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= psy17592
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GQK|A Chain A, Solution Structure Of Human Ni(Ii)-Sco1
pdb|2GQL|A Chain A, Solution Structure Of Human Ni(Ii)-Sco1
pdb|2GQM|A Chain A, Solution Structure Of Human Cu(I)-Sco1
pdb|2GT5|A Chain A, Solution Structure Of Apo Human Sco1
pdb|2GT6|A Chain A, Solution Structure Of Human Cu(I) Sco1
pdb|2GVP|A Chain A, Solution Structure Of Human Apo Sco1
Length = 173
Score = 167 bits (423), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 74/126 (58%), Positives = 94/126 (74%)
Query: 58 GKVAIGGKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQP 117
GK +GG F L + +D+LG+W LIYFGFTHCPD+CP+ELEKM VV++ID
Sbjct: 4 GKPLLGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKMIQVVDEIDSIT 63
Query: 118 NVPNITPIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKD 177
+P++TP+FIS+DPERDT E + YVKEFSPK +GLTGT E+V +AYRVY+S GPKD
Sbjct: 64 TLPDLTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKD 123
Query: 178 KDSDYI 183
+D DYI
Sbjct: 124 EDEDYI 129
>pdb|2GGT|A Chain A, Crystal Structure Of Human Sco1 Complexed With Nickel.
pdb|2GGT|B Chain B, Crystal Structure Of Human Sco1 Complexed With Nickel
Length = 164
Score = 165 bits (417), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 72/122 (59%), Positives = 92/122 (75%)
Query: 62 IGGKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPN 121
+GG F L + +D+LG+W LIYFGFTHCPD+CP+ELEKM VV++ID +P+
Sbjct: 2 LGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKMIQVVDEIDSITTLPD 61
Query: 122 ITPIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKDKDSD 181
+TP+FIS+DPERDT E + YVKEFSPK +GLTGT E+V +AYRVY+S GPKD+D D
Sbjct: 62 LTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDEDED 121
Query: 182 YI 183
YI
Sbjct: 122 YI 123
>pdb|2HRF|A Chain A, Solution Structure Of Cu(i) P174l Hsco1
pdb|2HRN|A Chain A, Solution Structure Of Cu(I) P174l-Hsco1
Length = 173
Score = 164 bits (414), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 73/126 (57%), Positives = 93/126 (73%)
Query: 58 GKVAIGGKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQP 117
GK +GG F L + +D+LG+W LIYFGFTHCPD+C +ELEKM VV++ID
Sbjct: 4 GKPLLGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCLEELEKMIQVVDEIDSIT 63
Query: 118 NVPNITPIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKD 177
+P++TP+FIS+DPERDT E + YVKEFSPK +GLTGT E+V +AYRVY+S GPKD
Sbjct: 64 TLPDLTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKD 123
Query: 178 KDSDYI 183
+D DYI
Sbjct: 124 EDEDYI 129
>pdb|2RLI|A Chain A, Solution Structure Of Cu(i) Human Sco2
Length = 171
Score = 159 bits (402), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 66/126 (52%), Positives = 91/126 (72%)
Query: 58 GKVAIGGKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQP 117
G G F L+D + DF G+W L+YFGFTHCPDICPDELEK+ VV +++ +P
Sbjct: 1 GSFTGQGDFHLLDHRGRARCKADFRGQWVLMYFGFTHCPDICPDELEKLVQVVRQLEAEP 60
Query: 118 NVPNITPIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKD 177
+P + P+FI+VDPERD E + +YV++F P+ +GLTG+ +QVA A +YRVY++AGPKD
Sbjct: 61 GLPPVQPVFITVDPERDDVEAMARYVQDFHPRLLGLTGSTKQVAQASHSYRVYYNAGPKD 120
Query: 178 KDSDYI 183
+D DYI
Sbjct: 121 EDQDYI 126
>pdb|1WP0|A Chain A, Human Sco1
pdb|1WP0|B Chain B, Human Sco1
pdb|1WP0|C Chain C, Human Sco1
Length = 165
Score = 159 bits (401), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 70/120 (58%), Positives = 89/120 (74%)
Query: 64 GKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNIT 123
G F L + +D+LG+W LIYFGFTHCPD+CP+ELEK VV++ID +P++T
