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= 028374
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VMH|A Chain A, Crystal Structure Of An Uncharacterized Conserved Protein
YjbqUPF0047 Family, Ortholog Yugu B.Subtilis (Ca_c0907)
From Clostridium Acetobutylicum At 1.31 A Resolution
Length = 144
Score = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 47/119 (39%), Positives = 67/119 (56%), Gaps = 14/119 (11%)
Query: 89 AQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQGRSAS 148
A D S G+A +F HT+A +TINEN D DV D L+K+ P++
Sbjct: 39 AVDESGVSDGMAVVFCPHTTAGITINENADPDVTRDILVNLDKVFPKV----------GD 88
Query: 149 WKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKVVITL 207
+KH +EG + AHIK+S+ G + I I +G+L +GTWQGI+ E D P RKV + +
Sbjct: 89 YKH-VEG--NSHAHIKASLMGSSQQIIIENGKLKLGTWQGIYFTEF-DGPRDRKVFVKI 143
>pdb|1XBF|A Chain A, X-Ray Structure Northeast Structural Genomics Consortium
Target Car10 From C. Acetobutylicum
pdb|1XBF|B Chain B, X-Ray Structure Northeast Structural Genomics Consortium
Target Car10 From C. Acetobutylicum
pdb|1XBF|C Chain C, X-Ray Structure Northeast Structural Genomics Consortium
Target Car10 From C. Acetobutylicum
Length = 140
Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 47/119 (39%), Positives = 66/119 (55%), Gaps = 14/119 (11%)
Query: 89 AQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQGRSAS 148
A D S G A +F HT+A +TINEN D DV D L+K+ P++
Sbjct: 27 AVDESGVSDGXAVVFCPHTTAGITINENADPDVTRDILVNLDKVFPKV----------GD 76
Query: 149 WKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKVVITL 207
+KH +EG + AHIK+S+ G + I I +G+L +GTWQGI+ E D P RKV + +
Sbjct: 77 YKH-VEG--NSHAHIKASLXGSSQQIIIENGKLKLGTWQGIYFTEF-DGPRDRKVFVKI 131
>pdb|1VMF|A Chain A, Crystal Structure Of A Ybjq-Like Fold Protein Of Unknown
Function (Bh3498) From Bacillus Halodurans At 1.46 A
Resolution
pdb|1VMF|B Chain B, Crystal Structure Of A Ybjq-Like Fold Protein Of Unknown
Function (Bh3498) From Bacillus Halodurans At 1.46 A
Resolution
pdb|1VMF|C Chain C, Crystal Structure Of A Ybjq-Like Fold Protein Of Unknown
Function (Bh3498) From Bacillus Halodurans At 1.46 A
Resolution
Length = 145
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 62/114 (54%), Gaps = 20/114 (17%)
Query: 98 GLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQGRSASWKHT----L 153
G+A + LHT+A +T+NEN D DV+ D L+++ P W H +
Sbjct: 45 GVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYP--------------WHHENDRHM 90
Query: 154 EGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKVVITL 207
EG + AH+K+S G T+ I++G+L +GTWQG++ CE T RK V+ L
Sbjct: 91 EG--NTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKL 142
>pdb|2P6C|A Chain A, Crystal Structure Of Hypothetical Protein Aq_2013 From
Aquifex Aeolicus Vf5.
pdb|2P6C|B Chain B, Crystal Structure Of Hypothetical Protein Aq_2013 From
Aquifex Aeolicus Vf5
Length = 137
Score = 60.1 bits (144), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 71/136 (52%), Gaps = 14/136 (10%)
Query: 74 RRGCHLITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIV 133
RR IT ++ K + + SE K GL + +H ++S+ I ++ + + +D +L K+
Sbjct: 15 RRELIRITDEVKKAVEE--SEVKEGLCLVSSMHLTSSVIIQDD-EEGLHEDIWEWLEKLA 71
Query: 134 PELYFVSLLQGRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCE 193
P +KH G D+ AH+K+ + + +PIT+G+L++G WQ I+ E
Sbjct: 72 P----------YRPDYKHHRTGEDNGDAHLKNLLTHLQVVLPITNGKLDLGPWQEIFYAE 121
Query: 194 HRDAPTPRKVVITLNG 209
D P++VVI + G
Sbjct: 122 F-DGQRPKRVVIKIIG 136
>pdb|1VMJ|A Chain A, Crystal Structure Of A Putative Thiamin Phosphate Synthase
(Tm0723) From Thermotoga Maritima Msb8 At 1.52 A
Resolution
Length = 151
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 74/136 (54%), Gaps = 12/136 (8%)
Query: 74 RRGCHLITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIV 133
RR ITP +++E ++ S K GL +H +AS+ IN++ + + D E +L K+
Sbjct: 27 RREFINITP-LLEECVRE-SGIKEGLLLCNAMHITASVFINDD-EPGLHHDFEVWLEKLA 83
Query: 134 PELYFVSLLQGRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCE 193
PE + + +KH G D+ AH+K ++ G + I ITD ++++G W+ ++ E
Sbjct: 84 PEKPY--------SQYKHNDTGEDNADAHLKRTIMGREVVIAITDRKMDLGPWEQVFYGE 135
Query: 194 HRDAPTPRKVVITLNG 209
D P++V++ + G
Sbjct: 136 F-DGMRPKRVLVKIIG 150
>pdb|1VE0|A Chain A, Crystal Structure Of Uncharacterized Protein St2072 From
Sulfolobus Tokodaii
Length = 134
Score = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 67/126 (53%), Gaps = 13/126 (10%)
