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= 030123
(182 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2X87|A Chain A, Crystal Structure Of The Reconstituted Cota
Length = 513
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4AKP|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site:e498t Mutant
Length = 513
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4A67|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site: D116e Mutant
Length = 513
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4AKQ|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site: E498d Mutant
Length = 513
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4A68|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site: D116n Mutant
Length = 513
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|2WSD|A Chain A, Proximal Mutations At The Type 1 Cu Site Of Cota-Laccase:
I494a Mutant
Length = 513
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|1GSK|A Chain A, Crystal Structure Of Cota, An Endospore Coat Protein From
Bacillus Subtilis
pdb|1OF0|A Chain A, Crystal Structure Of Bacillus Subtilis Cota After 1h
Soaking With Ebs
pdb|1W6L|A Chain A, 3d Structure Of Cota Incubated With Cucl2
pdb|1W6W|A Chain A, 3d Structure Of Cota Incubated With Sodium Azide
pdb|1W8E|A Chain A, 3d Structure Of Cota Incubated With Hydrogen Peroxide
pdb|2BHF|A Chain A, 3d Structure Of The Reduced Form Of Cota
pdb|2X88|A Chain A, Crystal Structure Of Holocota
pdb|3ZDW|A Chain A, Substrate And Dioxygen Binding To The Endospore Coat
Laccase Cota From Bacillus Subtilis
Length = 513
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4A66|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site: D116a Mutant
Length = 513
Score = 30.4 bits (67), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 358 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 416
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 417 GTHPIHLHLVSFRVLD 432
>pdb|4AKO|A Chain A, Mutations In The Neighbourhood Of Cota-Laccase Trinuclear
Site: E498l Mutant
Length = 507
Score = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 4/76 (5%)
Query: 99 YGSACQDQLSLIMSMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRL---AR 155
Y S +++ I ++ Y G + LL N R +PV E P VG T + + R
Sbjct: 354 YPSVQHERIQNIRTLKLAGTQDEY-GRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTR 412
Query: 156 GYAVAQTHWMDFKTGD 171
G H + F+ D
Sbjct: 413 GTHPIHLHLVSFRVLD 428
>pdb|1SDE|A Chain A, Toward Better Antibiotics: Crystal Structure Of
D-Ala-D-Ala Peptidase Inhibited By A Novel Bicyclic
Phosphate Inhibitor
Length = 347
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 22 QTVTWATRLESAKETTTNLQFYFHDTLSGKNPSAVRIAQ 60
QTV+WA + +T +L +F +SG+ SA ++AQ
Sbjct: 229 QTVSWAQSAGAVISSTQDLDTFFSALMSGQLMSAAQLAQ 267
>pdb|1HVB|A Chain A, Crystal Structure Of Streptomyces R61 Dd-Peptidase
Complexed With A Novel Cephalosporin Analog Of Cell Wall
Peptidoglycan
pdb|1IKG|A Chain A, Michaelis Complex Of Streptomyces R61 Dd-Peptidase With A
Specific Peptidoglycan Substrate Fragment
pdb|1IKI|A Chain A, Complex Of Streptomyces R61 Dd-peptidase With The Products
Of A Specific Peptidoglycan Substrate Fragment
pdb|1MPL|A Chain A, Crystal Structure Of Phosphonate-Inhibited D-Ala-D-Ala
Peptidase Reveals An Analog Of A Tetrahedral Transition
State
pdb|1SCW|A Chain A, Toward Better Antibiotics: Crystal Structure Of R61
Dd-Peptidase Inhibited By A Novel Monocyclic Phosphate
Inhibitor
pdb|1PW1|A Chain A, Non-Covalent Complex Of Streptomyces R61 Dd-Peptidase With
A Highly Specific Penicillin
pdb|1PW8|A Chain A, Covalent Acyl Enzyme Complex Of The R61 Dd-Peptidase With
A Highly Specific Cephalosporin
pdb|1PWC|A Chain A, Penicilloyl Acyl Enzyme Complex Of The Streptomyces R61
Dd-Peptidase With Penicillin G
pdb|1PWD|A Chain A, Covalent Acyl Enzyme Complex Of The Streptomyces R61
Dd-peptidase With Cephalosporin C
pdb|1PWG|A Chain A, Covalent Penicilloyl Acyl Enzyme Complex Of The
Streptomyces R61 Dd- Peptidase With A Highly Specific
Penicillin
pdb|1YQS|A Chain A, Inhibition Of The R61 Dd-peptidase By
N-benzoyl-beta-sultam
pdb|1CEF|A Chain A, Cefotaxime Complexed With The Streptomyces R61
Dd-peptidase
pdb|1CEG|A Chain A, Cephalothin Complexed With Dd-Peptidase
pdb|3PTE|A Chain A, The Refined Crystallographic Structure Of A Dd-Peptidase
Penicillin- Target Enzyme At 1.6 A Resolution
Length = 349
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 22 QTVTWATRLESAKETTTNLQFYFHDTLSGKNPSAVRIAQ 60
QTV+WA + +T +L +F +SG+ SA ++AQ
Sbjct: 229 QTVSWAQSAGAVISSTQDLDTFFSALMSGQLMSAAQLAQ 267
>pdb|1CLC|A Chain A, Three-Dimensional Structure Of Endoglucanase D At 1.9
Angstroms Resolution
Length = 639
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 11/80 (13%)
Query: 112 SMSFVFVDGPYNGSSISLLGNNRAMNPVREMPIVGGTGFFRLARGYAV-----AQTHWMD 166
++S VF YN S ++ LG N MNP G G + GY V W+D
Sbjct: 479 AISHVFGRNYYNRSYVTGLGINPPMNPHDRRS--GADGIWEPWPGYLVGGGWPGPKDWVD 536
Query: 167 ----FKTGDAIVGYNVTVVH 182
++T + + +N +++
Sbjct: 537 IQDSYQTNEIAINWNAALIY 556
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
0.321 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,060,842
Number of Sequences: 62578
Number of extensions: 187470
Number of successful extensions: 312
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: 310
Number of HSP's gapped (non-prelim): 13
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)