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|15644806|ref|NP_206976.1| translation elongation
factor EF-P (efp) [Helicobacter pylori 26695]
(187 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|1BKB| Initiation Factor 5a From Archebacterium Pyroba... 45 4e-06
pdb|2EIF|A Chain A, Eukaryotic Translation Initiation Facto... 42 3e-05
pdb|1EIF| Eukaryotic Translation Initiation Factor 5a Fro... 42 3e-05
pdb|1BHN|A Chain A, Nucleoside Diphosphate Kinase Isoform A... 28 0.85
pdb|1NSK|L Chain L, Mol_id: 1; Molecule: Nucleoside Diphosp... 28 0.85
pdb|1NUE|A Chain A, Nucleoside Triphosphate, Nucleoside Dip... 28 0.85
pdb|1BE4|C Chain C, Nucleoside Diphosphate Kinase Isoform B... 28 0.85
pdb|1JXV|A Chain A, Crystal Structure Of Human Nucleoside D... 28 0.85
pdb|1BE4|A Chain A, Nucleoside Diphosphate Kinase Isoform B... 28 0.85
pdb|1ARU| Mol_id: 1; Molecule: Peroxidase; Chain: Null; E... 27 1.9
pdb|1LYK|A Chain A, The Impact Of The Physical And Chemical... 27 1.9
pdb|1LY8|A Chain A, The Crystal Structure Of A Mutant Enzym... 27 1.9
pdb|1LY9|A Chain A, The Impact Of The Physical And Chemical... 27 1.9
pdb|1H70|A Chain A, Ddah From Pseudomonas Aeruginosa. C249s... 26 3.2
pdb|1NSQ|A Chain A, Nucleoside Diphosphate Kinase (E.C.2.7.... 25 4.2
pdb|1UWO|A Chain A, Calcium Form Of Human S100b, Nmr, 20 St... 25 7.2
pdb|1QLK|A Chain A, Solution Structure Of Ca(2+)-Loaded Rat... 24 9.4
>pdb|1BKB| Initiation Factor 5a From Archebacterium Pyrobaculum Aerophilum
Length = 136
Score = 45.4 bits (106), Expect = 4e-06
Identities = 35/110 (31%), Positives = 50/110 (44%), Gaps = 2/110 (1%)
Query: 7 ELKKGLKIELGGVPYRIVEYQHVKPGK-GAAFVRAKIKSFLDGKVIEKTFHAGDKCEEPN 65
ELK+G + + G P R+VE + K GK G+A R DG + + E P
Sbjct: 13 ELKEGSYVVIDGEPCRVVEIEKSKTGKHGSAKARIVAVGVFDGGKRTLSLPVDAQVEVPI 72
Query: 66 LVEKTMQYLYHDGDTYQFMDIESYEQIALNDSQVGEASKWML-DGMQVQV 114
+ + T Q L GD Q D Y+ I + V E +K L G +V+V
Sbjct: 73 IEKFTAQILSVSGDVIQLXDXRDYKTIEVPXKYVEEEAKGRLAPGAEVEV 122
>pdb|2EIF|A Chain A, Eukaryotic Translation Initiation Factor 5a From
Methanococcus Jannaschii
Length = 136
Score = 42.4 bits (98), Expect = 3e-05
Identities = 29/94 (30%), Positives = 46/94 (48%), Gaps = 3/94 (3%)
Query: 3 IGMSELKKGLKIELGGVPYRIVEYQHVKPGKGAAFVRAKIKSFLDGKVIEKTFHA--GDK 60
+ + LK G + + GVP IV+ KPGK +A++ + ++K F A K
Sbjct: 11 VNVGSLKVGQYVMIDGVPCEIVDISVSKPGKHGG-AKARVVGIGIFEKVKKEFVAPTSSK 69
Query: 61 CEEPNLVEKTMQYLYHDGDTYQFMDIESYEQIAL 94
E P + + Q L GD Q MD+++YE + L
Sbjct: 70 VEVPIIDRRKGQVLAIMGDMVQIMDLQTYETLEL 103
>pdb|1EIF| Eukaryotic Translation Initiation Factor 5a From Methanococcus
Jannaschii
Length = 135
Score = 42.4 bits (98), Expect = 3e-05
Identities = 29/94 (30%), Positives = 46/94 (48%), Gaps = 3/94 (3%)
Query: 3 IGMSELKKGLKIELGGVPYRIVEYQHVKPGKGAAFVRAKIKSFLDGKVIEKTFHA--GDK 60
+ + LK G + + GVP IV+ KPGK +A++ + ++K F A K
Sbjct: 10 VNVGSLKVGQYVMIDGVPCEIVDISVSKPGKHGG-AKARVVGIGIFEKVKKEFVAPTSSK 68
Query: 61 CEEPNLVEKTMQYLYHDGDTYQFMDIESYEQIAL 94
E P + + Q L GD Q MD+++YE + L
Sbjct: 69 VEVPIIDRRKGQVLAIMGDMVQIMDLQTYETLEL 102
>pdb|1BHN|A Chain A, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
