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= psy16787
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B
Complexed With Gdp
pdb|1G7T|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B
Complexed With Gdpnp
Length = 594
Score = 32.7 bits (73), Expect = 0.049, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 44/80 (55%), Gaps = 11/80 (13%)
Query: 3 LQTTGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSI 62
L+ TGL ++ D V+Y+ ILR DD +K+++ TRI+ + + + +
Sbjct: 237 LEVKEETGLGMTID-----AVIYDGILR-----KDDTIAMMTSKDVISTRIRSLLKPRPL 286
Query: 63 DEM-ETKIKSGQIEEVIIQA 81
+EM E++ K +++EV+ A
Sbjct: 287 EEMRESRKKFQKVDEVVAAA 306
>pdb|1G7R|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B
Length = 594
Score = 30.8 bits (68), Expect = 0.23, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 11/74 (14%)
Query: 9 TGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEM-ET 67
TGL + D V+Y+ ILR DD +K+++ TRI+ + + + ++E E+
Sbjct: 243 TGLGXTID-----AVIYDGILR-----KDDTIAXXTSKDVISTRIRSLLKPRPLEEXRES 292
Query: 68 KIKSGQIEEVIIQA 81
+ K +++EV+ A
Sbjct: 293 RKKFQKVDEVVAAA 306
>pdb|3K01|A Chain A, Crystal Structures Of The Gach Receptor Of Streptomyces
Glaucescens Gla.O In The Unliganded Form And In Complex
With Acarbose And An Acarbose Homolog. Comparison With
Acarbose-Loaded Maltose Binding Protein Of Salmonella
Typhimurium
Length = 412
Score = 26.6 bits (57), Expect = 4.3, Method: Composition-based stats.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 4 QTTGLTGLAV-SPDPKHSLTVLYNKILRLL------AKMPDDAAYKKY--TKEIVDTRIK 54
+ TG TGL + DP L LY + L+ + D+A + Y K++VD++
Sbjct: 175 EKTGATGLYLRGDDPYWFLPYLYGEGGDLVDEKNKTVTVDDEAGVRAYRVIKDLVDSKAA 234
Query: 55 VVQQAKSIDEMETKIKSGQIEEVI 78
+ + + M+ KSG++ ++
Sbjct: 235 ITDASDGWNNMQNAFKSGKVAMMV 258
>pdb|3JZJ|A Chain A, Crystal Structures Of The Gach Receptor Of Streptomyces
Glaucescens Gla.o In The Unliganded Form And In Complex
With Acarbose And An Acarbose Homolog. Comparison With
Acarbose-loaded Maltose Binding Protein Of Salmonella
Typhimurium.
pdb|3K00|A Chain A, Crystal Structures Of The Gach Receptor Of Streptomyces
Glaucescens Gla.O In The Unliganded Form And In Complex
With Acarbose And An Acarbose Homolog. Comparison With
Acarbose-Loaded Maltose Binding Protein Of Salmonella
Typhimurium.
pdb|3K02|A Chain A, Crystal Structures Of The Gach Receptor Of Streptomyces
Glaucescens Gla.O In The Unliganded Form And In Complex
With Acarbose And An Acarbose Homolog. Comparison With
Acarbose-Loaded Maltose Binding Protein Of Salmonella
Typhimurium
Length = 409
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 4 QTTGLTGLAV-SPDPKHSLTVLYNKILRLL------AKMPDDAAYKKY--TKEIVDTRIK 54
+ TG TGL + DP L LY + L+ + D+A + Y K++VD++
Sbjct: 172 EKTGATGLYLRGDDPYWFLPYLYGEGGDLVDEKNKTVTVDDEAGVRAYRVIKDLVDSKAA 231
Query: 55 VVQQAKSIDEMETKIKSGQIEEVI 78
+ + + M+ KSG++ ++
Sbjct: 232 ITDASDGWNNMQNAFKSGKVAMMV 255
>pdb|4HBC|L Chain L, Crystal Structure Of A Conformation-Dependent Rabbit Igg
Fab Specific For Amyloid Prefibrillar Oligomers
Length = 213
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 26/59 (44%)
Query: 5 TTGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSID 63
TT TG+ S P++S YN L + ++K+YT ++ VVQ D
Sbjct: 154 TTQTTGIENSKTPQNSADCTYNLSSTLTLTSTEYNSHKEYTCKVTQGTTSVVQSFNRGD 212
>pdb|2ZXQ|A Chain A, Crystal Structure Of Endo-Alpha-N-Acetylgalactosaminidase
From Bifidobacterium Longum (Engbf)
Length = 1376
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 37 DDAAYKKYTKEIVDTRIKVVQQAKSIDEMET---KIKSGQIEEVIIQAENEL 85
DD +KK + +KV +AK ID + T +K+ Q+ + + +N L
Sbjct: 76 DDVTFKKVSDTEATYTLKVKDEAKKIDAVITVQITVKANQLHLNVTKIKNNL 127
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
0.315 0.131 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,435,044
Number of Sequences: 62578
Number of extensions: 113455
Number of successful extensions: 345
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 22
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)