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= 024522
(266 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 = 34.3 bits (77), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 71 AQLMYSVMMTGYMFKNAQYRLELQQSLEQVALPE---VLDKKDTPDYAPGTQKNVSGE-- 125
A ++ V++ GY F +A + E L + V++ D Y T K GE
Sbjct: 53 AGGLFGVLVLGYNFDHASVVNRTNEYKEHYGLTDGLVVIEDVDYFAYCLDTNKXKDGECP 112
Query: 126 VFRWNNVSGPEKIDAKKYIEFLEAEIEE 153
V W+ V G + A +IEF +I+E
Sbjct: 113 VVEWDRVIGYQDTVADSFIEFFYNKIQE 140
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/131 (23%), Positives = 52/131 (39%), Gaps = 17/131 (12%)
Query: 93 LQQSLEQVALPEVLDKKDTPDYAPGTQK-----------NVSGEVFRWNNVSGPEKIDAK 141
L + ++++ P + DY G QK + SG + G A
Sbjct: 152 LDKEVDELPRPTGTNLGQVSDYFEGGQKYLQYIKQTVEEDFSGLHIALDCAHGATSSLAP 211
Query: 142 KYIEFLEAEIEELNRQLGRKATNGQNELLEYLKTLEPQNLKELTSSAGEDVVLAMNTFIK 201
LEA+I + + NG N + + + + P+ L EL G D+ LA +
Sbjct: 212 YLFADLEADISTMG-----TSPNGMN-INDGVGSTHPEVLAELVKEKGADIGLAFDGDGD 265
Query: 202 RLLAVSDPGQM 212
RL+AV + G +
Sbjct: 266 RLIAVDEKGNI 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 = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 49/111 (44%), Gaps = 10/111 (9%)
Query: 149 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 203
+ ++ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 57 SRVDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 113
Query: 204 L-AVSDPGQMKTSVTETSAPELAKLLYWLMVVGYSIRNIEVRFDMERVLGT 253
L + P ++ T+ + +L W +G +I N E M + T
Sbjct: 114 LTTIGGPKEL-TAFLHNMGDHVTRLDRWEPELGEAIPNDERDTTMPAAMAT 163
>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 = 5.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 199 FIKRLLAVSDPGQMKTSVTETSAPELAKLLYWLMVVGYSIRNI 241
F+ + + VSDP K T AP +A +Y M++GY + +
Sbjct: 27 FLVKGMGVSDPDAKKFYAITTLAPAIAFTMYLSMLLGYGLTMV 69
>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 = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 31/49 (63%), Gaps = 5/49 (10%)
Query: 9 PKGRRDILLEYVKNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ 57
P+GR + +Y++ + F+ L ++R P+++ +A + V ++GT+PP
Sbjct: 301 PEGRTEA--QYLRELT--FLGL-LRRYPDRITEAFYREVLRLLGTMPPH 344
>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 = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 31/49 (63%), Gaps = 5/49 (10%)
Query: 9 PKGRRDILLEYVKNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ 57
P+GR + +Y++ + F+ L ++R P+++ +A + V ++GT+PP
Sbjct: 301 PEGRTEA--QYLRELT--FLGL-LRRYPDRITEAFYREVLRLLGTMPPH 344
>pdb|1ZG6|A Chain A, Tem1 Beta Lactamase Mutant S70g
Length = 286
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 149 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 203
+ I+ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 80 SRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 136
Query: 204 LAVSDPGQMKTSVTETSAPELAKLLYW 230
L + T+ + +L W
Sbjct: 137 LTTIGGPKELTAFLHNMGDHVTRLDRW 163
>pdb|1ZG4|A Chain A, Tem1 Beta Lactamase
Length = 286
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 149 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 203
+ I+ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 80 SRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 136
Query: 204 LAVSDPGQMKTSVTETSAPELAKLLYW 230
L + T+ + +L W
Sbjct: 137 LTTIGGPKELTAFLHNMGDHVTRLDRW 163
>pdb|3FRK|A Chain A, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
pdb|3FRK|B Chain B, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
Length = 373
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 18/67 (26%)
Query: 181 LKELTSSAGEDVVLAMNTFIKRLLAVS------------------DPGQMKTSVTETSAP 222
LK G++V++ NTFI LAVS DP +++++TE +
Sbjct: 68 LKGYDIGFGDEVIVPSNTFIATALAVSYTGAKPIFVEPDIRTYNIDPSLIESAITEKTKA 127
Query: 223 ELAKLLY 229
+A LY
Sbjct: 128 IIAVHLY 134
>pdb|1M2O|A Chain A, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2O|C Chain C, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2V|A Chain A, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 768
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 21 KNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ-FFAVTVTTVAENLAQLMYSVMM 79
++ P++ L + P ++ + +TN T+PP FF V +T+ ENL L S++
Sbjct: 87 NHLPPQYTNLSQENMPLELQSTTIEYITNKPVTVPPIFFFVVDLTSETENLDSLKESIIT 146
Query: 80 T 80
+
Sbjct: 147 S 147
>pdb|2QTV|A Chain A, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 772
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 21 KNVQPEFMELFVKRAPEQVVDAMRQTVTNMIGTLPPQ-FFAVTVTTVAENLAQLMYSVMM 79
++ P++ L + P ++ + +TN T+PP FF V +T+ ENL L S++
Sbjct: 91 NHLPPQYTNLSQENMPLELQSTTIEYITNKPVTVPPIFFFVVDLTSETENLDSLKESIIT 150
Query: 80 T 80
+
Sbjct: 151 S 151
>pdb|4DXB|A Chain A, 2.29a Structure Of The Engineered Mbp Tem-1 Fusion Protein
Rg13 In Complex With Zinc, P1 Space Group
pdb|4DXB|B Chain B, 2.29a Structure Of The Engineered Mbp Tem-1 Fusion Protein
Rg13 In Complex With Zinc, P1 Space Group
pdb|4DXC|A Chain A, Crystal Structure Of The Engineered Mbp Tem-1 Fusion
Protein Rg13, C2 Space Group
Length = 637
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 149 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 203
+ I+ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 438 SRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 494
Query: 204 LAVSDPGQMKTSVTETSAPELAKLLYW 230
L + T+ + +L W
Sbjct: 495 LTTIGGPKELTAFLHNMGDHVTRLDRW 521
>pdb|3DTM|A Chain A, Increased Folding Stability Of Tem-1 Beta-Lactamase By In-
Vitro Selection
Length = 263
Score = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 8/87 (9%)
Query: 149 AEIEELNRQLGRKATNGQNELLEYLKTLEPQ-----NLKELTSSAGEDVVLAMNTFIKRL 203
+ I+ QLGR+ QN+L+EY E ++EL S+A + ++ NT L
Sbjct: 57 SRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELCSAA---ITMSDNTAANLL 113
Query: 204 LAVSDPGQMKTSVTETSAPELAKLLYW 230
L + T+ + +L W
Sbjct: 114 LTTIGGPKGLTAFLHNMGDHVTRLDRW 140
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
0.317 0.133 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,609,604
Number of Sequences: 62578
Number of extensions: 289893
Number of successful extensions: 911
Number of sequences better than 100.0: 76
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 862
Number of HSP's gapped (non-prelim): 79
length of query: 266
length of database: 14,973,337
effective HSP length: 97
effective length of query: 169
effective length of database: 8,903,271
effective search space: 1504652799
effective search space used: 1504652799
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: 50 (23.9 bits)