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|15645041|ref|NP_207211.1| transposase-like protein,
PS3IS [Helicobacter pylori 26695]
(268 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|1B6Z|A Chain A, 6-Pyruvoyl Tetrahydropterin Synthase >g... 31 0.17
pdb|1CD1|A Chain A, Cd1(Mouse) Antigen Presenting Molecule ... 28 1.1
pdb|1H78|A Chain A, Structural Basis For Allosteric Substra... 26 4.2
pdb|1I4J|A Chain A, Crystal Structure Of L22 Ribosomal Prot... 25 7.1
pdb|1BXE|A Chain A, Ribosomal Protein L22 From Thermus Ther... 25 7.1
pdb|1GIY|S Chain S, Crystal Structure Of The Ribosome At 5.... 25 7.1
pdb|1OPM|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-H... 25 7.1
>pdb|1B6Z|A Chain A, 6-Pyruvoyl Tetrahydropterin Synthase
pdb|1B6Z|B Chain B, 6-Pyruvoyl Tetrahydropterin Synthase
pdb|1GTQ|A Chain A, 6-Pyruvoyl Tetrahydropterin Synthase
pdb|1GTQ|B Chain B, 6-Pyruvoyl Tetrahydropterin Synthase
pdb|1B66|A Chain A, 6-Pyruvoyl Tetrahydropterin Synthase
pdb|1B66|B Chain B, 6-Pyruvoyl Tetrahydropterin Synthase
Length = 140
Score = 30.8 bits (68), Expect = 0.17
Identities = 28/92 (30%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 161 ISISCSHRKYFVSFSVEYEQDITPIKNTKNGVGLDLNILDTACSCEINNHDKLTDFKQYQ 220
+S S SHR + S S E + N NG G + ++ T EI D +T
Sbjct: 13 VSFSASHRLHSPSLSAEENLKVFGKCNNPNGHGHNYKVVVTIHG-EI---DPVTGMVMNL 68
Query: 221 TDMKELLGIEIDEELDTKRL---IPTYSKLYS 249
TD+KE + I + LD K L +P ++ + S
Sbjct: 69 TDLKEYMEEAIMKPLDHKNLDLDVPYFADVVS 100
>pdb|1CD1|A Chain A, Cd1(Mouse) Antigen Presenting Molecule
pdb|1CD1|C Chain C, Cd1(Mouse) Antigen Presenting Molecule
Length = 315
Score = 28.1 bits (61), Expect = 1.1
Identities = 12/37 (32%), Positives = 20/37 (53%)
Query: 14 TKEQQDKLQHCFFVYNQAYNIGLNELQEQYETNKDSP 50
+ +Q +KLQH F VY ++ + EL + +D P
Sbjct: 56 SNQQWEKLQHMFQVYRVSFTRDIQELVKMMSPKEDYP 92
>pdb|1H78|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dctp.
pdb|1H7A|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Datp
pdb|1H77|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dgtp
pdb|1H79|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dttp
pdb|1H7B|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases,
Native Nrdd
Length = 605
Score = 26.2 bits (56), Expect = 4.2
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 8/50 (16%)
Query: 154 PNFKVKQISISCSHRKYFVSFSVEYEQDITPIKNTKNGVGLDLNILDTAC 203
PN+ +KQ+++ C+ ++ + DI KN K G + + C
Sbjct: 249 PNYDIKQLALECASKRMY--------PDIISAKNNKAITGSSVPVSPMGC 290
>pdb|1I4J|A Chain A, Crystal Structure Of L22 Ribosomal Protein Mutant
pdb|1I4J|B Chain B, Crystal Structure Of L22 Ribosomal Protein Mutant
Length = 110
Score = 25.4 bits (54), Expect = 7.1
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 175 SVEYEQDITPIKNTKNGVGLDLNILDTACSCEINNHDKLTD 215
S+E ++I N K G +L++A + +NNHD L D
Sbjct: 28 SLEEARNILRYTN-KRGAYFVAKVLESAAANAVNNHDALED 67
>pdb|1BXE|A Chain A, Ribosomal Protein L22 From Thermus Thermophilus
Length = 113
Score = 25.4 bits (54), Expect = 7.1
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 175 SVEYEQDITPIKNTKNGVGLDLNILDTACSCEINNHDKLTD 215
S+E ++I N K G +L++A + +NNHD L D
Sbjct: 28 SLEEARNILRYTN-KRGAYFVAKVLESAAANAVNNHDXLED 67
>pdb|1GIY|S Chain S, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
Length = 113
Score = 25.4 bits (54), Expect = 7.1
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 175 SVEYEQDITPIKNTKNGVGLDLNILDTACSCEINNHDKLTD 215
S+E ++I N K G +L++A + +NNHD L D
Sbjct: 28 SLEEARNILRYTN-KRGAYFVAKVLESAAANAVNNHDMLED 67
>pdb|1OPM|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Substrate
pdb|3PHM|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm)
pdb|1PHM| Peptidylglycine Alpha-Hydroxylating Monooxygenase (Phm) From Rat
Length = 310
Score = 25.4 bits (54), Expect = 7.1
Identities = 11/29 (37%), Positives = 16/29 (54%)
Query: 142 MPLLMRMHRRLPPNFKVKQISISCSHRKY 170
M L+M + +PP KV ISC ++ Y
Sbjct: 160 MYLMMSVDTVIPPGEKVVNADISCQYKMY 188
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 0.134 0.386
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,481,452
Number of Sequences: 13198
Number of extensions: 59041
Number of successful extensions: 110
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 108
Number of HSP's gapped (non-prelim): 7
length of query: 268
length of database: 2,899,336
effective HSP length: 87
effective length of query: 181
effective length of database: 1,751,110
effective search space: 316950910
effective search space used: 316950910
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: 53 (25.0 bits)