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|15646106|ref|NP_208288.1| peptidyl-tRNA hydrolase
(pth) [Helicobacter pylori 26695]
(186 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|2PTH| Peptidyl-Trna Hydrolase From Escherichia Coli 102 2e-23
pdb|1BHG|A Chain A, Human Beta-Glucuronidase At 2.6 A Resol... 26 3.2
pdb|1IBJ|C Chain C, Crystal Structure Of Cystathionine Beta... 25 5.4
pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathe... 25 7.1
>pdb|2PTH| Peptidyl-Trna Hydrolase From Escherichia Coli
Length = 193
Score = 102 bits (255), Expect = 2e-23
Identities = 66/165 (40%), Positives = 91/165 (55%), Gaps = 11/165 (6%)
Query: 3 LLVGLGNPTLRYAHTRHNAGFDILDSLVSELDLSFTFSPKHNAFLCVY----KDFIFLKP 58
L+VGL NP YA TRHNAG +D L L K + +D L P
Sbjct: 4 LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 63
Query: 59 QTYMNLSGESVLSAKNFYKTK--ELLIVHDDLDLPLGVVRFKNGGGNGGHNGLKSIDLLC 116
T+MNLSG++V + +F++ E+L+ HD+LDLP GV +FK GGG+GGHNGLK I
Sbjct: 64 TTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKL 123
Query: 117 SN--SYYRLRVGI---SKGIGVIEHVLSKFHKNEEPLKNAAFEHA 156
N +++RLR+GI V+ VL K +E+ L + A + A
Sbjct: 124 GNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEA 168
>pdb|1BHG|A Chain A, Human Beta-Glucuronidase At 2.6 A Resolution
pdb|1BHG|B Chain B, Human Beta-Glucuronidase At 2.6 A Resolution
Length = 613
Score = 25.8 bits (55), Expect = 3.2
Identities = 12/42 (28%), Positives = 19/42 (44%)
Query: 80 ELLIVHDDLDLPLGVVRFKNGGGNGGHNGLKSIDLLCSNSYY 121
+++I H P V F + G +D++C NSYY
Sbjct: 444 KMVIAHTKSLDPSRPVTFVSNSNYAADKGAPYVDVICLNSYY 485
>pdb|1IBJ|C Chain C, Crystal Structure Of Cystathionine Beta-Lyase From
Arabidopsis Thaliana
pdb|1IBJ|A Chain A, Crystal Structure Of Cystathionine Beta-Lyase From
Arabidopsis Thaliana
Length = 464
Score = 25.0 bits (53), Expect = 5.4
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 18 RHNAGFDILDSLVSELDLSFTFSP 41
R +AG + +D L+S+LD++F P
Sbjct: 440 RISAGIEDVDDLISDLDIAFKTFP 463
>pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074
Complex
Length = 253
Score = 24.6 bits (52), Expect = 7.1
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 41 PKHNAFLCVYKDFIFLKPQTYMNLSGE 67
P AF VY DF+ K Y ++SGE
Sbjct: 169 PVEGAF-SVYSDFLLYKSGVYQHVSGE 194
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
0.321 0.140 0.410
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,117,747
Number of Sequences: 13198
Number of extensions: 48388
Number of successful extensions: 67
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 62
Number of HSP's gapped (non-prelim): 4
length of query: 186
length of database: 2,899,336
effective HSP length: 83
effective length of query: 103
effective length of database: 1,803,902
effective search space: 185801906
effective search space used: 185801906
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)