pdb|1BHN|B Chain B, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
pdb|1BHN|C Chain C, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
pdb|1BHN|D Chain D, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
pdb|1BHN|E Chain E, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
pdb|1BHN|F Chain F, Nucleoside Diphosphate Kinase Isoform A From Bovine Retina
Length = 152
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 81 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVESAEKE 129
>pdb|1NSK|L Chain L, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
pdb|1NSK|N Chain N, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
pdb|1NSK|O Chain O, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
pdb|1NSK|R Chain R, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
pdb|1NSK|T Chain T, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
pdb|1NSK|U Chain U, Mol_id: 1; Molecule: Nucleoside Diphosphate Kinase; Chain:
R, L, T, U, N, O; Ec: 2.7.4.6; Engineered: Yes
Length = 152
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 81 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKE 129
>pdb|1NUE|A Chain A, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
pdb|1NUE|B Chain B, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
pdb|1NUE|C Chain C, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
pdb|1NUE|D Chain D, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
pdb|1NUE|E Chain E, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
pdb|1NUE|F Chain F, Nucleoside Triphosphate, Nucleoside Diphosphate Mol_id: 1;
Molecule: Nucleoside Diphosphate Kinase; Chain: A, B, C,
D, E, F; Ec: 2.7.4.6
Length = 151
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 80 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKE 128
>pdb|1BE4|C Chain C, Nucleoside Diphosphate Kinase Isoform B From Bovine Retina
Length = 152
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 81 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVESAEKE 129
>pdb|1JXV|A Chain A, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
pdb|1JXV|B Chain B, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
pdb|1JXV|C Chain C, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
pdb|1JXV|D Chain D, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
pdb|1JXV|E Chain E, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
pdb|1JXV|F Chain F, Crystal Structure Of Human Nucleoside Diphosphate Kinase A
Length = 152
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 81 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVESAEKE 129
>pdb|1BE4|A Chain A, Nucleoside Diphosphate Kinase Isoform B From Bovine Retina
pdb|1BE4|B Chain B, Nucleoside Diphosphate Kinase Isoform B From Bovine Retina
Length = 151
Score = 27.7 bits (60), Expect = 0.85
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 132 LKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
L +V+T G+T+ A KP T+ +QV +++ G + E E
Sbjct: 80 LNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVESAEKE 128
>pdb|1ARU| Mol_id: 1; Molecule: Peroxidase; Chain: Null; Ec: 1.11.1.7;
