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= 025199
(256 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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/106 (39%), Positives = 64/106 (60%), Gaps = 5/106 (4%)
Query: 89 AQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHTLEGP 148
A D S G+A +F HT+A +TINEN D DV D L+K+ P + +KH +EG
Sbjct: 39 AVDESGVSDGMAVVFCPHTTAGITINENADPDVTRDILVNLDKVFP--KVGDYKH-VEG- 94
Query: 149 DDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVKEL 194
+ AHIK+S+ G + I I +G+L +GTWQG++ +G R +++
Sbjct: 95 -NSHAHIKASLMGSSQQIIIENGKLKLGTWQGIYFTEFDGPRDRKV 139
>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 = 71.2 bits (173), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 66/112 (58%), Gaps = 5/112 (4%)
Query: 89 AQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHTLEGP 148
A D S G A +F HT+A +TINEN D DV D L+K+ P + +KH +EG
Sbjct: 27 AVDESGVSDGXAVVFCPHTTAGITINENADPDVTRDILVNLDKVFP--KVGDYKH-VEG- 82
Query: 149 DDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVKELHGCMLL 200
+ AHIK+S+ G + I I +G+L +GTWQG++ +G R +++ ++L
Sbjct: 83 -NSHAHIKASLXGSSQQIIIENGKLKLGTWQGIYFTEFDGPRDRKVFVKIIL 133
>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 = 64.3 bits (155), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 39/121 (32%), Positives = 69/121 (57%), Gaps = 3/121 (2%)
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 PEGRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVKE 193
PE + +KH G D+ AH+K ++ G + I ITD ++++G W+ +F +G+R K
Sbjct: 84 PEKPYSQYKHNDTGEDNADAHLKRTIMGREVVIAITDRKMDLGPWEQVFYGEFDGMRPKR 143
Query: 194 L 194
+
Sbjct: 144 V 144
>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 = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 36/97 (37%), Positives = 57/97 (58%), Gaps = 12/97 (12%)
Query: 98 GLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHT----LEGPDDMPA 153
G+A + LHT+A +T+NEN D DV+ D L+++ P W H +EG + A
Sbjct: 45 GVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYP------WHHENDRHMEG--NTAA 96
Query: 154 HIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLR 190
H+K+S G T+ I++G+L +GTWQG++ +G R
Sbjct: 97 HLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPR 133
>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 = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 36/121 (29%), Positives = 66/121 (54%), Gaps = 5/121 (4%)
Query: 74 RRGCHLITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIV 133
RR IT ++ K + + SE K GL + +H ++S+ I ++ + + +D +L K+
Sbjct: 15 RRELIRITDEVKKAVEE--SEVKEGLCLVSSMHLTSSVIIQDD-EEGLHEDIWEWLEKLA 71
Query: 134 PEGRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVKE 193
P +KH G D+ AH+K+ + + +PIT+G+L++G WQ +F +G R K
Sbjct: 72 P--YRPDYKHHRTGEDNGDAHLKNLLTHLQVVLPITNGKLDLGPWQEIFYAEFDGQRPKR 129
Query: 194 L 194
+
Sbjct: 130 V 130
>pdb|1VE0|A Chain A, Crystal Structure Of Uncharacterized Protein St2072 From
Sulfolobus Tokodaii
Length = 134
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 63/109 (57%), Gaps = 4/109 (3%)
Query: 84 IVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKH 143
I +++++ + G+AH+ + HT+ ++ INE +S + D + K+VP ++H
Sbjct: 21 ITEQVSEAIKGINNGIAHVIVKHTTCAIIINE-AESGLXKDFLNWAKKLVPP--DGEFEH 77
Query: 144 TLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVK 192
+ ++ AH+ S++ G + +PI +G+L++GTWQ + L +G R +
Sbjct: 78 NII-DNNGHAHVISAIIGNSRVVPIIEGKLDLGTWQRIILLEFDGPRTR 125
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 58/106 (54%), Gaps = 5/106 (4%)
Query: 85 VKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHT 144
V++I + S K G+ +F+ H++A++ NE ++ + +D T + + RS WKH
Sbjct: 37 VEQIVEK-SGIKNGICLIFVAHSTAAIVANE-HERGLMEDILTKIKEFTEPSRS--WKHN 92
Query: 145 LEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLR 190
L D+ AH+ ++ G P+ +G+L GTWQ +F + +G R
Sbjct: 93 L-IDDNAHAHLGATFLGAERVFPVREGKLVRGTWQNIFLVELDGPR 137
>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 = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 52/97 (53%), Gaps = 4/97 (4%)
Query: 98 GLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHTLEGPDDMPAHIKS 157
GL +LF+ HT+ LT+ E D V D L ++ P R +H LEG + AH+KS
Sbjct: 32 GLVYLFVPHTTCGLTVQEGADPTVAQDLLGRLAELAPRHRPQD-RH-LEG--NSHAHLKS 87
Query: 158 SMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLRVKEL 194
+ G L + G+L +G WQ +F +G RV+E+
Sbjct: 88 LLTGVHLLLLAEKGRLRLGRWQQVFLAEFDGPRVREV 124
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 53/93 (56%), Gaps = 4/93 (4%)
Query: 98 GLAHLFLLHTSASLTINENYDSDVRDDTETFLNKIVPEGRSASWKHTLEGPDDMPAHIKS 157
GL +++ HT+A++ +NE + + +D F+ ++ G WKH L + AH+ +
Sbjct: 35 GLLVVYVPHTTAAVAVNE-AEPRLMEDIVEFIRELTKPG--GPWKHNLVDVNAH-AHLGN 90
Query: 158 SMFGCTLTIPITDGQLNMGTWQGMFTLTHNGLR 190
++ G + IP+ G+L++GTWQ + + +G R
Sbjct: 91 TIIGDSRVIPVVGGRLSLGTWQRILFVEMDGPR 123
>pdb|2O14|A Chain A, X-Ray Crystal Structure Of Protein Yxim_bacsu From
Bacillus Subtilis. Northeast Structural Genomics
Consortium Target Sr595
Length = 375
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 53/128 (41%), Gaps = 22/128 (17%)
Query: 75 RGCHLITPKIVKEIAQDLSEFKCGLAHLFLLHTSASLTINENYDSDVRDDTETFLN---- 130
+G TP+ +++A + K T ++ T N + + + + T N
Sbjct: 42 KGYGFQTPENXRDVAASGAGVKSDAVEFLAYGTKSNNTFNVDLPNGLYEVKVTLGNTARA 101
Query: 131 KIVPEGRSASWKHTLEGPDDMPAHIKSSMFGCTLTIPITDGQLNMGTWQG----MFTLTH 186
+ EG T +G +D T IP+TDGQLN+ +G FTL+
Sbjct: 102 SVAAEGVFQVINXTGDGAED------------TFQIPVTDGQLNLLVTEGKAGTAFTLS- 148
Query: 187 NGLRVKEL 194
L++K+L
Sbjct: 149 -ALKIKKL 155
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 29.6 bits (65), Expect = 1.9, 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 = 29.6 bits (65), Expect = 1.9, 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
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 0.133 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,257,467
Number of Sequences: 62578
Number of extensions: 217677
Number of successful extensions: 508
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 493
Number of HSP's gapped (non-prelim): 12
length of query: 256
length of database: 14,973,337
effective HSP length: 97
effective length of query: 159
effective length of database: 8,903,271
effective search space: 1415620089
effective search space used: 1415620089
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)