Query: 84 IVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQ 143
I +++++ + G+AH+ + HT+ ++ INE +S + D + K+VP
Sbjct: 21 ITEQVSEAIKGINNGIAHVIVKHTTCAIIINE-AESGLXKDFLNWAKKLVPP-------- 71
Query: 144 GRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKV 203
++H + ++ AH+ S++ G + +PI +G+L++GTWQ I L E D P R V
Sbjct: 72 --DGEFEHNII-DNNGHAHVISAIIGNSRVVPIIEGKLDLGTWQRIILLEF-DGPRTRTV 127
Query: 204 VITLNG 209
++ G
Sbjct: 128 LVKSXG 133
>pdb|1VPH|A Chain A, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
pdb|1VPH|B Chain B, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
pdb|1VPH|C Chain C, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
pdb|1VPH|D Chain D, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
pdb|1VPH|E Chain E, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
pdb|1VPH|F Chain F, Crystal Structure Of A Ybjq-Like Protein Of Unknown
Function (Sso2532) From Sulfolobus Solfataricus P2 At
1.76 A Resolution
Length = 149
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 55/117 (47%), Gaps = 12/117 (10%)
Query: 93 SEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQGRSASWKHT 152
S K G+ +F+ H++A++ NE+ R E L KI S SWKH
Sbjct: 44 SGIKNGICLIFVAHSTAAIVANEHE----RGLMEDILTKIKE-------FTEPSRSWKHN 92
Query: 153 LEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKVVITLNG 209
L D+ AH+ ++ G P+ +G+L GTWQ I+L E + R + + + G
Sbjct: 93 L-IDDNAHAHLGATFLGAERVFPVREGKLVRGTWQNIFLVELDGPRSERHITVEILG 148
>pdb|2P6H|A Chain A, Crystal Structure Of Hypothetical Protein Ape1520 From
Aeropyrum Pernix K1
pdb|2P6H|B Chain B, Crystal Structure Of Hypothetical Protein Ape1520 From
Aeropyrum Pernix K1
Length = 134
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 51/106 (48%), Gaps = 13/106 (12%)
Query: 98 GLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQGRSASWKHTLEGPD 157
GL +++ HT+A++ +NE + D E F+ L WKH L +
Sbjct: 35 GLLVVYVPHTTAAVAVNEAEPRLMEDIVE-----------FIRELTKPGGPWKHNLVDVN 83
Query: 158 DMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKV 203
AH+ +++ G + IP+ G+L++GTWQ I E D P R V
Sbjct: 84 -AHAHLGNTIIGDSRVIPVVGGRLSLGTWQRILFVEM-DGPRERTV 127
>pdb|2CU5|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
Tt1486 From Thermus Thermophilus Hb8
pdb|2CU5|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein
Tt1486 From Thermus Thermophilus Hb8
pdb|2CU5|C Chain C, Crystal Structure Of The Conserved Hypothetical Protein
Tt1486 From Thermus Thermophilus Hb8
Length = 129
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 39/124 (31%), Positives = 58/124 (46%), Gaps = 14/124 (11%)
Query: 84 IVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPELYFVSLLQ 143
I +++ LS GL +LF+ HT+ LT+ E D V D L ++ P
Sbjct: 19 ITRKVEAALSG-HTGLVYLFVPHTTCGLTVQEGADPTVAQDLLGRLAELAP--------- 68
Query: 144 GRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGIWLCEHRDAPTPRKV 203
R LEG + AH+KS + G L + G+L +G WQ ++L E D P R+V
Sbjct: 69 -RHRPQDRHLEG--NSHAHLKSLLTGVHLLLLAEKGRLRLGRWQQVFLAEF-DGPRVREV 124
Query: 204 VITL 207
+ L
Sbjct: 125 WVRL 128
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 79 LITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNK 131
+I P+ K++ QDL +FK + H+ NE + + +++ ETF+NK
Sbjct: 352 VINPEKDKDMVQDLLDFKDKVDHVI----EVCFQKNERFVNLMKESFETFINK 400
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 79 LITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNK 131
+I P+ K++ QDL +FK + H+ NE + + +++ ETF+NK
Sbjct: 335 VINPEKDKDMVQDLLDFKDKVDHVI----EVCFQKNERFVNLMKESFETFINK 383
>pdb|3O9O|A Chain A, Crystal Structure Of Gbs1074, An Esat-6 Homologue From
Group B Streptococcus
pdb|3O9O|B Chain B, Crystal Structure Of Gbs1074, An Esat-6 Homologue From
Group B Streptococcus
Length = 108
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 80 ITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEL-YF 138
+TP+ ++ AQ + + + L T I+EN+D D E N++ P++ F
Sbjct: 18 LTPEELRSSAQKYTAGSQQVTEVLNLLTQEQAVIDENWDGSTFDSFEAQFNELSPKITEF 77
Query: 139 VSLLQ 143
LL+
Sbjct: 78 AQLLE 82
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 0.136 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,150,417
Number of Sequences: 62578
Number of extensions: 187572
Number of successful extensions: 314
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 297
Number of HSP's gapped (non-prelim): 13
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
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: 49 (23.5 bits)