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|15646178|ref|NP_208362.1| rare lipoprotein A (rlpA)
[Helicobacter pylori 26695]
(315 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|1G20|B Chain B, Mgatp-Bound And Nucleotide-Free Structu... 28 1.0
pdb|1M1N|B Chain B, Nitrogenase Mofe Protein From Azotobact... 28 1.0
pdb|1GKZ|A Chain A, Branched-Chain Alpha-Ketoacid Dehydroge... 28 1.4
pdb|1LOM|A Chain A, Cyanovirin-N Double Mutant P51s S52p 28 1.8
pdb|1DPE| Dipeptide-Binding Protein 27 3.0
pdb|1DPP|A Chain A, Dipeptide Binding Protein Complex With ... 27 3.0
pdb|1LVL| Dihydrolipoamide Dehydrogenase (E.C.1.8.1.4) Co... 26 5.2
pdb|1H5Y|A Chain A, Hisf Protein From Pyrobaculum Aerophilu... 25 8.9
>pdb|1G20|B Chain B, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|D Chain D, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|B Chain B, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|D Chain D, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
Length = 523
Score = 28.5 bits (62), Expect = 1.0
Identities = 18/48 (37%), Positives = 26/48 (53%), Gaps = 4/48 (8%)
Query: 54 AYKRNFFERHFKR-YSDSQDSNTKDQPLDNG---MRDSSSIQRATMRP 97
AY R++F RHF+ S DS T+D + G M+D +AT +P
Sbjct: 97 AYFRSYFNRHFREPVSCVSDSMTEDAAVFGGQQNMKDGLQNCKATYKP 144
>pdb|1M1N|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|F Chain F, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|H Chain H, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|2MIN|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|1L5H|B Chain B, Femo-Cofactor Deficient Nitrogenase Mofe Protein
pdb|1N2C|B Chain B, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|D Chain D, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
Length = 522
Score = 28.5 bits (62), Expect = 1.0
Identities = 18/48 (37%), Positives = 26/48 (53%), Gaps = 4/48 (8%)
Query: 54 AYKRNFFERHFKR-YSDSQDSNTKDQPLDNG---MRDSSSIQRATMRP 97
AY R++F RHF+ S DS T+D + G M+D +AT +P
Sbjct: 96 AYFRSYFNRHFREPVSCVSDSMTEDAAVFGGQQNMKDGLQNCKATYKP 143
>pdb|1GKZ|A Chain A, Branched-Chain Alpha-Ketoacid Dehydrogenase Kinase (Bck)
Complxed With Adp
pdb|1GJV|A Chain A, Branched-Chain Alpha-Ketoacid Dehydrogenase Kinase (Bck)
Complxed With Atp-Gamma-S
pdb|1GKX|A Chain A, Branched-Chain Alpha-Ketoacid Dehydrogenase Kinase (Bck)
Length = 388
Score = 28.1 bits (61), Expect = 1.4
Identities = 16/46 (34%), Positives = 25/46 (53%), Gaps = 1/46 (2%)
Query: 140 MYAHTAAHKTLPMNTVVKVINVDNN-LSTIVRINDRGPFVSDRIID 184
M A +H P N VI + NN + I+RI+DRG ++ + +D
Sbjct: 251 MRATMESHLDTPYNVPDVVITIANNDVDLIIRISDRGGGIAHKDLD 296
>pdb|1LOM|A Chain A, Cyanovirin-N Double Mutant P51s S52p
Length = 101
Score = 27.7 bits (60), Expect = 1.8
Identities = 19/67 (28%), Positives = 29/67 (42%), Gaps = 4/67 (5%)
Query: 105 YYPTKVDLG---EKFDGVASWYGPNFHAKKTSNGEIYNMYAHTAAHKTLPMNTVVKVINV 161
Y + +DL E DG W PNF + N ++ A KT V IN+
Sbjct: 29 YNTSSIDLNSVIENVDGSLKWQSPNF-IETCRNTQLAGSSELAAECKTRAQQFVSTKINL 87
Query: 162 DNNLSTI 168
D++++ I
