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= 038197
(366 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P6Y|A Chain A, X-Ray Structure Of The Protein Q9km02_vibch From Vibrio
Cholerae At The Resolution 1.63 A. Northeast Structural
Genomics Consortium Target Vcr80
Length = 142
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 40/94 (42%), Gaps = 18/94 (19%)
Query: 158 GEDVAGKILSFSQK-----GPRGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLS 212
G D+ +I+ Q+ G CV G +S + IR S L FEILSLS
Sbjct: 12 GXDLKQQIVQLVQQHRIHAGSIASCV----GCLSTLHIR-LADSVSTLQVSAPFEILSLS 66
Query: 213 GSFTVTETGGARSRTGGLSVSLAGPDGRVIGGGV 246
G+ T L +++A GRV GG +
Sbjct: 67 GTLTYQHC--------HLHIAVADAQGRVWGGHL 92
>pdb|2HX0|A Chain A, Three-Dimensional Structure Of The Hypothetical Protein
From Salmonella Cholerae-Suis (Aka Salmonella Enterica)
At The Resolution 1.55 A. Northeast Structural Genomics
Target Scr59
Length = 154
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 50/108 (46%), Gaps = 12/108 (11%)
Query: 158 GEDVAGKILSFSQKGP-RGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLSGSFT 216
G++V ++ +F Q+ R + G++++V +R Y G+ SL+G+F
Sbjct: 28 GQEVFSQLHAFVQQNQLRAAWIAGCTGSLTDVALR----------YAGQEATTSLTGTFE 77
Query: 217 VTETGGARSRTG-GLSVSLAGPDGRVIGGGVAGLLMAASPIQIVVGSF 263
V G TG L ++++ P G +GG + +++V+G
Sbjct: 78 VISLNGTLELTGEHLHLAVSDPYGVXLGGHXXPGCTVRTTLELVIGEL 125
>pdb|2NMU|A Chain A, Crystal Structure Of The Hypothetical Protein From
Salmonella Typhimurium Lt2. Northeast Structural
Genomics Consortium Target Str127
Length = 156
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 50/108 (46%), Gaps = 12/108 (11%)
Query: 158 GEDVAGKILSFSQKGP-RGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLSGSFT 216
G++V ++ +F Q+ R + G++++V +R Y G+ SL+G+F
Sbjct: 28 GQEVFSQLHAFVQQNQLRAAWIAGCTGSLTDVALR----------YAGQEATTSLTGTFE 77
Query: 217 VTETGGARSRTG-GLSVSLAGPDGRVIGGGVAGLLMAASPIQIVVGSF 263
V G TG L ++++ P G +GG + +++V+G
Sbjct: 78 VISLNGTLELTGEHLHLAVSDPYGVXLGGHXXPGCTVRTTLELVIGEL 125
>pdb|2BGC|A Chain A, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|B Chain B, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|D Chain D, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|E Chain E, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|F Chain F, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|G Chain G, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|H Chain H, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
pdb|2BGC|I Chain I, Prfa-G145s, A Constitutive Active Mutant Of The
Transcriptional Regulator In L.Monocytogenes
Length = 238
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 164 KILSFSQKGPRGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLSGSFTVTET 220
K L F+Q P+ C+ +G +I + G+ + Y+G F I+S F TET
Sbjct: 26 KELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMS---GFIDTET 79
>pdb|1OMI|A Chain A, Crystal Structure Of Prfa,The Transcriptional Regulator In
Listeria Monocytogenes
pdb|1OMI|B Chain B, Crystal Structure Of Prfa,The Transcriptional Regulator In
Listeria Monocytogenes
Length = 248
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 164 KILSFSQKGPRGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLSGSFTVTET 220
K L F+Q P+ C+ +G +I + G+ + Y+G F I+S F TET
Sbjct: 36 KELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMS---GFIDTET 89
>pdb|2BEO|B Chain B, Prfa, Transcriptional Regulator In Listeria Monocytogenes
pdb|2BEO|A Chain A, Prfa, Transcriptional Regulator In Listeria Monocytogenes
Length = 236
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 164 KILSFSQKGPRGICVLSANGAVSNVTIRQPGSSGGILTYEGRFEILSLSGSFTVTET 220
K L F+Q P+ C+ +G +I + G+ + Y+G F I+S F TET
Sbjct: 24 KELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMS---GFIDTET 77
>pdb|4E5V|A Chain A, Crystal Structure Of A Putative Thua-Like Protein
(Parmer_02418) From Parabacteroides Merdae Atcc 43184 At
1.75 A Resolution
pdb|4E5V|B Chain B, Crystal Structure Of A Putative Thua-Like Protein
(Parmer_02418) From Parabacteroides Merdae Atcc 43184 At
1.75 A Resolution
Length = 281
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/127 (23%), Positives = 50/127 (39%), Gaps = 11/127 (8%)
Query: 129 NWQL-LASLGELFANTAGGDFTPHVVTVNTGEDVAGKILSFSQKGPRGICVLSANG---- 183
NWQ+ L ++ N+ D V++ G+D +G +L FS P + VL NG
Sbjct: 17 NWQVSHVVLKQILENSGRFD-VDFVISPEQGKDXSGFVLDFS---PYQLVVLDYNGDSWP 72
Query: 184 -AVSNVTIRQPGSSGGILTYEGRFEILSLSGSFT-VTETGGARSRTGGLSVSLAGPDGRV 241
+ + + GG++ Y S F + GG R + DG++
Sbjct: 73 EETNRRFLEYVQNGGGVVIYHAADNAFSKWPEFNRICALGGWEGRNENSGPYVYWKDGKL 132
Query: 242 IGGGVAG 248
+ AG
Sbjct: 133 VKDSSAG 139
>pdb|3AIX|A Chain A, Crystal Structure Of Pcna2-Pcna3 Complex From Sulfolobus
Tokodaii (I222)
pdb|3AIZ|C Chain C, Crystal Structure Of Pcna2-Pcna3 Complex From Sulfolobus
Tokodaii (P21212)
pdb|3AIZ|D Chain D, Crystal Structure Of Pcna2-Pcna3 Complex From Sulfolobus
Tokodaii (P21212)
Length = 246
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 155 VNTGEDVAGKILSFSQKGPRGICVLSANGAVSNVTIRQPGSSGGILTYEG 204
++ ED+ G ++F +G G LSAN + + TI +GG+L EG
Sbjct: 143 IDEIEDIGGDSITFKAEG--GKLYLSANSDMGSSTIELSTENGGLLESEG 190
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
0.310 0.129 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,456,206
Number of Sequences: 62578
Number of extensions: 348294
Number of successful extensions: 739
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 736
Number of HSP's gapped (non-prelim): 15
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.6 bits)