BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645546|ref|NP_207722.1| stationary-phase survival
protein (surE) [Helicobacter pylori 26695]
(267 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1J9L|A Chain A, Crystal Structure Of Sure Protein From ... 144 1e-35
pdb|1ILV|B Chain B, Crystal Structure Analysis Of The Tm107... 138 6e-34
pdb|1HSL|A Chain A, Histidine-Binding Protein Complexed Wit... 27 2.4
pdb|1IHG|A Chain A, Bovine Cyclophilin 40, Monoclinic Form ... 26 4.1
pdb|1AXC|E Chain E, Human Pcna >gi|2914385|pdb|1AXC|C Chain... 25 9.2
pdb|1QLA|A Chain A, Respiratory Complex Ii-Like Fumarate Re... 25 9.2
pdb|1E7P|G Chain G, Quinol:fumarate Reductase From Wolinell... 25 9.2
pdb|1E7P|A Chain A, Quinol:fumarate Reductase From Wolinell... 25 9.2
pdb|1AXC|A Chain A, Human Pcna 25 9.2
>pdb|1J9L|A Chain A, Crystal Structure Of Sure Protein From T.Maritima In
Complex With Vanadate
pdb|1J9L|B Chain B, Crystal Structure Of Sure Protein From T.Maritima In
Complex With Vanadate
pdb|1J9J|A Chain A, Crystal Structure Analysis Of Sure Protein From T.Maritima
pdb|1J9J|B Chain B, Crystal Structure Analysis Of Sure Protein From T.Maritima
pdb|1J9K|A Chain A, Crystal Structure Of Sure Protein From T.Maritima In
Complex With Tungstate
pdb|1J9K|B Chain B, Crystal Structure Of Sure Protein From T.Maritima In
Complex With Tungstate
Length = 247
Score = 144 bits (362), Expect = 1e-35
Identities = 98/262 (37%), Positives = 143/262 (54%), Gaps = 17/262 (6%)
Query: 3 KILLTNDDGYHAKGIKALEQALEEMAEIYVVAPKHEKSACSQCITITAPLRAEKIKGKEG 62
+IL+TNDDG +KGI L + L E E++VVAP E+SA ITI PL +K+ E
Sbjct: 2 RILVTNDDGIQSKGIIVLAELLSEEHEVFVVAPDKERSATGHSITIHVPLWMKKVFISER 61
Query: 63 RHYRIDDGTPSDCVYLAINELF-KHVCFDLVISGINLGSNMGEDTIYSGTVAGAIEGTIQ 121
GTP+DCV LA N + K V DL++SG+N G NMG D ++SGTV+GA+EG +
Sbjct: 62 VVAYSTTGTPADCVKLAYNVVMDKRV--DLIVSGVNRGPNMGMDILHSGTVSGAMEGAMM 119
Query: 122 GVPSIAISQILSNKNKNTPLSFDLAQKIIQDLVQNIFTKGYPLKGRKLLNVNVPNCSLQE 181
+PSIAI S+ N +P A+ +I L + F+ P +LN+NVP E
Sbjct: 120 NIPSIAI----SSANYESPDFEGAARFLIDFLKEFDFSLLDPF---TMLNINVP---AGE 169
Query: 182 YQGERITPKGYRLYKKEVHKRTDPKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHAS 241
+G R T + R + +R P E Y+W+ +E R++ D+ A+ + S
Sbjct: 170 IKGWRFTRQSRRRWNDYFEERVSPFGEKYYWMMGEVIEDDDRDD----VDYKAVREGYVS 225
Query: 242 ITPLNLDLTSYDDLKSLESWHE 263
ITP++ LT+ LK L ++
Sbjct: 226 ITPIHPFLTNEQCLKKLREVYD 247
>pdb|1ILV|B Chain B, Crystal Structure Analysis Of The Tm107
pdb|1ILV|A Chain A, Crystal Structure Analysis Of The Tm107
Length = 247
Score = 138 bits (348), Expect = 6e-34
Identities = 97/262 (37%), Positives = 138/262 (52%), Gaps = 17/262 (6%)
Query: 3 KILLTNDDGYHAKGIKALEQALEEMAEIYVVAPKHEKSACSQCITITAPLRAEKIKGKEG 62
+IL+TNDDG +KGI L + L E E++VVAP E+SA ITI PL +K+ E
Sbjct: 2 RILVTNDDGIQSKGIIVLAELLSEEHEVFVVAPDKERSATGHSITIHVPLWXKKVFISER 61
Query: 63 RHYRIDDGTPSDCVYLAINELF-KHVCFDLVISGINLGSNMGEDTIYSGTVAGAIEGTIQ 121
GTP+DCV LA N + K V DL++SG+N G N G D ++SGTV+GA EG
Sbjct: 62 VVAYSTTGTPADCVKLAYNVVXDKRV--DLIVSGVNRGPNXGXDILHSGTVSGAXEGAXX 119
Query: 122 GVPSIAISQILSNKNKNTPLSFDLAQKIIQDLVQNIFTKGYPLKGRKLLNVNVPNCSLQE 181
+PSIAI S+ N +P A+ +I L + F+ P LN+NVP E
Sbjct: 120 NIPSIAI----SSANYESPDFEGAARFLIDFLKEFDFSLLDPF---TXLNINVP---AGE 169
Query: 182 YQGERITPKGYRLYKKEVHKRTDPKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHAS 241
+G R T + R + +R P E Y+W +E R++ D+ A+ + S
Sbjct: 170 IKGWRFTRQSRRRWNDYFEERVSPFGEKYYWXXGEVIEDDDRDD----VDYKAVREGYVS 225
Query: 242 ITPLNLDLTSYDDLKSLESWHE 263
ITP++ LT+ LK L ++