Heterogen: Cn; Other_details: Ph 7.5
pdb|1ARV| Mol_id: 1; Molecule: Peroxidase; Chain: Null; Ec: 1.11.1.7;
Heterogen: Cn; Other_details: Ph 5.0
pdb|1ARW| Mol_id: 1; Molecule: Peroxidase; Chain: Null; Ec: 1.11.1.7;
Heterogen: Cn; Other_details: Ph 4.0
pdb|1HSR| Binding Mode Of Benzhydroxamic Acid To Arthromyces Ramosus
Peroxidase
pdb|1GZB| Peroxidase
pdb|1ARX| Mol_id: 1; Molecule: Peroxidase; Chain: Null; Ec: 1.11.1.7;
Heterogen: Triiodide; Other_details: Ph 6.5
pdb|1ARY| Mol_id: 1; Molecule: Peroxidase; Chain: Null; Ec: 1.11.1.7;
Heterogen: Triiodide; Other_details: Ph 5.0
pdb|1CK6|A Chain A, Binding Mode Of Salicylhydroxamic Acid To Arthromyces
Ramosus Peroxidase
pdb|1ARP| Peroxidase (E.C.1.11.1.7)
pdb|1C8I|A Chain A, Binding Mode Of Hydroxylamine To Arthromyces Ramosus
Peroxidase
pdb|1GZA| Peroxidase
Length = 344
Score = 26.6 bits (57), Expect = 1.9
Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 51 IEKTFHAGDKCEEPNLVEKTMQYLYHD 77
++ F+ G KCE P V K ++ ++HD
Sbjct: 33 LQTNFYQGSKCESP--VRKILRIVFHD 57
>pdb|1LYK|A Chain A, The Impact Of The Physical And Chemical Enviroment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
pdb|1LYK|B Chain B, The Impact Of The Physical And Chemical Enviroment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
Length = 343
Score = 26.6 bits (57), Expect = 1.9
Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 51 IEKTFHAGDKCEEPNLVEKTMQYLYHD 77
++ F+ G KCE P V K ++ ++HD
Sbjct: 32 LQTNFYQGSKCESP--VRKILRIVFHD 56
>pdb|1LY8|A Chain A, The Crystal Structure Of A Mutant Enzyme Of Coprinus
Cinereus Peroxidase Provides An Understanding Of Its
Increased Thermostability And Insight Into Modelling Of
Protein Structures
pdb|1LY8|B Chain B, The Crystal Structure Of A Mutant Enzyme Of Coprinus
Cinereus Peroxidase Provides An Understanding Of Its
Increased Thermostability And Insight Into Modelling Of
Protein Structures
Length = 343
Score = 26.6 bits (57), Expect = 1.9
Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 51 IEKTFHAGDKCEEPNLVEKTMQYLYHD 77
++ F+ G KCE P V K+++ +HD
Sbjct: 32 LQTNFYQGSKCESP--VRKSLRIAFHD 56
>pdb|1LY9|A Chain A, The Impact Of The Physical And Chemical Environment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
pdb|1LY9|B Chain B, The Impact Of The Physical And Chemical Environment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
pdb|1LYC|A Chain A, The Impact Of The Physical And Chemical Enviroment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
pdb|1LYC|B Chain B, The Impact Of The Physical And Chemical Enviroment On
The Molecular Structure Of Coprinus Cinereus Peroxidase
Length = 343
Score = 26.6 bits (57), Expect = 1.9
Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 51 IEKTFHAGDKCEEPNLVEKTMQYLYHD 77
++ F+ G KCE P V K ++ ++HD
Sbjct: 32 LQTNFYQGSKCESP--VRKILRIVFHD 56
>pdb|1H70|A Chain A, Ddah From Pseudomonas Aeruginosa. C249s Mutant Complexed
With Citrulline
Length = 255
Score = 25.8 bits (55), Expect = 3.2
Identities = 14/45 (31%), Positives = 19/45 (42%)
Query: 134 IVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTE 178
I ET F + P T+E G ++ V H GE + N E
