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= 031109
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LKN|A Chain A, Solution Nmr Structure Of Protein Tm_1112 From Thermotoga
Maritima. Ontario Centre For Structural Proteomics
Target Tm1112_1_89; Northeast Structural Genomics
Consortium Target Vt74.
pdb|2K9Z|A Chain A, Nmr Structure Of The Protein Tm1112
Length = 89
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 54/116 (46%), Gaps = 28/116 (24%)
Query: 49 LGVKIERNPPESKLTELGVRQWPKHCHTGGQPRVLPSKKTHLEAIWRILRWGCPPSKFPW 108
+ VKIE+ PE KL EL V +WP W S+F W
Sbjct: 1 MEVKIEKPTPE-KLKELSVEKWP--------------------------IWEKEVSEFDW 33
Query: 109 TYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSCTWDVSVGVDKHYKF 164
Y ETCY+LEGKV+V + + V I GDLV FPKG+ C W V V KHY
Sbjct: 34 YYDTNETCYILEGKVEVTTEDGKKYV-IEKGDLVTFPKGLRCRWKVLEPVRKHYNL 88
>pdb|1O5U|A Chain A, Crystal Structure Of A Duf861 Family Protein (Tm1112) From
Thermotoga Maritima At 1.83 A Resolution
pdb|1O5U|B Chain B, Crystal Structure Of A Duf861 Family Protein (Tm1112) From
Thermotoga Maritima At 1.83 A Resolution
Length = 101
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 54/116 (46%), Gaps = 28/116 (24%)
Query: 49 LGVKIERNPPESKLTELGVRQWPKHCHTGGQPRVLPSKKTHLEAIWRILRWGCPPSKFPW 108
+ VKIE+ PE KL EL V +WP W S+F W
Sbjct: 13 MEVKIEKPTPE-KLKELSVEKWP--------------------------IWEKEVSEFDW 45
Query: 109 TYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSCTWDVSVGVDKHYKF 164
Y ETCY+LEGKV+V + + V I GDLV FPKG+ C W V V KHY
Sbjct: 46 YYDTNETCYILEGKVEVTTEDGKKYV-IEKGDLVTFPKGLRCRWKVLEPVRKHYNL 100
>pdb|3BCW|A Chain A, Crystal Structure Of A Duf861 Family Protein With A
Rmlc-Like Cupin Fold (Bb1179) From Bordetella
Bronchiseptica Rb50 At 1.60 A Resolution
pdb|3BCW|B Chain B, Crystal Structure Of A Duf861 Family Protein With A
Rmlc-Like Cupin Fold (Bb1179) From Bordetella
Bronchiseptica Rb50 At 1.60 A Resolution
Length = 123
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 114 ETCYLLEGKVK-VYPDGSNEGVEIGAGDLVVFPKGMSCTWDVSVGVDKHY 162
E C+++EG+ + V PDG+ V+ AGD + P+G + W+V V K Y
Sbjct: 70 EYCHIIEGEARLVDPDGTVHAVK--AGDAFIXPEGYTGRWEVDRHVKKIY 117
>pdb|4AXO|A Chain A, Structure Of The Clostridium Difficile Eutq Protein
pdb|4AXO|B Chain B, Structure Of The Clostridium Difficile Eutq Protein
Length = 151
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 98 RWGC-----PPSKFPWTYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSCTW 152
R GC + F WT + E Y+++G + + DG V +G+L+ PKG +
Sbjct: 65 RLGCGMMEMKETTFDWTLNYDEIDYVIDGTLDIIIDGRK--VSASSGELIFIPKGSKIQF 122
Query: 153 DV 154
V
Sbjct: 123 SV 124
>pdb|2CB5|A Chain A, Human Bleomycin Hydrolase, C73s/dele455 Mutant
pdb|2CB5|B Chain B, Human Bleomycin Hydrolase, C73s/dele455 Mutant
Length = 453
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 17/94 (18%)
Query: 41 MSTTTIEKLGVKIERNPPESKLTELGVR-------QWPKHC-------HTGG-QPRVLPS 85
M +EK GV ++ PES TE R + + C H+G + + +
Sbjct: 148 MLVNIVEKYGVIPKKCFPESYTTEATRRMNDILNHKMREFCIRLRNLVHSGATKGEISAT 207
Query: 86 KKTHLEAIWRI--LRWGCPPSKFPWTYSDKETCY 117
+ +E I+R+ + G PP F W Y DK+ Y
Sbjct: 208 QDVMMEEIFRVVCICLGNPPETFTWEYRDKDKNY 241
>pdb|1CB5|A Chain A, Human Bleomycin Hydrolase.
