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= 048272
(213 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 54/124 (43%), Gaps = 14/124 (11%)
Query: 50 WNELDIIVNSAA--ATKFDERYDVAFDINTLGAIHAVNFAKKCVKQ----EVLVHLKISG 103
WN+ VNS +FDE I L N + CV Q EV VH K++
Sbjct: 40 WNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENIYE-CVAQNPHGEVTVHAKLTV 98
Query: 104 LRTGLISENLPDGASELDVDVEMKVIAQKLHELKTEGASQN---EITLSKKALGIERFSN 160
LR + LP G +D+ ++KV+ + AS N EIT K L ++ ++
Sbjct: 99 LR----EDQLPPGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSTS 154
Query: 161 DARM 164
+ R+
Sbjct: 155 NGRI 158
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 14/124 (11%)
Query: 50 WNELDIIVNSAA--ATKFDERYDVAFDINTLGAIHAVNFAKKCVKQ----EVLVHLKISG 103
WN+ VNS +FDE I L N +CV Q E+ VH K++
Sbjct: 40 WNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENV-YECVAQNSVGEITVHAKLTV 98
Query: 104 LRTGLISENLPDGASELDVDVEMKVIAQKLHELKTEGASQN---EITLSKKALGIERFSN 160
LR + LP G +D+ ++KV+ + AS N EIT K L ++ ++
Sbjct: 99 LR----EDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSAS 154
Query: 161 DARM 164
+ R+
Sbjct: 155 NGRI 158
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 14/124 (11%)
Query: 50 WNELDIIVNSAA--ATKFDERYDVAFDINTLGAIHAVNFAKKCVKQ----EVLVHLKISG 103
WN+ VNS +FDE I L N + CV Q E+ VH K++
Sbjct: 40 WNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYE-CVAQNSVGEITVHAKLTV 98
Query: 104 LRTGLISENLPDGASELDVDVEMKVIAQKLHELKTEGASQN---EITLSKKALGIERFSN 160
LR + LP G +D+ ++KV+ + AS N EIT K L ++ ++
Sbjct: 99 LR----EDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSAS 154
Query: 161 DARM 164
+ R+
Sbjct: 155 NGRI 158
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 34.3 bits (77), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 14/124 (11%)
Query: 50 WNELDIIVNSAA--ATKFDERYDVAFDINTLGAIHAVNFAKKCVKQ----EVLVHLKISG 103
WN+ VNS +FDE I L N + CV Q E+ VH K++
Sbjct: 40 WNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYE-CVAQNSVGEITVHAKLTV 98
Query: 104 LRTGLISENLPDGASELDVDVEMKVIAQKLHELKTEGASQN---EITLSKKALGIERFSN 160
LR + LP G +D+ ++KV+ + AS N EIT K L ++ ++
Sbjct: 99 LR----EDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSAS 154
Query: 161 DARM 164
+ R+
Sbjct: 155 NGRI 158
>pdb|1VL0|A Chain A, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium
Acetobutylicum Atcc 824 At 2.05 A Resolution
pdb|1VL0|B Chain B, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium
Acetobutylicum Atcc 824 At 2.05 A Resolution
pdb|1VL0|C Chain C, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium
Acetobutylicum Atcc 824 At 2.05 A Resolution
Length = 292
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 34/56 (60%), Gaps = 7/56 (12%)
Query: 29 IPGDISSEDLGLKDSNLKEELWNE--LDIIVNSAAAT---KFDERYDVAFDINTLG 79
IP D+ +DL + + + +NE ++++N AA T K +E+YD+A+ IN +G
Sbjct: 40 IPTDV--QDLDITNVLAVNKFFNEKKPNVVINCAAHTAVDKCEEQYDLAYKINAIG 93
>pdb|4B79|A Chain A, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4B79|B Chain B, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4AVY|A Chain A, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4AVY|B Chain B, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery
Length = 242
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 33 ISSEDLGLKDSNLKEELWN---ELDIIVNSAAATKFDERYDVA-----FDINTLGAIHAV 84
I E+L + DS + L+ LD++VN+A ++ E YD+A +N A+ A
Sbjct: 56 IRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLATFERVLRLNLSAAMLAS 115
Query: 85 NFAKKCVKQEVLVHLKISGLRTGLISENLP 114
A+ + Q L I+ + + S + P
Sbjct: 116 QLARPLLAQRGGSILNIASMYSTFGSADRP 145
>pdb|4DQV|A Chain A, Crystal Structure Of Reductase (R) Domain Of Non-Ribosomal
Peptide Synthetase From Mycobacterium Tuberculosis
Length = 478
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 17 HLNSFISEKLTSIPGDISSEDLGLKDSNLKEELWNELDIIVNSAA 61
H +++L + GD S DLGL D L +D+IV+SAA
Sbjct: 133 HFKELAADRLEVVAGDKSEPDLGL-DQPXWRRLAETVDLIVDSAA 176
>pdb|2YD6|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
pdb|2YD7|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
pdb|2YD7|B Chain B, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
Length = 212
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 3/79 (3%)
Query: 89 KCVKQEVLVHLKISGLRTGLISENLPDGASELDVDVEMKVIAQKLHELKTEGASQN---E 145
+CV + + +S T L + +P G +D+ ++KV+ + AS N E
Sbjct: 80 ECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATMLCAASGNPDPE 139
Query: 146 ITLSKKALGIERFSNDARM 164
IT K L ++ +N+ R+
Sbjct: 140 ITWFKDFLPVDTSNNNGRI 158
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 0.133 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,084,885
Number of Sequences: 62578
Number of extensions: 229401
Number of successful extensions: 630
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 630
Number of HSP's gapped (non-prelim): 9
length of query: 213
length of database: 14,973,337
effective HSP length: 95
effective length of query: 118
effective length of database: 9,028,427
effective search space: 1065354386
effective search space used: 1065354386
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: 49 (23.5 bits)