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|15645105|ref|NP_207275.1| outer membrane protein
(omp12) [Helicobacter pylori 26695]
(367 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|1G5B|B Chain B, Bacteriophage Lambda SerTHR PROTEIN PHO... 32 0.15
pdb|1E43|A Chain A, Native Structure Of Chimaeric Amylase F... 28 1.6
pdb|1HCY| Arthropodan Hemocyanin (Deoxygenated) Refined U... 28 2.1
pdb|1CEL|A Chain A, 1,4-Beta-D-Glucan Cellobiohydrolase I (... 27 3.7
pdb|1XYZ|A Chain A, Glycosyl Hydrolase, Xylanase, Family F1... 27 4.8
pdb|1I2W|B Chain B, Beta-Lactamase From Bacillus Lichenifor... 27 4.8
pdb|1SIG| Crystal Structure Of A Sigma70 Subunit Fragment... 27 4.8
>pdb|1G5B|B Chain B, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
pdb|1G5B|C Chain C, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
pdb|1G5B|A Chain A, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
Length = 221
Score = 31.6 bits (70), Expect = 0.15
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 6/67 (8%)
Query: 1 MQKALLHSSFFLPLFLSFCIAEENGAYASVGF---EYSISHAVEHNNPFLNQERIQIISN 57
+ KAL H + LPL + ++ + EY V+H N+ER ISN
Sbjct: 111 LAKALAHKADELPLIIELVSKDKKYVICHADYPFDEYEFGKPVDHQQVIWNRER---ISN 167
Query: 58 AQNKIYK 64
+QN I K
Sbjct: 168 SQNGIVK 174
>pdb|1E43|A Chain A, Native Structure Of Chimaeric Amylase From B.
Amyloliquefaciens And B. Licheniformis At 1.7a
pdb|1E3X|A Chain A, Native Structure Of Chimaeric Amylase From B.
Amyloliquefaciens And B. Licheniformis At 1.92a
pdb|1E3Z|A Chain A, Acarbose Complex Of Chimaeric Amylase From B.
Amyloliquefaciens And B. Licheniformis At 1.93a
pdb|1E40|A Chain A, TrisMALTOTRIOSE COMPLEX OF CHIMAERIC AMYLASE FROM B.
Amyloliquefaciens And B. Licheniformis At 2.2a
Length = 483
Score = 28.1 bits (61), Expect = 1.6
Identities = 24/105 (22%), Positives = 41/105 (38%), Gaps = 14/105 (13%)
Query: 251 LYNFIDNAKKHSSVGFYLGFALAGSSWVGSGL----SMWVSQTDFINNYLTGYQAKMHTS 306
L F +A KH F + A G + W + + NYL + + S
Sbjct: 225 LDGFRIDAAKHIKFSFLRDWVQAVRQATGKEMFTVAEYWQNNAGKLENYLN--KTSFNQS 282
Query: 307 FFQIPLNFGVRVNVNRHNGFEMG--------LKIPLAMNSFYETH 343
F +PL+F ++ ++ G++M K PL +F + H
Sbjct: 283 VFDVPLHFNLQAASSQGGGYDMRKLLNGTVVSKHPLKSVTFVDNH 327
>pdb|1HCY| Arthropodan Hemocyanin (Deoxygenated) Refined Using Constrained 32
Point Group Symmetry
pdb|1HC1| Arthropodan Hemocyanin (Deoxygenated) Subunit 1 Refined Using
Non-Crystallographic Symmetry Restraints
pdb|1HC2| Arthropodan Hemocyanin (Deoxygenated) Subunit 2 Refined Using
Non-Crystallographic Symmetry Restraints
pdb|1HC3| Arthropodan Hemocyanin (Deoxygenated) Subunit 3 Refined Using
Non-Crystallographic Symmetry Restraints
pdb|1HC4| Arthropodan Hemocyanin (Deoxygenated) Subunit 4 Refined Using
Non-Crystallographic Symmetry Restraints
pdb|1HC5| Arthropodan Hemocyanin (Deoxygenated) Subunit 5 Refined Using
Non-Crystallographic Symmetry Restraints
pdb|1HC6| Arthropodan Hemocyanin (Deoxygenated) Subunit 6 Refined Using
Non-Crystallographic Symmetry Restraints
Length = 657
Score = 27.7 bits (60), Expect = 2.1
Identities = 12/47 (25%), Positives = 27/47 (56%)
Query: 107 TFQNIEKIVMLSGGVSSNPQLVQALEKMQEPITNPLEFEENLRNLEV 153
