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|15646188|ref|NP_208372.1| methicillin resistance
protein (llm) [Helicobacter pylori 26695]
(336 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|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Comp... 27 3.3
pdb|1F88|A Chain A, Crystal Structure Of Bovine Rhodopsin >... 26 7.3
pdb|1L9H|A Chain A, Crystal Structure Of Bovine Rhodopsin A... 26 7.3
pdb|1LN6|A Chain A, Structure Of Bovine Rhodopsin (Metarhod... 26 7.3
pdb|1TBD| Solution Structure Of The Origin Dna Binding Do... 25 9.6
>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
Length = 551
Score = 26.9 bits (58), Expect = 3.3
Identities = 30/92 (32%), Positives = 39/92 (41%), Gaps = 10/92 (10%)
Query: 36 GFHHARTPRAGGLGIFLSF-VLAYLFEPFEAPFKGFFVFLGLLLVFLSGFLEDINLSLSP 94
GF TP AGGL + +S L+ A KG F F GL V L G L P
Sbjct: 91 GFPALSTPGAGGLAVSISAGALSAAIADIMAALKGPFKF-GLWGVALYGVLPSQIAKDDP 149
Query: 95 KIRLILQAVGVVCIISSMPLVVSDFSPLFSLP 126
+ + I++S+P SP+ SLP
Sbjct: 150 NM--------MSKIVTSLPADDITESPVSSLP 173
>pdb|1F88|A Chain A, Crystal Structure Of Bovine Rhodopsin
pdb|1F88|B Chain B, Crystal Structure Of Bovine Rhodopsin
Length = 348
Score = 25.8 bits (55), Expect = 7.3
Identities = 34/154 (22%), Positives = 62/154 (40%), Gaps = 18/154 (11%)
Query: 58 YLFEPFEAPFKGFFVFLGLLLVFLSGFLEDINLSLSPKIRLILQAVGVVCIISSMPLVVS 117
YL EP++ ++FL ++L F FL K+R L + + ++ + +V
Sbjct: 30 YLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFG 89
Query: 118 DFSPLFSLPYFIAFLFAIFMLVGISNAINIIDGFNGLASGICAITLLVIHYIEPSSLACL 177
F+ Y + +F G + ++GF G A+ LV+ IE
Sbjct: 90 GFTTTL---YTSLHGYFVFGPTGCN-----LEGFFATLGGEIALWSLVVLAIE------- 134
Query: 178 LAYMVLGFMVLNFPLGK--IFLGDGGAYFLGLVC 209
Y+V+ + NF G+ +G + + L C
Sbjct: 135 -RYVVVCKPMSNFRFGENHAIMGVAFTWVMALAC 167
>pdb|1L9H|A Chain A, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms
Resolution
pdb|1L9H|B Chain B, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms
Resolution
pdb|1HZX|A Chain A, Crystal Structure Of Bovine Rhodopsin
pdb|1HZX|B Chain B, Crystal Structure Of Bovine Rhodopsin
Length = 349
Score = 25.8 bits (55), Expect = 7.3
Identities = 34/154 (22%), Positives = 62/154 (40%), Gaps = 18/154 (11%)
Query: 58 YLFEPFEAPFKGFFVFLGLLLVFLSGFLEDINLSLSPKIRLILQAVGVVCIISSMPLVVS 117
YL EP++ ++FL ++L F FL K+R L + + ++ + +V
Sbjct: 31 YLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFG 90
Query: 118 DFSPLFSLPYFIAFLFAIFMLVGISNAINIIDGFNGLASGICAITLLVIHYIEPSSLACL 177
F+ Y + +F G + ++GF G A+ LV+ IE
Sbjct: 91 GFTTTL---YTSLHGYFVFGPTGCN-----LEGFFATLGGEIALWSLVVLAIE------- 135
Query: 178 LAYMVLGFMVLNFPLGK--IFLGDGGAYFLGLVC 209
Y+V+ + NF G+ +G + + L C
Sbjct: 136 -RYVVVCKPMSNFRFGENHAIMGVAFTWVMALAC 168
>pdb|1LN6|A Chain A, Structure Of Bovine Rhodopsin (Metarhodopsin Ii)
pdb|1JFP|A Chain A, Structure Of Bovine Rhodopsin (Dark Adapted)
Length = 348
Score = 25.8 bits (55), Expect = 7.3
Identities = 34/154 (22%), Positives = 62/154 (40%), Gaps = 18/154 (11%)
Query: 58 YLFEPFEAPFKGFFVFLGLLLVFLSGFLEDINLSLSPKIRLILQAVGVVCIISSMPLVVS 117
YL EP++ ++FL ++L F FL K+R L + + ++ + +V
Sbjct: 30 YLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFG 89
Query: 118 DFSPLFSLPYFIAFLFAIFMLVGISNAINIIDGFNGLASGICAITLLVIHYIEPSSLACL 177
F+ Y + +F G + ++GF G A+ LV+ IE
Sbjct: 90 GFTTTL---YTSLHGYFVFGPTGCN-----LEGFFATLGGEIALWSLVVLAIE------- 134
Query: 178 LAYMVLGFMVLNFPLGK--IFLGDGGAYFLGLVC 209
Y+V+ + NF G+ +G + + L C
Sbjct: 135 -RYVVVCKPMSNFRFGENHAIMGVAFTWVMALAC 167
>pdb|1TBD| Solution Structure Of The Origin Dna Binding Domain Of Sv40
T-Antigen, Nmr, Minimized Average Structure
pdb|2TBD| Sv40 T Antigen Dna-Binding Domain, Nmr, 30 Structures
Length = 134
Score = 25.4 bits (54), Expect = 9.6
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 9/62 (14%)
Query: 257 NLHLHTLLFKYLQQRSF-----NYPNPLCAFILILC---NLPFILISVFFRLNPYALIAI 308
N + H +LF R NY LC F ++C N +++ S R +P+++I
Sbjct: 60 NSYNHNILFFLTPHRHRVSAINNYAQKLCTFSFLICKGVNKEYLMYSALTR-DPFSVIEE 118
Query: 309 SL 310
SL
Sbjct: 119 SL 120
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
0.336 0.151 0.464
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,761,607
Number of Sequences: 13198
Number of extensions: 67971
Number of successful extensions: 103
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 103
Number of HSP's gapped (non-prelim): 5
length of query: 336
length of database: 2,899,336
effective HSP length: 89
effective length of query: 247
effective length of database: 1,724,714
effective search space: 426004358
effective search space used: 426004358
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 54 (25.4 bits)