Sbjct: 2 GPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKXIQVVDEIDSITTLPDLT 61
Query: 124 PIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKDKDSDYI 183
P+FIS+DPERDT E + YVKEFSPK +GLTGT E+V +AYRVY+S GPKD+D DYI
Sbjct: 62 PLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDEDEDYI 121
>pdb|2B7J|A Chain A, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|B Chain B, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|C Chain C, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|D Chain D, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7K|A Chain A, Crystal Structure Of Yeast Sco1
pdb|2B7K|B Chain B, Crystal Structure Of Yeast Sco1
pdb|2B7K|C Chain C, Crystal Structure Of Yeast Sco1
pdb|2B7K|D Chain D, Crystal Structure Of Yeast Sco1
Length = 200
Score = 127 bits (318), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 59/135 (43%), Positives = 87/135 (64%), Gaps = 2/135 (1%)
Query: 50 EKERRRNLGKVAIGGKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAV 109
E E R GK ++GG F L D ++ LGK+++IYFGF++CPDICPDEL+K+
Sbjct: 8 EAEANRGYGKPSLGGPFHLEDMYGNEFTEKNLLGKFSIIYFGFSNCPDICPDELDKLGLW 67
Query: 110 VNKIDGQPNVPNITPIFISVDPERDTPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRV 169
+N + + + + P+FI+ DP RD+P ++ +Y+ +F P +GLTGT ++V ACK YRV
Sbjct: 68 LNTLSSKYGI-TLQPLFITCDPARDSPAVLKEYLSDFHPSILGLTGTFDEVKNACKKYRV 126
Query: 170 YFSAGPKDK-DSDYI 183
YFS P K DY+
Sbjct: 127 YFSTPPNVKPGQDYL 141
>pdb|2K6V|A Chain A, Solution Structures Of Apo Sco1 Protein From Thermus
Thermophilus
Length = 172
Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 40/109 (36%), Positives = 60/109 (55%), Gaps = 1/109 (0%)
Query: 75 PVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPIFISVDPERD 134
PV+ F K L++FGFT CPD+CP L + K+ + + IF+SVDPERD
Sbjct: 27 PVRLSQFQDKVVLLFFGFTRCPDVCPTTLLALKRAYEKLPPKAQ-ERVQVIFVSVDPERD 85
Query: 135 TPELVGKYVKEFSPKFIGLTGTVEQVAAACKAYRVYFSAGPKDKDSDYI 183
PE+ +Y K F P F+GL+G+ E V A + + V++ +Y+
Sbjct: 86 PPEVADRYAKAFHPSFLGLSGSPEAVREAAQTFGVFYQKSQYRGPGEYL 134
>pdb|4HDE|A Chain A, The Crystal Structure Of A Sco1SENC FAMILY LIPOPROTEIN
FROM BACILLUS Anthracis Str. Ames
Length = 170
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 66 FELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPI 125
F+ + + KP ++D GK + F FT+C +CP A + + + ++ +
Sbjct: 15 FQFTNQDGKPFGTKDLKGKVWVADFXFTNCQTVCPPXTANXAKL--QKXAKEEKLDVQFV 72
Query: 126 FISVDPERDTPELVGKYVKEFS 147
SVDP+ D PE + ++++F+
Sbjct: 73 SFSVDPDLDKPENLKAFIQKFT 94
>pdb|1XZO|A Chain A, Identification Of A Disulfide Switch In Bssco, A Member Of
The Sco Family Of Cytochrome C Oxidase Assembly Proteins
pdb|1XZO|B Chain B, Identification Of A Disulfide Switch In Bssco, A Member Of
The Sco Family Of Cytochrome C Oxidase Assembly Proteins
Length = 174
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 2/85 (2%)
Query: 66 FELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPI 125
F + + K V E G+ L F FT+C ICP M + K+ + N+ ++ I
Sbjct: 16 FTFQNQDGKNVSLESLKGEVWLADFIFTNCETICPPMTAHMTDLQKKLKAE-NI-DVRII 73
Query: 126 FISVDPERDTPELVGKYVKEFSPKF 150
SVDPE D P+ + K+ + F
Sbjct: 74 SFSVDPENDKPKQLKKFAANYPLSF 98
>pdb|1ON4|A Chain A, Solution Structure Of Soluble Domain Of Sco1 From Bacillus
Subtilis
Length = 174
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 2/85 (2%)
Query: 66 FELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPI 125
F + + K V E G+ L F FT+C ICP M + K+ + N+ ++ I
Sbjct: 16 FTFQNQDGKNVSLESLKGEVWLADFIFTNCETICPPMTAHMTDLQKKLKAE-NI-DVRII 73
Query: 126 FISVDPERDTPELVGKYVKEFSPKF 150
SVDPE D P+ + K+ + F
Sbjct: 74 SFSVDPENDKPKQLKKFAANYPLSF 98
