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= 047846
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GZO|A Chain A, Nmr Structure Of Upf0301 Protein So3346 From Shewanella
Oneidensis: Northeast Structural Genomics Consortium
Target Sor39
Length = 195
Score = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 75/176 (42%), Gaps = 18/176 (10%)
Query: 7 FERTVVLLLRSGTRHPQEGPFGVVINRPLHKKIKHMK-----PTNHELATTFADCSLHFG 61
FERTV+ L H ++G G+VIN+PL ++ + PT A + G
Sbjct: 20 FERTVIYL----CEHDEKGAMGLVINKPLGIEVNSLLEQMDLPTEQVSADLAMGSQVLMG 75
Query: 62 GPLEASM-FLLKTGQSKLPGFEEVIPGLCFGARNSLDEAAALVKKGVLKPQDFRFFVGYA 120
GP+ F+L T Q E+ GL S D A+ K P F +GYA
Sbjct: 76 GPVSQDRGFVLHTSQPYWANSTELGSGLML--TTSRDVLTAIGSKR--SPDKFLVALGYA 131
Query: 121 GWQLDQLREEIESDYWYVAACSSDLICGATSDTSSESLWEEILQLMGGHYSELSRK 176
GW +QL +E+ + W L+ D + E W++ + +G +LS +
Sbjct: 132 GWSKNQLEQELADNSWLTIPADHALLF----DINHEDRWQQASRSLGFEAWQLSTQ 183
>pdb|2EW0|A Chain A, X-Ray Crystal Structure Of Protein Q6ff54 From
Acinetobacter Sp. Adp1. Northeast Structural Genomics
Consortium Target Asr1
Length = 192
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 45/157 (28%), Positives = 69/157 (43%), Gaps = 9/157 (5%)
Query: 7 FERTVVLLLRSGTRHPQEGPFGVVINRPLHKKIKHMKPTNHELATTFADCSLHFGGPLEA 66
F TV+ L RH +EG G++INRP +IK + A + GGPL
Sbjct: 22 FANTVIYL----ARHDEEGAQGIIINRPAGIQIKELLNDLDIDADNVNPHEVLQGGPLRP 77
Query: 67 SM-FLLKTGQSKLPGFEEVIPGLCFGARNSLDEAAALVKKGVLKPQDFRFFVGYAGWQLD 125
F+L TGQ V +C + +A A +GV + ++ +GYA W +
Sbjct: 78 EAGFVLHTGQPTWHSSIAVGENVCITTSKDILDAIAH-NEGVGR---YQIALGYASWGKN 133
Query: 126 QLREEIESDYWYVAACSSDLICGATSDTSSESLWEEI 162
QL +EI W + DLI D ++ +++I
Sbjct: 134 QLEDEIARGDWLICDADXDLIFNLPYDDRWDAAYKKI 170
>pdb|2HAF|A Chain A, Crystal Structure Of A Putative Translation Repressor From
Vibrio Cholerae
Length = 211
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 40/182 (21%), Positives = 74/182 (40%), Gaps = 33/182 (18%)
Query: 7 FERTVVLLLRSGTRHPQEGPFGVVINRPLHKKIKHM------KPTNHELATTFADCSLHF 60
F+R+V+ + H Q+G G++IN P+ + M +P + +
Sbjct: 34 FKRSVIYI----CEHNQDGAMGLMINAPIDITVGGMLKQVDIEPAYPQSHQENLKKPVFN 89
Query: 61 GGPL-EASMFLLKTGQSKLPGFEEVIPGLCFGARNSLDEAAALVKKGVL-------KPQD 112
GGP+ E F+L + +E + D+ A K +L +P+
Sbjct: 90 GGPVSEDRGFILHRPRDH---YE--------SSMKMTDDIAVTTSKDILTVLGTEAEPEG 138
Query: 113 FRFFVGYAGWQLDQLREEIESDYWYVAACSSDLICGATSDTSSESLWEEILQLMGGHYSE 172
+ +GY+GW QL E+ + W +LI +T W++ +Q +G ++
Sbjct: 139 YIVALGYSGWSAGQLEVELTENSWLTIEADPELIF----NTPVHEKWQKAIQKLGISPAQ 194
Query: 173 LS 174
LS
Sbjct: 195 LS 196
>pdb|2AJ2|A Chain A, X-Ray Crystal Structure Of Protein Vc0467 From Vibrio
Cholerae. Northeast Structural Genomics Consortium
Target Vcr8
Length = 208
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 39/182 (21%), Positives = 73/182 (40%), Gaps = 33/182 (18%)
Query: 7 FERTVVLLLRSGTRHPQEGPFGVVINRPLHKKIK------HMKPTNHELATTFADCSLHF 60
F+R+V+ + H Q+G G+ IN P+ + ++P + +
Sbjct: 32 FKRSVIYICE----HNQDGAXGLXINAPIDITVGGXLKQVDIEPAYPQSHQENLKKPVFN 87
Query: 61 GGPL-EASMFLLKTGQSKLPGFEEVIPGLCFGARNSLDEAAALVKKGVL-------KPQD 112
GGP+ E F+L + +E + D+ A K +L +P+
Sbjct: 88 GGPVSEDRGFILHRPRDH---YE--------SSXKXTDDIAVTTSKDILTVLGTEAEPEG 136