Sbjct: 226 ITPIHPFLTNEQCLKKLREVYD 247
>pdb|1HSL|A Chain A, Histidine-Binding Protein Complexed With L-Histidine
pdb|1HSL|B Chain B, Histidine-Binding Protein Complexed With L-Histidine
pdb|1HPB|P Chain P, Histidine-Binding Protein (Hisj) Complexed With Histidine
Length = 238
Score = 26.9 bits (58), Expect = 2.4
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 95 GINLGSNMGEDTIYSGTVAGAIEGTIQ 121
GI + S G+D IYS AG I+ Q
Sbjct: 134 GIEIVSYQGQDNIYSDLTAGRIDAAFQ 160
>pdb|1IHG|A Chain A, Bovine Cyclophilin 40, Monoclinic Form
pdb|1IIP|A Chain A, Bovine Cyclophilin 40, Tetragonal Form
Length = 370
Score = 26.2 bits (56), Expect = 4.1
Identities = 12/46 (26%), Positives = 29/46 (62%), Gaps = 1/46 (2%)
Query: 15 KGIKALEQALEEMAEIYVVAPKHEKSACSQCITITAPLRAEKIKGK 60
+G+K +QAL ++ + +AP+ +K+ ++ + + ++A+K K K
Sbjct: 318 QGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKEK 362
>pdb|1AXC|E Chain E, Human Pcna
pdb|1AXC|C Chain C, Human Pcna
Length = 261
Score = 25.0 bits (53), Expect = 9.2
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 66 RIDDGTPSDCVYLAINELFKHVCFDLVISGINLGS 100
R+ G+ V A+ +L C+D+ SG+NL S
Sbjct: 5 RLVQGSILKKVLEALKDLINEACWDISSSGVNLQS 39
>pdb|1QLA|A Chain A, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLA|D Chain D, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLB|A Chain A, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLB|D Chain D, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
Length = 656
Score = 25.0 bits (53), Expect = 9.2
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 193 RLYKKEVHKRTD-PKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHASITP 244
R + H R D PK + WL W E +++A+ N I P
Sbjct: 540 RTESRGAHNREDYPKRDDINWLNRTLASWPNPEQTLPTLEYEALDVNEMEIAP 592
>pdb|1E7P|G Chain G, Quinol:fumarate Reductase From Wolinella Succinogenes
pdb|1E7P|J Chain J, Quinol:fumarate Reductase From Wolinella Succinogenes
Length = 655
Score = 25.0 bits (53), Expect = 9.2
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 193 RLYKKEVHKRTD-PKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHASITP 244
R + H R D PK + WL W E +++A+ N I P
Sbjct: 540 RTESRGAHNREDYPKRDDINWLNRTLASWPNPEQTLPTLEYEALDVNEMEIAP 592
>pdb|1E7P|A Chain A, Quinol:fumarate Reductase From Wolinella Succinogenes
pdb|1E7P|D Chain D, Quinol:fumarate Reductase From Wolinella Succinogenes
Length = 656
Score = 25.0 bits (53), Expect = 9.2
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 193 RLYKKEVHKRTD-PKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHASITP 244
R + H R D PK + WL W E +++A+ N I P
Sbjct: 540 RTESRGAHNREDYPKRDDINWLNRTLASWPNPEQTLPTLEYEALDVNEMEIAP 592
>pdb|1AXC|A Chain A, Human Pcna
Length = 261
Score = 25.0 bits (53), Expect = 9.2
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 66 RIDDGTPSDCVYLAINELFKHVCFDLVISGINLGS 100
R+ G+ V A+ +L C+D+ SG+NL S
Sbjct: 5 RLVQGSILKKVLEALKDLINEACWDISSSGVNLQS 39
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.316 0.135 0.396
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,650,507
Number of Sequences: 13198
Number of extensions: 69350
Number of successful extensions: 198
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 187
Number of HSP's gapped (non-prelim): 9
length of query: 267
length of database: 2,899,336
effective HSP length: 87
effective length of query: 180
effective length of database: 1,751,110
effective search space: 315199800
effective search space used: 315199800
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)