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= 047931
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WBM|A Chain A, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
pdb|2WBM|B Chain B, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
Length = 252
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 45/97 (46%), Gaps = 7/97 (7%)
Query: 211 DFVLAAFDLVEERFKEFPLPDASTSFRFFGTGV-LGDCLCLQ-FFKGKMKEHWIMKEYGV 268
D V+A + ERF+ PD + FR + V + D L +Q F+ K +
Sbjct: 26 DAVIARLESHGERFEVLVDPDLAAEFRREDSDVSVEDVLAVQEVFRDARK-----GDKAS 80
Query: 269 KESWTRVFIHQDPNNVWPLCLWKNSTKLLVINRKNLL 305
+E+ +VF DP V P+ L + + +L R+ ++
Sbjct: 81 EEAMRKVFETADPLEVTPVILRRGTIQLTAEQRRQMI 117
>pdb|3KW7|A Chain A, Crystal Structure Of Lacb From Trametes Sp. Ah28-2
pdb|3KW7|B Chain B, Crystal Structure Of Lacb From Trametes Sp. Ah28-2
Length = 502
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 12/73 (16%)
Query: 18 VKSLCRFKCVSSSWLALISDPQFVMLQLHRNKRRNLILSNLSGNSAYNYSIDEEKLVSVE 77
+ L RF ++S LA+I+ + +NKR L +LS + + +SID + +E
Sbjct: 171 INGLGRFAGGNASDLAVIT--------VEQNKRYRFRLVSLSCDPNFTFSIDGHNMTIIE 222
Query: 78 LDF----PLEQDA 86
+D PLE D+
Sbjct: 223 VDGVNHEPLEVDS 235
>pdb|4G1G|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1G|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1L|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1L|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1O|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1O|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
Length = 364
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 57 NLSGNSAYNYSIDEEKLVSVELDFPLEQDANRDGSGYLARIVGSCNGLVCTTPKPKIFFV 116
+SG+S YN +++ V V+ PL + ++ SGY A + GL+ T K
Sbjct: 195 KVSGSSLYNLALNVTIDVEVDPKSPLVKSLSKSDSGYYANLFLHI-GLMSTVDKKGKKVT 253
Query: 117 LNPLTRESKRI 127
+ L R+ +R+
Sbjct: 254 FDKLERKIRRL 264
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 34 LISDPQFVMLQLHRNKRRNLILSNLSGNSAYNYSIDEEKL-VSVELDFPLEQDANRDGSG 92
++ V+ + K + L+ +N+ ID E++ V + D P+++D N D
Sbjct: 301 MVEQRAAVIERFREGKEKVLVTTNVCARG-----IDVEQVSVVINFDLPVDKDGNPDNET 355
Query: 93 YLARI 97
YL RI
Sbjct: 356 YLHRI 360
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 34 LISDPQFVMLQLHRNKRRNLILSNLSGNSAYNYSIDEEKL-VSVELDFPLEQDANRDGSG 92
++ V+ + K + L+ +N+ ID E++ V + D P+++D N D
Sbjct: 368 MVEQRAAVIERFREGKEKVLVTTNVCARG-----IDVEQVSVVINFDLPVDKDGNPDNET 422
Query: 93 YLARI 97
YL RI
Sbjct: 423 YLHRI 427
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 34 LISDPQFVMLQLHRNKRRNLILSNLSGNSAYNYSIDEEKL-VSVELDFPLEQDANRDGSG 92
++ V+ + K + L+ +N+ ID E++ V + D P+++D N D
Sbjct: 317 MVEQRAAVIERFREGKEKVLVTTNVCARG-----IDVEQVSVVINFDLPVDKDGNPDNET 371
Query: 93 YLARI 97
YL RI
Sbjct: 372 YLHRI 376
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 34 LISDPQFVMLQLHRNKRRNLILSNLSGNSAYNYSIDEEKL-VSVELDFPLEQDANRDGSG 92
++ V+ + K + L+ +N+ ID E++ V + D P+++D N D
Sbjct: 338 MVEQRAAVIERFREGKEKVLVTTNVCARG-----IDVEQVSVVINFDLPVDKDGNPDNET 392
Query: 93 YLARI 97
YL RI
Sbjct: 393 YLHRI 397
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
0.323 0.139 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,925,732
Number of Sequences: 62578
Number of extensions: 458190
Number of successful extensions: 820
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 817
Number of HSP's gapped (non-prelim): 10
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)