Sbjct: 88 DDHIANI 94
>pdb|1DPE| Dipeptide-Binding Protein
Length = 507
Score = 26.9 bits (58), Expect = 3.0
Identities = 22/83 (26%), Positives = 40/83 (47%), Gaps = 8/83 (9%)
Query: 155 VVKVINVDNNLSTIVRINDRGPFVSDRIIDLSNAAARDI--DMVKKGT-ASVRLIVLGFG 211
+ +V VD+N V PF++D +D ++ +++ M+K GT + L +G G
Sbjct: 124 ISEVKKVDDNTVQFVLTRPEAPFLADLAMDFASILSKEYADAMMKAGTPEKLDLNPIGTG 183
Query: 212 GVISTQYEQSFNASSSKILHKEF 234
QY++ S+I +K F
Sbjct: 184 PFQLQQYQK-----DSRIRYKAF 201
>pdb|1DPP|A Chain A, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|C Chain C, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|E Chain E, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
pdb|1DPP|G Chain G, Dipeptide Binding Protein Complex With Glycyl-L-Leucine
Length = 507
Score = 26.9 bits (58), Expect = 3.0
Identities = 22/83 (26%), Positives = 40/83 (47%), Gaps = 8/83 (9%)
Query: 155 VVKVINVDNNLSTIVRINDRGPFVSDRIIDLSNAAARDI--DMVKKGT-ASVRLIVLGFG 211
+ +V VD+N V PF++D +D ++ +++ M+K GT + L +G G
Sbjct: 124 ISEVKKVDDNTVQFVLTRPEAPFLADLAMDFASILSKEYADAMMKAGTPEKLDLNPIGTG 183
Query: 212 GVISTQYEQSFNASSSKILHKEF 234
QY++ S+I +K F
Sbjct: 184 PFQLQQYQK-----DSRIRYKAF 201
>pdb|1LVL| Dihydrolipoamide Dehydrogenase (E.C.1.8.1.4) Complex With
Nicotinamide-Adenine-Dinucleotide (Nad+)
Length = 458
Score = 26.2 bits (56), Expect = 5.2
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 195 MVKKGTASVRLIVLGFGGVISTQYEQSFNASSSKILHKEFKVGESEKSVSGGKFSLQMGA 254
++ G++SV L +L GG + + E A + K L + V V GG L++G
Sbjct: 139 LLATGSSSVELPMLPLGGPVISSTE----ALAPKALPQHLVV------VGGGYIGLELGI 188
Query: 255 FRNQIGAQ 262
++GAQ
Sbjct: 189 AYRKLGAQ 196
>pdb|1H5Y|A Chain A, Hisf Protein From Pyrobaculum Aerophilum
pdb|1H5Y|B Chain B, Hisf Protein From Pyrobaculum Aerophilum
Length = 253
Score = 25.4 bits (54), Expect = 8.9
Identities = 37/149 (24%), Positives = 60/149 (39%), Gaps = 32/149 (21%)
Query: 155 VVKVIN------VDNNLSTIVRINDRGPFVSDRIIDLSNAAARD-----IDMVKKGTASV 203
VVK +N V + + VR + G +D I L AA + ID VK+ +V
Sbjct: 20 VVKGVNFQGIREVGDPVEMAVRYEEEG---ADEIAILDITAAPEGRATFIDSVKRVAEAV 76
Query: 204 RLIVLGFGGVISTQYEQSFNASSSKILHKEFKVGESEKSVSGGKFSLQMGAFRNQIGAQT 263
+ VL GGV S + + F+ G K S+ A RN
Sbjct: 77 SIPVLVGGGVRSLEDATTL-----------FRAGAD-------KVSVNTAAVRNPQLVAL 118
Query: 264 LADKLQAENPNYSVKVAFKDDLYKVLVQG 292
LA + +++ ++ + + Y+V V+G
Sbjct: 119 LAREFGSQSTVVAIDAKWNGEYYEVYVKG 147
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 0.132 0.373
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,793,301
Number of Sequences: 13198
Number of extensions: 74816
Number of successful extensions: 165
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 165
Number of HSP's gapped (non-prelim): 9
length of query: 315
length of database: 2,899,336
effective HSP length: 88
effective length of query: 227
effective length of database: 1,737,912
effective search space: 394506024
effective search space used: 394506024
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: 54 (25.4 bits)