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|15646071|ref|NP_208253.1| secreted protein involved
in flagellar motility [Helicobacter pylori 26695]
(172 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|1DKZ|A Chain A, The Substrate Binding Domain Of Dnak In... 26 2.2
pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase C... 26 2.2
pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus 26 2.2
pdb|1DKX|A Chain A, The Substrate Binding Domain Of Dnak In... 26 2.2
pdb|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s ... 25 4.8
pdb|1HU3|A Chain A, Middle Domain Of Human Eif4gii 24 8.2
pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polym... 24 8.2
>pdb|1DKZ|A Chain A, The Substrate Binding Domain Of Dnak In Complex With A
Substrate Peptide, Determined From Type 1 Native
Crystals
pdb|1DKY|A Chain A, The Substrate Binding Domain Of Dnak In Complex With A
Substrate Peptide, Determined From Type 2 Native
Crystals
pdb|1DKY|B Chain B, The Substrate Binding Domain Of Dnak In Complex With A
Substrate Peptide, Determined From Type 2 Native
Crystals
Length = 219
Score = 26.2 bits (56), Expect = 2.2
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 43 SSLNTALP-EDKTAIEAKEQEQKEKRKRWYELFKKK 77
++L TAL EDK AIEAK QE + ++ E+ +++
Sbjct: 182 TALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQ 217
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 26.2 bits (56), Expect = 2.2
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 55 AIEAKEQEQKEKRKRWYELFKKKPKPKSSM---GEFVFDQKENRIYGKGYCNRYFASYVW 111
A+E E +E K+ + K++P+ K + GE +F I G G +R FA +
Sbjct: 388 AVERHIDEVREILKK--VMGKERPQAKDVVVREGEVIFPDLRTYIQGSGRTSRLFAGGLT 445
Query: 112 QGDRHIGIEDSGISRKVCKDEHLMAFELEF 141
+G + +DS + E +++EF
Sbjct: 446 KGASFLLEDDSELLSAFI--ERAKLYDIEF 473
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 26.2 bits (56), Expect = 2.2
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 55 AIEAKEQEQKEKRKRWYELFKKKPKPKSSM---GEFVFDQKENRIYGKGYCNRYFASYVW 111
A+E E +E K+ + K++P+ K + GE +F I G G +R FA +
Sbjct: 388 AVERHIDEVREILKK--VMGKERPQAKDVVVREGEVIFPDLRTYIQGSGRTSRLFAGGLT 445
Query: 112 QGDRHIGIEDSGISRKVCKDEHLMAFELEF 141
+G + +DS + E +++EF
Sbjct: 446 KGASFLLEDDSELLSAFI--ERAKLYDIEF 473
>pdb|1DKX|A Chain A, The Substrate Binding Domain Of Dnak In Complex With A
Substrate Peptide, Determined From Type 1
Selenomethionyl Crystals
Length = 219
Score = 26.2 bits (56), Expect = 2.2
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 43 SSLNTALP-EDKTAIEAKEQEQKEKRKRWYELFKKK 77
++L TAL EDK AIEAK QE + ++ E+ +++
Sbjct: 182 TALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQ 217
>pdb|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|Q Chain Q, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 261
Score = 25.0 bits (53), Expect = 4.8
Identities = 15/38 (39%), Positives = 19/38 (49%), Gaps = 10/38 (26%)
Query: 31 DSAFREHEEEQDSSLNTALPEDKTAIEAKEQEQKEKRK 68
+ ++HEEE E K E KE+EQKEK K
Sbjct: 234 EQLIKKHEEE----------EAKAEREKKEKEQKEKDK 261
>pdb|1HU3|A Chain A, Middle Domain Of Human Eif4gii
Length = 260
Score = 24.3 bits (51), Expect = 8.2
Identities = 15/62 (24%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 NDWHIQKVEMNHQVYDIETMLADS-AFREHEEEQDSSLNTALPEDKTAIEAKEQEQKEKR 67
N + +K+ +N + E AD F + ++E +++ + PE++T + + +E K+K
Sbjct: 86 NTVNFRKLLLNRCQKEFEKDKADDDVFEKKQKELEAA---SAPEERTRLHDELEEAKDKA 142
Query: 68 KR 69
+R
Sbjct: 143 RR 144
>pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|D Chain D, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|C Chain C, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|A Chain A, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
Length = 235
Score = 24.3 bits (51), Expect = 8.2
Identities = 15/49 (30%), Positives = 22/49 (44%)
Query: 119 IEDSGISRKVCKDEHLMAFELEFMENFKGNFTVTKGKDTLILDNQKMKI 167
+E G+ + E + LE + N KG +GKD +IL K I
Sbjct: 59 VEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGI 107
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
0.315 0.133 0.388
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,019,125
Number of Sequences: 13198
Number of extensions: 42162
Number of successful extensions: 174
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: 6
Number of HSP's that attempted gapping in prelim test: 171
Number of HSP's gapped (non-prelim): 9
length of query: 172
length of database: 2,899,336
effective HSP length: 82
effective length of query: 90
effective length of database: 1,817,100
effective search space: 163539000
effective search space used: 163539000
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: 51 (24.3 bits)