXXXXXXEEMDVTIGEEVGYSIRFEDC-SSARTVLKYLTDGMLLREA 176
I TQP E G+ GYS+RFE + + T G+LLR+
Sbjct: 111 NIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHASIXFCTVGVLLRK- 169
Query: 177 MTDPLLERYKVIVLDEAHERTLATDVLFGLLKEVLKNRPDLKLVVMSATLEAEKFQGYFY 236
+ + +++DE HER + TD L +L++V++ P++++V+ SAT++ F YF+
Sbjct: 170 -LEAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYPEVRIVLXSATIDTSXFCEYFF 228
Query: 237 GAPLMKV 243
P+++V
Sbjct: 229 NCPIIEV 235
>pdb|3FPZ|A Chain A, Saccharomyces Cerevisiae Thi4p Is A Suicide Thiamin
Thiazole Synthase
pdb|3FPZ|B Chain B, Saccharomyces Cerevisiae Thi4p Is A Suicide Thiamin
Thiazole Synthase
Length = 326
Score = 32.3 bits (72), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 210 VLKNRPDLKLVVMSATLE---AEKFQGYFYGAPLMKVPGRLHPVEIFYTQEPERDYL 263
+ KNRPDLK+ ++ +++ G + A +M+ P L E+ E E DY+
Sbjct: 84 IAKNRPDLKVCIIESSVAPGGGSWLGGQLFSAMVMRKPAHLFLQELEIPYEDEGDYV 140
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 70 QKEEFLQVLKANQVIILVGETGSGKTTQIPQFVLEGVDIETPDRRRKMMIACTQP 124
QKE L L ++ I+ G G+GKTT + + +L+ V ++ + + C P
Sbjct: 194 QKEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAV-------KQGLKVLCCAP 241
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 70 QKEEFLQVLKANQVIILVGETGSGKTTQIPQFVLEGVDIETPDRRRKMMIACTQP 124
QKE L L ++ I+ G G+GKTT + + +L+ V ++ + + C P
Sbjct: 194 QKEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAV-------KQGLKVLCCAP 241
>pdb|3M1T|A Chain A, Crystal Structure Of Putative Phosphohydrolase
(Yp_929327.1) From Shewanella Amazonensis Sb2b At 1.62 A
Resolution
Length = 275
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 461 PPAPETLMRALEVLNYLGALDDDGNLTEMGEKMSEFPLDPQMSKMLVESPKYNCSNEILS 520
P P+ + L+V+N ++D + + EK+S P+ L S ++ CS E+ +
Sbjct: 15 PRLPKAIAELLDVVN-----NEDSTVKAVSEKLSHDPVLSARVLRLANSARFGCSREVGT 69
Query: 521 I 521
I
Sbjct: 70 I 70
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 76 QVLKANQVIILVGETGSGKTT 96
+ ++ +VI++ GETGSGKTT
Sbjct: 170 RAVQLERVIVVAGETGSGKTT 190
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
0.318 0.135 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,720,674
Number of Sequences: 62578
Number of extensions: 617342
Number of successful extensions: 2176
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2152
Number of HSP's gapped (non-prelim): 21
length of query: 573
length of database: 14,973,337
effective HSP length: 104
effective length of query: 469
effective length of database: 8,465,225
effective search space: 3970190525
effective search space used: 3970190525
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)