>pdb|1JFU|A Chain A, Crystal Structure Of The Soluble Domain Of Tlpa From
Bradyrhizobium Japonicum
pdb|1JFU|B Chain B, Crystal Structure Of The Soluble Domain Of Tlpa From
Bradyrhizobium Japonicum
Length = 186
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 70 DCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPIFISV 129
D + KP K DF GK L+ T C C E+ + + K+ G PN + I++
Sbjct: 47 DADGKPKKLSDFRGKTLLVNLWATWCVP-CRKEMPALDELQGKLSG----PNFEVVAINI 101
Query: 130 DPERDTPELVGKYVKEFSPKFIG 152
D RD PE ++KE + +G
Sbjct: 102 D-TRD-PEKPKTFLKEANLTRLG 122
>pdb|3ME7|A Chain A, Crystal Structure Of Putative Electron Transport Protein
Aq_2194 From Aquifex Aeolicus Vf5
pdb|3ME7|B Chain B, Crystal Structure Of Putative Electron Transport Protein
Aq_2194 From Aquifex Aeolicus Vf5
pdb|3ME8|A Chain A, Crystal Structure Of Putative Electron Transfer Protein
Aq_2194 From Aquifex Aeolicus Vf5
pdb|3ME8|B Chain B, Crystal Structure Of Putative Electron Transfer Protein
Aq_2194 From Aquifex Aeolicus Vf5
Length = 170
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 64 GKFELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNIT 123
G LVD + ++ GK ++ +THC CP + + V+ K+ G P +
Sbjct: 9 GDITLVDSYGNEFQLKNLKGKPIILSPIYTHCRAACPLITKSLLKVIPKL-GTPG-KDFW 66
Query: 124 PIFISVDPERDTPELVGKYVKEFS 147
I + DP +DT E + ++ KE+
Sbjct: 67 VITFTFDP-KDTLEDIKRFQKEYG 89
>pdb|3IA1|A Chain A, Crystal Structure Of Thio-Disulfide Isomerase From Thermus
Thermophilus
pdb|3IA1|B Chain B, Crystal Structure Of Thio-Disulfide Isomerase From Thermus
Thermophilus
Length = 154
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 11/91 (12%)
Query: 66 FELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAAVVNKIDGQPNVPNITPI 125
F L+D +PV + K A+I F + C +C E + V + P
Sbjct: 14 FLLLDPKGQPVTPAT-VSKPAVIVFWASWC-TVCKAEFPGLHRVAEETG--------VPF 63
Query: 126 FISVDPERDTPELVGKYVKEFSPKFIGLTGT 156
++ RDT E+V +Y+K + P+FI L +
Sbjct: 64 YVISREPRDTREVVLEYMKTY-PRFIPLLAS 93
>pdb|3C71|A Chain A, Struture Of A Resa Variant With A Dsba-Like Active Site
Motif (Cphc)
Length = 143
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 66 FELVDCNNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMA 107
F L D N K ++ D GK + F T CP C E MA
Sbjct: 9 FVLEDTNGKRIELSDLKGKGVFLNFWGTWCPH-CKKEFPYMA 49
>pdb|3M6D|A Chain A, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
pdb|3M6D|B Chain B, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
pdb|3MKK|A Chain A, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
In Complex With Isomaltose
pdb|3MKK|B Chain B, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
In Complex With Isomaltose
pdb|3POC|A Chain A, The Crystal Structure Of The D307a Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
pdb|3POC|B Chain B, The Crystal Structure Of The D307a Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
Length = 666
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 6/80 (7%)
Query: 72 NNKPVKSEDFLGKWALIYFGFTHCPDICPDELEKMAA------VVNKIDGQPNVPNITPI 125
NN K ED A ++ G TH PD+ E K + I+G N N I
Sbjct: 257 NNYFCKREDGSDFVAAVWPGDTHFPDMLNPEARKWFGDKYRFLIDQGIEGFWNAMNEPAI 316
Query: 126 FISVDPERDTPELVGKYVKE 145
F S + + E G++ K+
Sbjct: 317 FYSSEGLAEAKEFAGEFAKD 336
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
0.319 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,915,457
Number of Sequences: 62578
Number of extensions: 253685
Number of successful extensions: 527
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 513
Number of HSP's gapped (non-prelim): 22
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)