T N+E M+ GV+ + +L+ ++ Q + N ++ EN+ ++E+
Sbjct: 402 THDNLEFSGMVVNGVAIDGELITFFDEFQYSLINAVDSGENIEDVEI 448
>pdb|1CEL|A Chain A, 1,4-Beta-D-Glucan Cellobiohydrolase I (Cellulase)
(E.C.3.2.1.91)
pdb|1CEL|B Chain B, 1,4-Beta-D-Glucan Cellobiohydrolase I (Cellulase)
(E.C.3.2.1.91)
pdb|1DY4|A Chain A, Cbh1 In Complex With S-Propranolol
Length = 434
Score = 26.9 bits (58), Expect = 3.7
Identities = 26/86 (30%), Positives = 37/86 (42%), Gaps = 25/86 (29%)
Query: 172 AISNSLNALDPNSYSKNI------------------SSMYGV-----SLSVGYKHFFTKK 208
A ++S N D N++S + +S YGV SLS+G+ + +
Sbjct: 43 ATNSSTNCYDGNTWSSTLCPDNETCAKNCCLDGAAYASTYGVTTSGNSLSIGFVTQ-SAQ 101
Query: 209 KNQGLRYYLFY-DYGYTNFGFVGNGF 233
KN G R YL D Y F +GN F
Sbjct: 102 KNVGARLYLMASDTTYQEFTLLGNEF 127
>pdb|1XYZ|A Chain A, Glycosyl Hydrolase, Xylanase, Family F10 OF GLYCOSYL
Hydrolases, Clostridium Thermocellum Mol_id: 1;
Molecule: 1,4-Beta-D-Xylan-Xylanohydrolase; Chain: A, B;
Synonym: Endo-1,4-Beta-Xylanase Z, Xylanase Xynz; Ec:
3.2.1.8; Engineered: Yes
pdb|1XYZ|B Chain B, Glycosyl Hydrolase, Xylanase, Family F10 OF GLYCOSYL
Hydrolases, Clostridium Thermocellum Mol_id: 1;
Molecule: 1,4-Beta-D-Xylan-Xylanohydrolase; Chain: A, B;
Synonym: Endo-1,4-Beta-Xylanase Z, Xylanase Xynz; Ec:
3.2.1.8; Engineered: Yes
Length = 347
Score = 26.6 bits (57), Expect = 4.8
Identities = 11/41 (26%), Positives = 22/41 (52%)
Query: 230 GNGFDGLGKMNNHLYGLGIDYLYNFIDNAKKHSSVGFYLGF 270
G DG+G + + G+ +YL + N K+++ +G + F
Sbjct: 222 GVPIDGVGFQCHFINGMSPEYLASIDQNIKRYAEIGVIVSF 262
>pdb|1I2W|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
With Cefoxitin
pdb|1I2S|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3
pdb|1I2S|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3
pdb|1I2W|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
With Cefoxitin
Length = 282
Score = 26.6 bits (57), Expect = 4.8
Identities = 25/77 (32%), Positives = 38/77 (48%), Gaps = 13/77 (16%)
Query: 103 YLQSTFQNIEKIVMLSGGVSSNPQLVQALEKMQEPITNPLEFEENLRNLEVQFAQSQNRM 162
Y +T QN+ I+ GG S L + L K+ + +TNP FE L EV ++Q+
Sbjct: 118 YSDNTAQNL--ILKQIGGPES---LKKELRKIGDEVTNPERFEPELN--EVNPGETQD-- 168
Query: 163 LSSLSSQIAAISNSLNA 179
+S A++ SL A
Sbjct: 169 ----TSTARALATSLQA 181
>pdb|1SIG| Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia
Coli Rna Polymerase
Length = 339
Score = 26.6 bits (57), Expect = 4.8
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 56 SNAQNKIYKLHQVKNEITSMPKTFAYINNALK 87
+ AQ +I KL +V + +PK F Y+ N+++
Sbjct: 134 ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMR 165
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
0.319 0.135 0.390
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,107,414
Number of Sequences: 13198
Number of extensions: 88223
Number of successful extensions: 235
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 232
Number of HSP's gapped (non-prelim): 7
length of query: 367
length of database: 2,899,336
effective HSP length: 90
effective length of query: 277
effective length of database: 1,711,516
effective search space: 474089932
effective search space used: 474089932
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: 55 (25.8 bits)