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= 017962
(363 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F5C|E Chain E, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
pdb|4F5C|F Chain F, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
Length = 440
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 2/84 (2%)
Query: 234 PFRVNAGPVHAYVLVPGGKTCYLSELKSGKEVIVVDQKGRQRTAVVGRVKIESRPLILVE 293
PF V GP + YVL G YL L + I + + G + G + P+ +
Sbjct: 150 PFGVTNGPRYCYVLYNGTALKYLGTLPPSVKEIAISKWGHFY--INGYNFFSTFPIDCIS 207
Query: 294 AKTNSGDQTLYGIILQNAETVALV 317
+GD ++ I + T ALV
Sbjct: 208 FNLTTGDSDVFWTIAYTSYTEALV 231
>pdb|1OKB|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase From Atlantic
Cod (Gadus Morhua)
pdb|1OKB|B Chain B, Crystal Structure Of Uracil-Dna Glycosylase From Atlantic
Cod (Gadus Morhua)
Length = 223
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 152 VEDVKAVLALKEYFDGRNEVSNL-LSLMKATVTRVDVAGMGDRVCVDLCSLMRPGEGLLV 210
++DVK V+ ++ + G N+ L S+ K + + +C D+ PG G L
Sbjct: 53 IQDVKVVILGQDPYHGPNQAHGLCFSVQKPVPPPPSLVNIYKELCTDIDGFKHPGHGDLS 112
Query: 211 GSFARGLFLVHS 222
G +G+ L+++
Sbjct: 113 GWAKQGVLLLNA 124
>pdb|3M6X|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212
Length = 464
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 5/82 (6%)
Query: 248 VPGGKTCYLSELKSGKEVIVVDQ-KGRQRTAVVGRVKIESRPLILVEAKTNSGDQTLYGI 306
PGGKT +L+ GK +++ ++ G++ ++ V+ PL + +A + + +G
Sbjct: 111 APGGKTTHLAARXGGKGLLLANEVDGKRVRGLLENVERWGAPLAVTQAPPRALAEA-FGT 169
Query: 307 ILQNAETVALVSPCKGTGEQEK 328
V L +PC G G K
Sbjct: 170 YFHR---VLLDAPCSGEGXFRK 188
>pdb|2K1G|A Chain A, Solution Nmr Structure Of Lipoprotein Spr From Escherichia
Coli K12. Northeast Structural Genomics Target
Er541-37-162
Length = 135
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 325 EQEKAIPVTSLKVGDEVLLRVQGAARHTGIEI 356
E K++ ++L+ GD VL R RH GI I
Sbjct: 58 EMGKSVSRSNLRTGDLVLFRAGSTGRHVGIYI 89
>pdb|1Q50|A Chain A, Phosphoglucose Isomerase From Leishmania Mexicana
Length = 561
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 255 YLSELKSGKEVIVVDQKGRQRTAVVGRVKIESRPLILVEAKTNSGDQTLYGIILQNAETV 314
YL L + + + ++ G+ T G V +++ P++ EA TN G Y +I Q + +
Sbjct: 353 YLWRLPAYLQQLDMESNGKGVTKKSGAVAVQTGPIVFGEAGTN-GQHAFYQLIHQGTKII 411
Query: 315 ALVSPCKGTG 324
PC G
Sbjct: 412 ----PCDFIG 417
>pdb|3M6W|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212 In Complex
With S-Adenosyl-L- Methionine
Length = 464
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 248 VPGGKTCYLSELKSGKEVIVVDQ-KGRQRTAVVGRVKIESRPLILVEAKTNSGDQTLYGI 306
PGGKT +L+ GK +++ ++ G++ ++ V+ PL + +A + + +G
Sbjct: 111 APGGKTTHLAARMGGKGLLLANEVDGKRVRGLLENVERWGAPLAVTQAPPRALAEA-FGT 169
Query: 307 ILQNAETVALVSPCKGTG 324
V L +PC G G
Sbjct: 170 YFHR---VLLDAPCSGEG 184
>pdb|3M6U|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6U|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6V|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
pdb|3M6V|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
Length = 464
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 248 VPGGKTCYLSELKSGKEVIVVDQ-KGRQRTAVVGRVKIESRPLILVEAKTNSGDQTLYGI 306
PGGKT +L+ GK +++ ++ G++ ++ V+ PL + +A + + +G
Sbjct: 111 APGGKTTHLAARMGGKGLLLANEVDGKRVRGLLENVERWGAPLAVTQAPPRALAEA-FGT 169
Query: 307 ILQNAETVALVSPCKGTG 324
V L +PC G G
Sbjct: 170 YFHR---VLLDAPCSGEG 184
>pdb|1T10|A Chain A, Phosphoglucose Isomerase From Leishmania Mexicana In
Complex With Substrate D-Fructose-6-Phosphate
Length = 605
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 255 YLSELKSGKEVIVVDQKGRQRTAVVGRVKIESRPLILVEAKTNSGDQTLYGIILQNAETV 314
YL L + + + ++ G+ T G V +++ P++ EA TN G Y +I Q + +
Sbjct: 396 YLWRLPAYLQQLDMESNGKGVTKKSGAVAVQTGPIVFGEAGTN-GQHAFYQLIHQGTKII 454
Query: 315 ALVSPCKGTG 324
PC G
Sbjct: 455 ----PCDFIG 460
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 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,094,135
Number of Sequences: 62578
Number of extensions: 407891
Number of successful extensions: 1289
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1287
Number of HSP's gapped (non-prelim): 13
length of query: 363
length of database: 14,973,337
effective HSP length: 100
effective length of query: 263
effective length of database: 8,715,537
effective search space: 2292186231
effective search space used: 2292186231
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: 52 (24.6 bits)