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= 042757
(271 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 = 130 bits (326), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 63/162 (38%), Positives = 103/162 (63%), Gaps = 2/162 (1%)
Query: 108 PIIGGPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNL 167
P++GGPF+L T+ ++LG W+L+YFG+T PDV PE+++ M + +D +DS L
Sbjct: 6 PLLGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKMIQVVDEIDSITTL 65
Query: 168 KIL-PIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFK-KVEEEG 225
L P+F++IDP+RDT + Y+KEF+ ++VGLTG + Q+A+ YRV++ ++E
Sbjct: 66 PDLTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDED 125
Query: 226 DDYLVESSHNMYLMNPSLEVVRCFGVEYTAEELAEEISKEMK 267
+DY+V+ + MYL+ P E + FG E+A I+ M+
Sbjct: 126 EDYIVDHTIIMYLIGPDGEFLDYFGQNKRKGEIAASIATHMR 167
>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 = 127 bits (318), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 61/161 (37%), Positives = 102/161 (63%), Gaps = 2/161 (1%)
Query: 109 IIGGPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNL- 167
++GGPF+L T+ ++LG W+L+YFG+T PDV PE+++ M + +D +DS L
Sbjct: 1 LLGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKMIQVVDEIDSITTLP 60
Query: 168 KILPIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFK-KVEEEGD 226
+ P+F++IDP+RDT + Y+KEF+ ++VGLTG + Q+A+ YRV++ ++E +
Sbjct: 61 DLTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDEDE 120
Query: 227 DYLVESSHNMYLMNPSLEVVRCFGVEYTAEELAEEISKEMK 267
DY+V+ + MYL+ P E + FG E+A I+ M+
Sbjct: 121 DYIVDHTIIMYLIGPDGEFLDYFGQNKRKGEIAASIATHMR 161
>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 = 126 bits (316), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 61/162 (37%), Positives = 102/162 (62%), Gaps = 2/162 (1%)
Query: 108 PIIGGPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNL 167
P++GGPF+L T+ ++LG W+L+YFG+T PDV E+++ M + +D +DS L
Sbjct: 6 PLLGGPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCLEELEKMIQVVDEIDSITTL 65
Query: 168 -KILPIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFK-KVEEEG 225
+ P+F++IDP+RDT + Y+KEF+ ++VGLTG + Q+A+ YRV++ ++E
Sbjct: 66 PDLTPLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDED 125
Query: 226 DDYLVESSHNMYLMNPSLEVVRCFGVEYTAEELAEEISKEMK 267
+DY+V+ + MYL+ P E + FG E+A I+ M+
Sbjct: 126 EDYIVDHTIIMYLIGPDGEFLDYFGQNKRKGEIAASIATHMR 167
>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 = 122 bits (306), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 61/168 (36%), Positives = 98/168 (58%), Gaps = 3/168 (1%)
Query: 103 NRVTG-PIIGGPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDIL 161
NR G P +GGPF L D TE N LG + ++YFG+++ PD+ P+++ + ++ L
Sbjct: 12 NRGYGKPSLGGPFHLEDMYGNEFTEKNLLGKFSIIYFGFSNCPDICPDELDKLGLWLNTL 71
Query: 162 DSKKNLKILPIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFKKV 221
SK + + P+F+T DP RD+PA L+ YL +F+ I+GLTG ++ ++YRV+F
Sbjct: 72 SSKYGITLQPLFITCDPARDSPAVLKEYLSDFHPSILGLTGTFDEVKNACKKYRVYFSTP 131
Query: 222 E--EEGDDYLVESSHNMYLMNPSLEVVRCFGVEYTAEELAEEISKEMK 267
+ G DYLV+ S YLM+P + V G Y + ++I + +K
Sbjct: 132 PNVKPGQDYLVDHSIFFYLMDPEGQFVDALGRNYDEKTGVDKIVEHVK 179
>pdb|1WP0|A Chain A, Human Sco1
pdb|1WP0|B Chain B, Human Sco1
pdb|1WP0|C Chain C, Human Sco1
Length = 165
Score = 116 bits (290), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 58/154 (37%), Positives = 95/154 (61%), Gaps = 2/154 (1%)
Query: 112 GPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKIL- 170
GPF+L T+ ++LG W+L+YFG+T PDV PE+++ + +D +DS L L
Sbjct: 2 GPFSLTTHTGERKTDKDYLGQWLLIYFGFTHCPDVCPEELEKXIQVVDEIDSITTLPDLT 61
Query: 171 PIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFK-KVEEEGDDYL 229
P+F++IDP+RDT + Y+KEF+ ++VGLTG + Q+A+ YRV++ ++E +DY+
Sbjct: 62 PLFISIDPERDTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDEDEDYI 121
Query: 230 VESSHNMYLMNPSLEVVRCFGVEYTAEELAEEIS 263
V+ + YL+ P E + FG E+A I+
Sbjct: 122 VDHTIIXYLIGPDGEFLDYFGQNKRKGEIAASIA 155
>pdb|2RLI|A Chain A, Solution Structure Of Cu(i) Human Sco2
Length = 171
Score = 114 bits (285), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 50/157 (31%), Positives = 96/157 (61%), Gaps = 2/157 (1%)
Query: 112 GPFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNLK-IL 170