Query: 113 FRFFVGYAGWQLDQLREEIESDYWYVAACSSDLICGATSDTSSESLWEEILQLMGGHYSE 172
+ +GY+GW QL E+ + W +LI +T W++ +Q +G ++
Sbjct: 137 YIVALGYSGWSAGQLEVELTENSWLTIEADPELIF----NTPVHEKWQKAIQKLGISPAQ 192
Query: 173 LS 174
LS
Sbjct: 193 LS 194
>pdb|2HRX|A Chain A, X-Ray Crystal Structure Of Protein Dip2367 From
Corynebacterium Diphtheriae. Northeast Structural
Genomics Consortium Target Cdr13
Length = 207
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 114 RFFVGYAGWQLDQLREEIESDYWYVA-ACSSDLICGATSDT 153
R F G+A W QL +EIE+ W+VA A SD+ + D
Sbjct: 133 RLFAGHAEWAPGQLAQEIENGDWFVAPALPSDVTAPGSVDV 173
>pdb|2GS5|A Chain A, 1.5 A Crystal Structure Of A Conserved Protein Of Unknown
Function From Corvnebacterium Diphtheriae
Length = 198
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 114 RFFVGYAGWQLDQLREEIESDYWYVA-ACSSDLICGATSDT 153
R F G+A W QL +EIE+ W+VA A SD+ + D
Sbjct: 133 RLFAGHAEWAPGQLAQEIENGDWFVAPALPSDVTAPGSVDV 173
>pdb|2DO8|A Chain A, Solution Structure Of Upf0301 Protein Hd_1794
Length = 188
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 35/168 (20%), Positives = 67/168 (39%), Gaps = 20/168 (11%)
Query: 7 FERTVVLLLRSGTRHPQEGPFGVVINRPLHKKI-KHMKPTNHELA---TTFADCSLHFGG 62
F+RTV+ + H G GV+IN P + + + + ++A D + GG
Sbjct: 21 FDRTVIYICE----HNDNGTIGVIINTPTDLSVLELLTRMDFQMAKPRIYTQDQMVLNGG 76
Query: 63 PLEASMFLL---KTGQSKLPGFEEVIPGLCFGARNSLDEAAALVKKGVLKPQDFRFFVGY 119
P+ + KT ++ + + LD P+ F +G
Sbjct: 77 PVNQDRGFIVHSKTDHEFTHSYKVTDDITLTTSGDVLDSFGTQTA-----PEKFIVCLGC 131
Query: 120 AGWQLDQLREEIESDYWYVAACSSDLICGATSDTSSESLWEEILQLMG 167
+ W+ QL +EI +YW ++ ++ + +TS W E +++G
Sbjct: 132 STWKPHQLEQEIAQNYWLLSEANNQTLF----ETSYLDRWVEANEMLG 175
>pdb|3FNB|A Chain A, Crystal Structure Of Acylaminoacyl Peptidase Smu_737 From
Streptococcus Mutans Ua159
pdb|3FNB|B Chain B, Crystal Structure Of Acylaminoacyl Peptidase Smu_737 From
Streptococcus Mutans Ua159
Length = 405
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/91 (20%), Positives = 38/91 (41%), Gaps = 2/91 (2%)
Query: 35 LHKKIKHMKPTNHELATTFADCSLHFGGPLEASMFLLKTGQSKLPGFEEVIPGLCFGARN 94
+ ++ P + E F F ++ S LK+ + G E++PG + +
Sbjct: 99 IRAALQFTDPKDSEFXENFRRXEKLFXLAVDNSKIPLKSIEVPFEG--ELLPGYAIISED 156
Query: 95 SLDEAAALVKKGVLKPQDFRFFVGYAGWQLD 125
+ +V G +D + +GY+GW+ D
Sbjct: 157 KAQDTLIVVGGGDTSREDLFYXLGYSGWEHD 187
>pdb|2YMU|A Chain A, Structure Of A Highly Repetitive Propeller Structure
pdb|2YMU|B Chain B, Structure Of A Highly Repetitive Propeller Structure
Length = 577
Score = 26.6 bits (57), Expect = 8.9, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 123 QLDQLREEIESDYWYVAACSSDLICGATSDTSSESLWE---EILQLMGGHYSEL 173
QL Q S W VA D + SD + LW ++LQ + GH S +
Sbjct: 417 QLLQTLTGHSSSVWGVAFSPDDQTIASASDDKTVKLWNRNGQLLQTLTGHSSSV 470
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
0.320 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,604,909
Number of Sequences: 62578
Number of extensions: 221195
Number of successful extensions: 439
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 427
Number of HSP's gapped (non-prelim): 11
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)