Sbjct: 93 IEETVQRFYPGKVERIEAPGTVEAGDIMMVGDHFYIGESARTNAE 137
>pdb|1NSQ|A Chain A, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
pdb|1NSQ|B Chain B, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
pdb|1NSQ|C Chain C, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
pdb|1NDL|A Chain A, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
pdb|1NDL|B Chain B, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
pdb|1NDL|C Chain C, Nucleoside Diphosphate Kinase (E.C.2.7.4.6)
Length = 153
Score = 25.4 bits (54), Expect = 4.2
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 126 VPQV-VALKIVETAPNFKGDTSSASKKPATLETGAVVQVPFHVLEGEIIKVNTETE 180
VP V L +V+T G T+ A P T+ +QV +++ G + E E
Sbjct: 75 VPMVWEGLNVVKTGRQMLGATNPADSLPGTIRGDFCIQVGRNIIHGSDAVESAEKE 130
>pdb|1UWO|A Chain A, Calcium Form Of Human S100b, Nmr, 20 Structures
pdb|1UWO|B Chain B, Calcium Form Of Human S100b, Nmr, 20 Structures
Length = 92
Score = 24.6 bits (52), Expect = 7.2
Identities = 20/75 (26%), Positives = 36/75 (47%), Gaps = 9/75 (12%)
Query: 5 MSELKKGLKIELGGVPYRIVEYQHVKPGKGAAFVRAKIKSFLDGKVIEKTFHAGDKCEEP 64
MSEL+K + +++ H G+ + K KS L + + H ++ +E
Sbjct: 1 MSELEKAM--------VALIDVFHQYSGREGDKHKLK-KSELKELINNELSHFLEEIKEQ 51
Query: 65 NLVEKTMQYLYHDGD 79
+V+K M+ L +DGD
Sbjct: 52 EVVDKVMETLDNDGD 66
>pdb|1QLK|A Chain A, Solution Structure Of Ca(2+)-Loaded Rat S100b (Betabeta)
Nmr, 20 Structures
pdb|1QLK|B Chain B, Solution Structure Of Ca(2+)-Loaded Rat S100b (Betabeta)
Nmr, 20 Structures
pdb|1B4C|A Chain A, Solution Structure Of Rat Apo-S100b Using Dipolar
Couplings
pdb|1B4C|B Chain B, Solution Structure Of Rat Apo-S100b Using Dipolar
Couplings
pdb|1SYM|A Chain A, 3-D Solution Structure Of Reduced Apo-S100b From Rat,
Nmr, 20 Structures
pdb|1SYM|B Chain B, 3-D Solution Structure Of Reduced Apo-S100b From Rat,
Nmr, 20 Structures
pdb|1DT7|A Chain A, Solution Structure Of The C-Terminal Negative Regulatory
Domain Of P53 In A Complex With Ca2+-Bound S100b(Bb)
pdb|1DT7|B Chain B, Solution Structure Of The C-Terminal Negative Regulatory
Domain Of P53 In A Complex With Ca2+-Bound S100b(Bb)
Length = 92
Score = 24.3 bits (51), Expect = 9.4
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 9/75 (12%)
Query: 5 MSELKKGLKIELGGVPYRIVEYQHVKPGKGAAFVRAKIKSFLDGKVIEKTFHAGDKCEEP 64
MSEL+K + +++ H G+ + K KS L + + H ++ +E
Sbjct: 1 MSELEKAM--------VALIDVFHQYSGREGDKHKLK-KSELKELINNELSHFLEEIKEQ 51
Query: 65 NLVEKTMQYLYHDGD 79
+V+K M+ L DGD
Sbjct: 52 EVVDKVMETLDEDGD 66
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
0.314 0.134 0.372
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,092,839
Number of Sequences: 13198
Number of extensions: 42551
Number of successful extensions: 69
Number of sequences better than 10.0: 17
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 55
Number of HSP's gapped (non-prelim): 17
length of query: 187
length of database: 2,899,336
effective HSP length: 83
effective length of query: 104
effective length of database: 1,803,902
effective search space: 187605808
effective search space used: 187605808
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)