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= 014499
(423 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B39|A Chain A, Structure Of The Dnag Primase Catalytic Domain Bound To
Ssdna
pdb|3B39|B Chain B, Structure Of The Dnag Primase Catalytic Domain Bound To
Ssdna
Length = 322
Score = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 12 PKSRFFFTPLRPSINLKPPDSFPRIQPLPFPRISGKIPGSRVLV 55
P S F F L P ++L PD R+ L P IS ++PG + +
Sbjct: 260 PLSAFLFNSLMPQVDLSTPDGRARLSTLALPLIS-QVPGETLRI 302
>pdb|1EQN|A Chain A, E.Coli Primase Catalytic Core
pdb|1EQN|B Chain B, E.Coli Primase Catalytic Core
pdb|1EQN|C Chain C, E.Coli Primase Catalytic Core
pdb|1EQN|D Chain D, E.Coli Primase Catalytic Core
pdb|1EQN|E Chain E, E.Coli Primase Catalytic Core
Length = 321
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 12 PKSRFFFTPLRPSINLKPPDSFPRIQPLPFPRISGKIPGSRVLV 55
P S F F L P ++L PD R+ L P IS ++PG + +
Sbjct: 259 PLSAFLFNSLXPQVDLSTPDGRARLSTLALPLIS-QVPGETLRI 301
>pdb|1DD9|A Chain A, Structure Of The Dnag Catalytic Core
pdb|1DDE|A Chain A, Structure Of The Dnag Catalytic Core
Length = 338
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 12 PKSRFFFTPLRPSINLKPPDSFPRIQPLPFPRISGKIPGSRVLV 55
P S F F L P ++L PD R+ L P IS ++PG + +
Sbjct: 272 PLSAFLFNSLMPQVDLSTPDGRARLSTLALPLIS-QVPGETLRI 314
>pdb|3DDN|A Chain A, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
Tuberculosis
pdb|3DDN|B Chain B, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
Tuberculosis
Length = 528
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 13/77 (16%)
Query: 269 EEKRWKLIGEYI--ASN-GGVVTAEELAPYLDIDR-------TMSDESYVLPVLLRFDGQ 318
E R L GE++ A N GG V EE+AP+LD+ R +SDE LPV L +
Sbjct: 297 ESVRLALAGEFVPDAVNVGGGVVNEEVAPWLDLVRKLGVLAGVLSDE---LPVSLSVQVR 353
Query: 319 PEIDEEGNILYRFPSFQ 335
E+ E + R + +
Sbjct: 354 GELAAEEVEVLRLSALR 370
>pdb|1YGY|A Chain A, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
From Mycobacterium Tuberculosis
pdb|1YGY|B Chain B, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
From Mycobacterium Tuberculosis
pdb|3DC2|A Chain A, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
Dehydrogenase From Mycobacterium Tuberculosis
pdb|3DC2|B Chain B, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
Dehydrogenase From Mycobacterium Tuberculosis
Length = 529
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 13/77 (16%)
Query: 269 EEKRWKLIGEYI--ASN-GGVVTAEELAPYLDIDR-------TMSDESYVLPVLLRFDGQ 318
E R L GE++ A N GG V EE+AP+LD+ R +SDE LPV L +
Sbjct: 298 ESVRLALAGEFVPDAVNVGGGVVNEEVAPWLDLVRKLGVLAGVLSDE---LPVSLSVQVR 354
Query: 319 PEIDEEGNILYRFPSFQ 335
E+ E + R + +
Sbjct: 355 GELAAEEVEVLRLSALR 371
>pdb|2Z8I|A Chain A, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
pdb|2Z8I|C Chain C, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
pdb|2Z8J|A Chain A, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
Prepared In The Dark
pdb|2Z8J|C Chain C, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
Prepared In The Dark
pdb|2Z8K|A Chain A, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Acivicin
pdb|2Z8K|C Chain C, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Acivicin
Length = 366
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 247 KMNFIKSVFSFVFGEGDPNQGIEEKRWKLIGEYIASNGGVVTAEELAPYLDIDRT 301
+ N KS+ + E P++ + + I + + NGG++T E+LA Y ++RT
Sbjct: 200 QANLAKSLE--MIAENGPDEFYKGTIAEQIAQEMQKNGGLITKEDLAAYKAVERT 252
>pdb|2E0W|A Chain A, T391a Precursor Mutant Protein Of
Gamma-Glutamyltranspeptidase From Escherichia Coli
pdb|2E0W|B Chain B, T391a Precursor Mutant Protein Of
Gamma-Glutamyltranspeptidase From Escherichia Coli
Length = 556
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 247 KMNFIKSVFSFVFGEGDPNQGIEEKRWKLIGEYIASNGGVVTAEELAPYLDIDRT 301
+ N KS+ + E P++ + + I + + NGG++T E+LA Y ++RT
Sbjct: 200 QANLAKSLE--MIAENGPDEFYKGTIAEQIAQEMQKNGGLITKEDLAAYKAVERT 252
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 0.139 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,493,640
Number of Sequences: 62578
Number of extensions: 465075
Number of successful extensions: 999
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 992
Number of HSP's gapped (non-prelim): 11
length of query: 423
length of database: 14,973,337
effective HSP length: 101
effective length of query: 322
effective length of database: 8,652,959
effective search space: 2786252798
effective search space used: 2786252798
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: 53 (25.0 bits)