G F L+D R + +F G WVL+YFG+T PD+ P++++ + + + L+++ L +
Sbjct: 7 GDFHLLDHRGRARCKADFRGQWVLMYFGFTHCPDICPDELEKLVQVVRQLEAEPGLPPVQ 66
Query: 171 PIFVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFKK-VEEEGDDYL 229
P+F+T+DP+RD + Y+++F+ R++GLTG + Q + YRV++ ++E DY+
Sbjct: 67 PVFITVDPERDDVEAMARYVQDFHPRLLGLTGSTKQVAQASHSYRVYYNAGPKDEDQDYI 126
Query: 230 VESSHNMYLMNPSLEVVRCFGVEYTAEELAEEISKEM 266
V+ S +YL+NP +G +AE++++ + + M
Sbjct: 127 VDHSIAIYLLNPDGLFTDYYGRSRSAEQISDSVRRHM 163
>pdb|2K6V|A Chain A, Solution Structures Of Apo Sco1 Protein From Thermus
Thermophilus
Length = 172
Score = 77.4 bits (189), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 39/115 (33%), Positives = 66/115 (57%), Gaps = 1/115 (0%)
Query: 127 NNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPIFVTIDPQRDTPAHL 186
+ F VLL+FG+T PDV P + + +A + L K ++ IFV++DP+RD P
Sbjct: 31 SQFQDKVVLLFFGFTRCPDVCPTTLLALKRAYEKLPPKAQERVQVIFVSVDPERDPPEVA 90
Query: 187 RAYLKEFNSRIVGLTGPVGAIRQMAQEYRVFFKKVEEEG-DDYLVESSHNMYLMN 240
Y K F+ +GL+G A+R+ AQ + VF++K + G +YLV+ + +++
Sbjct: 91 DRYAKAFHPSFLGLSGSPEAVREAAQTFGVFYQKSQYRGPGEYLVDHTATTFVVK 145
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 76/163 (46%), Gaps = 9/163 (5%)
Query: 113 PFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPI 172
PFT + + + V+ + G L F +T+ + P M L ++ N+ + I
Sbjct: 15 PFTFQNQDGKNVSLESLKGEVWLADFIFTNCETICPPMTAHMTDLQKKLKAE-NIDVRII 73
Query: 173 FVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRV-FFKKV--EEEGDDYL 229
++DP+ D P L+ + + G + +E+ + FK + + EG+D +
Sbjct: 74 SFSVDPENDKPKQLKKFAANYPLSFDNWDFLTGYSQSEIEEFALKSFKAIVKKPEGEDQV 133
Query: 230 VESSHNMYLMNPSLEVVRCF-GVEYTAEELAEEISKEMKKAST 271
+ S + YL+ P +V++ + GVE T ++I ++K AST
Sbjct: 134 IHQS-SFYLVGPDGKVLKDYNGVENTP---YDDIISDVKSAST 172
>pdb|1ON4|A Chain A, Solution Structure Of Soluble Domain Of Sco1 From Bacillus
Subtilis
Length = 174
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 76/163 (46%), Gaps = 9/163 (5%)
Query: 113 PFTLIDTENRLVTENNFLGNWVLLYFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPI 172
PFT + + + V+ + G L F +T+ + P M L ++ N+ + I
Sbjct: 15 PFTFQNQDGKNVSLESLKGEVWLADFIFTNCETICPPMTAHMTDLQKKLKAE-NIDVRII 73
Query: 173 FVTIDPQRDTPAHLRAYLKEFNSRIVGLTGPVGAIRQMAQEYRV-FFKKV--EEEGDDYL 229
++DP+ D P L+ + + G + +E+ + FK + + EG+D +
Sbjct: 74 SFSVDPENDKPKQLKKFAANYPLSFDNWDFLTGYSQSEIEEFALKSFKAIVKKPEGEDQV 133
Query: 230 VESSHNMYLMNPSLEVVRCF-GVEYTAEELAEEISKEMKKAST 271
+ S + YL+ P +V++ + GVE T ++I ++K AST
Sbjct: 134 IHQS-SFYLVGPDGKVLKDYNGVENTP---YDDIISDVKSAST 172
>pdb|3VJR|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli In Complex With The
Cca-Acceptor-T[psi]c Domain Of Trna
pdb|3VJR|C Chain C, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli In Complex With The
Cca-Acceptor-T[psi]c Domain Of Trna
Length = 197
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 137 YFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPIFVTIDPQRDTPAH 185
+FGYTS +G E V+++ + S K + + F I+P AH
Sbjct: 48 FFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFFRINPDEILVAH 96
>pdb|3OFV|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
pdb|3OFV|B Chain B, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
pdb|3OFV|C Chain C, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
Length = 211
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 137 YFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPIFVTIDPQRDTPAH 185
+FGYTS +G E V+++ + S K + + F I+P AH
Sbjct: 65 FFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFFRINPDEILVAH 113
>pdb|2PTH|A Chain A, Peptidyl-Trna Hydrolase From Escherichia Coli
Length = 193
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 137 YFGYTSSPDVGPEQVQMMAKAIDILDSKKNLKILPIFVTIDPQRDTPAH 185
+FGYTS +G E V+++ + S K + + F I+P AH
Sbjct: 44 FFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFFRINPDEILVAH 92
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 0.134 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,703,499
Number of Sequences: 62578
Number of extensions: 301459
Number of successful extensions: 687
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 17
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
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: 51 (24.3 bits)