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= psy654
(224 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CQA|A Chain A, Solution Structure Of Rsgi Ruh-039, A Fragment Of C-
Terminal Domain Of Ruvb-Like 2 From Human Cdna
Length = 95
Score = 118 bits (296), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 58/74 (78%), Positives = 67/74 (90%)
Query: 27 QIERPATGLGSKVGKLTMKTTEMETSYDLGAKMIEAIGKEKVQAGDVITIDKATGKITRL 86
QI+RPATG GSKVGKLT+KTTEMET YDLG KMIE++ K+KVQAGDVITIDKATGKI++L
Sbjct: 22 QIDRPATGTGSKVGKLTLKTTEMETIYDLGTKMIESLTKDKVQAGDVITIDKATGKISKL 81
Query: 87 GRSFTRARDYDATG 100
GRSFTRAR ++G
Sbjct: 82 GRSFTRARSGPSSG 95
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/33 (78%), Positives = 30/33 (90%)
Query: 159 VQAGDVITIDKATGKITRLGRSFTRARDYDATG 191
VQAGDVITIDKATGKI++LGRSFTRAR ++G
Sbjct: 63 VQAGDVITIDKATGKISKLGRSFTRARSGPSSG 95
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 29 ERPATGLGSKVGKLT--MKTTEMETSYDLGAKMIEAIGKEKVQAGDVITIDKATGKITRL 86
E P G G + + +KT + L + E++ KE+V+AGDVI I+ +G + R
Sbjct: 144 ENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQ 203
Query: 87 GRSFTRARDYDATGAQTRNTLPSRSRHVSSWGVQKDVVQSIS 128
GR T A ++D A+ LP H +K+++Q ++
Sbjct: 204 GRCDTYATEFDLE-AEEYVPLPKGDVH-----KKKEIIQDVT 239
Score = 31.2 bits (69), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 159 VQAGDVITIDKATGKITRLGRSFTRARDYD 188
V+AGDVI I+ +G + R GR T A ++D
Sbjct: 185 VEAGDVIYIEANSGAVKRQGRCDTYATEFD 214
>pdb|1PUU|A Chain A, Mistletoe Lectin I In Complex With Lactose
pdb|1SZ6|A Chain A, Mistletoe Lectin I From Viscum Album. Crystal Structure At
2.05 A Resolution
Length = 249
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 44/110 (40%), Gaps = 18/110 (16%)
Query: 64 GKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRNTLP--SRSRHVSSWGVQK 121
G + QA ++ + + + R RAR Y +GA + LP +SWG Q
Sbjct: 147 GSTRTQARSILILIQMISEAARFNPILWRARQYINSGA---SFLPDVYMLELETSWGQQS 203
Query: 122 DVVQ----SISNNIICPVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITI 167
VQ + NN I +P G+ VTL I DV A I +
Sbjct: 204 TQVQHSTDGVFNNPIALALP---------PGNVVTLTNIRDVIASLAIML 244
>pdb|2RG9|A Chain A, Crystal Structure Of Viscum Album Mistletoe Lectin I In
Native State At 1.95 A Resolution, Comparison Of
Structure Active Site Conformation In Ricin And In
Viscumin
Length = 249
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 44/110 (40%), Gaps = 18/110 (16%)
Query: 64 GKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRNTLP--SRSRHVSSWGVQK 121
G + QA ++ + + + R RAR Y +GA + LP +SWG Q
Sbjct: 147 GSTRTQARSILILIQMISEAARFNPILWRARQYINSGA---SFLPDVYMLELETSWGQQS 203
Query: 122 DVVQ----SISNNIICPVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITI 167
VQ + NN I +P G+ VTL I DV A I +
Sbjct: 204 TQVQHSTDGVFNNPIRLALP---------PGNVVTLTNIRDVIASLAIML 244
>pdb|1OQL|A Chain A, Mistletoe Lectin I From Viscum Album Complexed With
Galactose
Length = 249
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 44/110 (40%), Gaps = 18/110 (16%)
Query: 64 GKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRNTLPS--RSRHVSSWGVQK 121
G + QA ++ + + + R RAR Y +GA + LP +SWG Q
Sbjct: 147 GSTRTQARSILILIQMISEAARFNPILWRARQYINSGA---SFLPDVYMLELETSWGQQS 203
Query: 122 DVVQ----SISNNIICPVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITI 167
VQ + NN I +P G+ VTL + DV A I +
Sbjct: 204 TQVQHSTDGVFNNPIRLAIP---------PGNFVTLTNVRDVIASLAIML 244
>pdb|1PUM|A Chain A, Mistletoe Lectin I In Complex With Galactose
Length = 249
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 43/110 (39%), Gaps = 18/110 (16%)
Query: 64 GKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRNTLP--SRSRHVSSWGVQK 121
G + QA ++ + + + R RAR Y +GA + LP +SWG Q
Sbjct: 147 GSTRTQARSILILIQMISEAARFNPILWRARQYINSGA---SFLPDVYMLELETSWGQQS 203
Query: 122 DVVQ----SISNNIICPVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITI 167
VQ + NN I + GS VTL + DV A I +
Sbjct: 204 TQVQHSTDGVFNNPIALAL---------SPGSVVTLTNVRDVIASLAIML 244
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
0.314 0.128 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,623,740
Number of Sequences: 62578
Number of extensions: 208412
Number of successful extensions: 413
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 406
Number of HSP's gapped (non-prelim): 19
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)