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= 019961
(333 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PRV|A Chain A, Crystal Structure Of An Uncharacterized Protein (Yobk,
Bsu18990) From Bacillus Subtilis At 1.30 A Resolution
pdb|2PRV|B Chain B, Crystal Structure Of An Uncharacterized Protein (Yobk,
Bsu18990) From Bacillus Subtilis At 1.30 A Resolution
Length = 153
Score = 34.7 bits (78), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 138 AQLMYSVMMTGYMFKNAQYRLELQQSLEQVALPE---VLDKKDTPDYAPGTQKNVSGE-- 192
A ++ V++ GY F +A + E L + V++ D Y T K GE
Sbjct: 53 AGGLFGVLVLGYNFDHASVVNRTNEYKEHYGLTDGLVVIEDVDYFAYCLDTNKXKDGECP 112
Query: 193 VFRWNNVSGPEKIDAKKYIEFLEAEIEE 220
V W+ V G + A +IEF +I+E
Sbjct: 113 VVEWDRVIGYQDTVADSFIEFFYNKIQE 140
>pdb|2HPI|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-Ray Structure Of Dna Polymerase Iii
pdb|2HPM|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-ray Structure Of Dna Polymerase Iii
Length = 1220
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 71 PNGALPKGRRDILLEYVKNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ 124
P LP+GR + +Y++ + F+ L ++R P+++ +A + V ++GT+PP
Sbjct: 296 PRFPLPEGRTEA--QYLRELT--FLGL-LRRYPDRITEAFYREVLRLLGTMPPH 344
>pdb|3E0D|A Chain A, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase
Iii Alpha-Subunit
pdb|3E0D|B Chain B, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase
Iii Alpha-Subunit
Length = 1220
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 71 PNGALPKGRRDILLEYVKNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ 124
P LP+GR + +Y++ + F+ L ++R P+++ +A + V ++GT+PP
Sbjct: 296 PRFPLPEGRTEA--QYLRELT--FLGL-LRRYPDRITEAFYREVLRLLGTMPPH 344
>pdb|3PDK|A Chain A, Crystal Structure Of Phosphoglucosamine Mutase From B.
Anthracis
pdb|3PDK|B Chain B, Crystal Structure Of Phosphoglucosamine Mutase From B.
Anthracis
Length = 469
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 214 LEAEIEELNRQLGRKATNGQNELLEYLKTLEPQNLKELTSSAGEDVVLAMNTFIKRLLAV 273
LEA+I + + NG N + + + + P+ L EL G D+ LA + RL+AV
Sbjct: 217 LEADISTMG-----TSPNGMN-INDGVGSTHPEVLAELVKEKGADIGLAFDGDGDRLIAV 270
Query: 274 SDPGQM 279
+ G +
Sbjct: 271 DEKGNI 276
>pdb|3JYI|A Chain A, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
pdb|3JYI|B Chain B, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
pdb|3JYI|C Chain C, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
pdb|3JYI|D Chain D, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
pdb|3JYI|E Chain E, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
pdb|3JYI|F Chain F, Structural And Biochemical Evidence That A Tem-1 {beta}-
Lactamase Asn170gly Active Site Mutant Acts Via
Substrate- Assisted Catalysis
Length = 263
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 46/100 (46%), Gaps = 10/100 (10%)
Query: 216 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 270
+ ++ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 57 SRVDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 113
Query: 271 L-AVSDPGQMKTSVTETSAPELAKLLYWLMVVGYSIRNIE 309
L + P ++ T+ + +L W +G +I N E
Sbjct: 114 LTTIGGPKEL-TAFLHNMGDHVTRLDRWEPELGEAIPNDE 152
>pdb|1P8U|A Chain A, Bacteriorhodopsin N' Intermediate At 1.62 A Resolution
pdb|3HAN|A Chain A, Crystal Structure Of Bacteriorhodopsin Mutant V49a
Crystallized From Bicelles
Length = 249
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 9/61 (14%)
Query: 257 EDVVLAMNT---------FIKRLLAVSDPGQMKTSVTETSAPELAKLLYWLMVVGYSIRN 307
E + LA+ T F+ + + VSDP K T AP +A +Y M++GY +
Sbjct: 9 EWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLAPAIAFTMYLSMLLGYGLTM 68
Query: 308 I 308
+
Sbjct: 69 V 69
>pdb|1BHA|A Chain A, Three-Dimensional Structure Of (1-71) Bacterioopsin
Solubilized In Methanol-Chloroform And Sds Micelles
Determined By 15n-1h Heteronuclear Nmr Spectroscopy
pdb|1BHB|A Chain A, Three-Dimensional Structure Of (1-71) Bacterioopsin
Solubilized In Methanol-Chloroform And Sds Micelles
Determined By 15n-1h Heteronuclear Nmr Spectroscopy
Length = 71
Score = 28.1 bits (61), Expect = 7.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 266 FIKRLLAVSDPGQMKTSVTETSAPELAKLLYWLMVVGYSI 305
F+ + + VSDP K T P +A +Y M++GY +
Sbjct: 27 FLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGL 66
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
0.316 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: 8,924,551
Number of Sequences: 62578
Number of extensions: 331293
Number of successful extensions: 979
Number of sequences better than 100.0: 71
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 931
Number of HSP's gapped (non-prelim): 74
length of query: 333
length of database: 14,973,337
effective HSP length: 99
effective length of query: 234
effective length of database: 8,778,115
effective search space: 2054078910
effective search space used: 2054078910
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: 52 (24.6 bits)