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= psy6093
(350 letters)
Database: pdbaa
65,211 sequences; 15,674,573 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 = 134 bits (337), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 96/318 (30%), Positives = 145/318 (45%), Gaps = 60/318 (18%)
Query: 31 RKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAG 90
RK+V++TNIAETS+TID IVYVVD G +K ++ + + +L IS A+A+QR GRAG
Sbjct: 370 RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAG 429
Query: 91 RVQEGVCYHLYSRAREQTFQ----DYPLPEIQRTRLDEVVRTLESKKFKMVSRRFKVMLN 146
R + G C+ LY+ E+ FQ + PEI R+ L V LE KK +
Sbjct: 430 RTRPGKCFRLYT---EEAFQKELIEQSYPEILRSNLSSTV--LELKKLGIDD-------- 476
Query: 147 TAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDALDDDEHLTPLGYHLAKLPLDPQIGKM 206
V +DPP P ++ +L+ L + LDD+ +LTPLG ++ PLDP + M
Sbjct: 477 -------LVHFDFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVM 529
Query: 207 LLMASIFSCVDPVFTVAASLGFKDAFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAF 266
L+ + F C + T+ A L + F P K
Sbjct: 530 LIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDK--------------------------- 562
Query: 267 YCPMNMEKDVDKQKNILAQGAKSDYVVLINAMQGWEQALEHNYA-HDYCRENFXXXXXXX 325
K D KNI A D++ L+N ++ + Y H +CR+++
Sbjct: 563 -------KRADDAKNIFAH-PDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLS 614
Query: 326 XXRDMKDQFSRTMHEMNF 343
+++ Q R M+ N
Sbjct: 615 AADNIRSQLERLMNRYNL 632
>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 = 134 bits (337), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 96/318 (30%), Positives = 145/318 (45%), Gaps = 60/318 (18%)
Query: 31 RKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAG 90
RK+V++TNIAETS+TID IVYVVD G +K ++ + + +L IS A+A+QR GRAG
Sbjct: 370 RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAG 429
Query: 91 RVQEGVCYHLYSRAREQTFQ----DYPLPEIQRTRLDEVVRTLESKKFKMVSRRFKVMLN 146
R + G C+ LY+ E+ FQ + PEI R+ L V LE KK +
Sbjct: 430 RTRPGKCFRLYT---EEAFQKELIEQSYPEILRSNLSSTV--LELKKLGIDD-------- 476
Query: 147 TAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDALDDDEHLTPLGYHLAKLPLDPQIGKM 206
V +DPP P ++ +L+ L + LDD+ +LTPLG ++ PLDP + M
Sbjct: 477 -------LVHFDFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVM 529
Query: 207 LLMASIFSCVDPVFTVAASLGFKDAFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAF 266
L+ + F C + T+ A L + F P K
Sbjct: 530 LIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDK--------------------------- 562
Query: 267 YCPMNMEKDVDKQKNILAQGAKSDYVVLINAMQGWEQALEHNYA-HDYCRENFXXXXXXX 325
K D KNI A D++ L+N ++ + Y H +CR+++
Sbjct: 563 -------KRADDAKNIFAH-PDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLS 614
Query: 326 XXRDMKDQFSRTMHEMNF 343
+++ Q R M+ N
Sbjct: 615 AADNIRSQLERLMNRYNL 632
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 39/177 (22%), Positives = 76/177 (42%), Gaps = 40/177 (22%)
Query: 171 SLKLLRLIDALDDDEHLTPLGYHLAKLPLDPQIGKMLLMASIFSCVDPVFTVAASLGFKD 230
+++ L + ALDD+ LT LG +A+ PL+P + KML+M+ C + + T+ + L ++
Sbjct: 23 AMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSMLSVQN 82
Query: 231 AFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAFYCPMNMEKDVDKQKNILAQGAKSD 290
FY P KD ++ + QK + D
Sbjct: 83 VFYRP---------------------------KD--------KQALADQKKAKFHQTEGD 107
Query: 291 YVVLINAMQGWEQALEHNYAHDYCRENFXXXXXXXXXRDMKDQFSRTM--HEMNFIS 345
++ L+ W+ + +++ +C ENF +D++ Q M H+++ +S
Sbjct: 108 HLTLLAVYNSWKN---NKFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVS 161
>pdb|2V8O|A Chain A, Structure Of The Murray Valley Encephalitis Virus Rna
Helicase To 1.9a Resolution
Length = 444
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 34 VLATNIAETSITIDDIVYVVDCGKT-KMSNFDVKDNIATLK-PEWISLANAKQRRGRAGR 91
V+ T+I+E V+DC K+ K + D + L P I+ A+A QRRGR GR
Sbjct: 231 VITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVGR 289
Query: 92 --VQEGVCYH 99
Q G YH
Sbjct: 290 NPSQIGDEYH 299
>pdb|2WV9|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Murray
Valley Encephalitis Virus
Length = 673
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 34 VLATNIAETSITIDDIVYVVDCGKT-KMSNFDVKDNIATLK-PEWISLANAKQRRGRAGR 91
V+ T+I+E V+DC K+ K + D + L P I+ A+A QRRGR GR
Sbjct: 460 VITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVGR 518
Query: 92 --VQEGVCYHLYSRARE 106
Q G YH E
Sbjct: 519 NPSQIGDEYHYGGGTSE 535
>pdb|3R9L|A Chain A, Crystal Structure Of Nucleoside Diphosphate Kinase From
Giardia Lamblia Featuring A Disordered Dinucleotide
Binding Site
Length = 155
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 102 SRAREQTFQDYPLPEIQRTRLDEVVRTLESKKFKMVSRRFKV 143
S ARE+TF +QR + E++ E + FK+V+ +F V
Sbjct: 4 SMARERTFLMVKPDGVQRGLVGEIISRFERRGFKLVAMKFFV 45
>pdb|2VPJ|A Chain A, Crystal Structure Of The Kelch Domain Of Human Klhl12
Length = 301
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 43 SITIDDIVYVVDC--GKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGRVQEG 95
S+++ D +YV+ G++++S+ + D A W S+A RRG AG G
Sbjct: 58 SVSLHDRIYVIGGYDGRSRLSSVECLDYTADEDGVWYSVAPMNVRRGLAGATTLG 112
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 8/54 (14%)
Query: 163 PDPASVQLSLKLLRLIDALDDDEHLTPLGYHLAKLPLDPQIGKMLLMASIFSCV 216
PDPA L L D + LT +A LP ++GKML + +FSCV
Sbjct: 188 PDPAE-------LEEFRELADKDPLTTFARAIAPLPGAEEVGKMLAL-QLFSCV 233
Database: pdbaa
Posted date: Jul 29, 2013 4:35 PM
Number of letters in database: 15,674,573
Number of sequences in database: 65,211
Lambda K H
0.324 0.137 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,873,342
Number of Sequences: 65211
Number of extensions: 367719
Number of successful extensions: 1044
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1033
Number of HSP's gapped (non-prelim): 15
length of query: 350
length of database: 15,674,573
effective HSP length: 100
effective length of query: 250
effective length of database: 9,153,473
effective search space: 2288368250
effective search space used: 2288368250
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)