pdb|1CB5|B Chain B, Human Bleomycin Hydrolase.
pdb|1CB5|C Chain C, Human Bleomycin Hydrolase
Length = 453
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 17/94 (18%)
Query: 41 MSTTTIEKLGVKIERNPPESKLTELGVR-------QWPKHC-------HTGG-QPRVLPS 85
M +EK GV ++ PES TE R + + C H+G + + +
Sbjct: 148 MLVNIVEKYGVIPKKCFPESYTTEATRRMNDILNHKMREFCIRLRNLVHSGATKGEISAT 207
Query: 86 KKTHLEAIWRI--LRWGCPPSKFPWTYSDKETCY 117
+ +E I+R+ + G PP F W Y DK+ Y
Sbjct: 208 QDVMMEEIFRVVCICLGNPPETFTWEYRDKDKNY 241
>pdb|2PYT|A Chain A, Crystal Structure Of A Putative Ethanolamine Utilization
Protein Q (Eutq, Stm2468) From Salmonella Typhimurium
Lt2 At 1.90 A Resolution
pdb|2PYT|B Chain B, Crystal Structure Of A Putative Ethanolamine Utilization
Protein Q (Eutq, Stm2468) From Salmonella Typhimurium
Lt2 At 1.90 A Resolution
Length = 133
Score = 30.0 bits (66), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 106 FPWTYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSC 150
FPWT + E +LEG++ V +G + AGD+ PKG S
Sbjct: 69 FPWTLNYDEIDXVLEGELHVRHEGETXIAK--AGDVXFIPKGSSI 111
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 29.6 bits (65), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 51 VKIERNPPESKLTELGVRQWPKHC 74
+ +++ SK+T L ++ WP HC
Sbjct: 106 IVVQKTTGNSKITNLNIQNWPVHC 129
>pdb|3EO6|A Chain A, Crystal Structure Of Protein Of Unknown Function (Duf1255)
(Afe_2634) From Acidithiobacillus Ferrooxidans Ncib8455
At 0.97 A Resolution
pdb|3EO6|B Chain B, Crystal Structure Of Protein Of Unknown Function (Duf1255)
(Afe_2634) From Acidithiobacillus Ferrooxidans Ncib8455
At 0.97 A Resolution
Length = 106
Score = 29.6 bits (65), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%)
Query: 103 PSKFPWTYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSCTWDVSVGVD 159
P + + ET +L G + +G+N+ E+ AGD V P S +V +D
Sbjct: 45 PGVYTLSSEVAETIRVLSGXAYYHAEGANDVQELHAGDSXVIPANQSYRLEVXEPLD 101
>pdb|3LWC|A Chain A, Crystal Structure Of Structural Genomics, Unknown Function
(Yp_766765.1) From Rhizobium Leguminosarum Bv. Viciae
3841 At 1.40 A Resolution
Length = 119
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 101 CPPSKFPWTYSDKETCYLLEGKVKVYPDGSNEGVEIGAGDLVVFPKGMSCT 151
P T + + +LEG++ V DG E V G G++V PKG + T
Sbjct: 48 APGQSLTETXAVDDVXIVLEGRLSVSTDG--ETVTAGPGEIVYXPKGETVT 96
>pdb|2VQA|A Chain A, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca.
pdb|2VQA|B Chain B, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca.
pdb|2VQA|C Chain C, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca
Length = 361
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 108 WTYSDKETCYLLEGKVKVY---PDGSNEGVEIGAGDLVVFPKG 147
W + E Y++EG+ ++ P+G E ++ G L FP+G
Sbjct: 69 WHANAAEWAYVMEGRTRITLTSPEGKVEIADVDKGGLWYFPRG 111
>pdb|3DMI|A Chain A, Crystallization And Structural Analysis Of Cytochrome C6
From The Diatom Phaeodactylum Tricornutum At 1.5 A
Resolution
Length = 88
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 74 CHTGGQPRVLPSKKTHLEAIWRILRWG 100
CH GGQ ++P K EA+ + L G
Sbjct: 17 CHAGGQNVIMPEKTLEKEALDQYLAGG 43
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 0.134 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,375,342
Number of Sequences: 62578
Number of extensions: 219507
Number of successful extensions: 324
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 316
Number of HSP's gapped (non-prelim): 15
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)