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|15645009|ref|NP_207179.1| protoporphyrinogen oxidase
(hemK) [Helicobacter pylori 26695]
(276 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|1FVS|A Chain A, Solution Structure Of The Yeast Copper ... 28 0.88
pdb|1FT9|A Chain A, Structure Of The Reduced (Feii) Co-Sens... 28 0.88
pdb|1BM8| Dna-Binding Domain Of Mbp1 28 1.5
pdb|1MB1| Mbp1 From Saccharomyces Cerevisiae 28 1.5
pdb|1I6O|B Chain B, Crystal Structure Of E. Coli Beta Carbo... 27 3.3
pdb|1I6P|A Chain A, Crystal Structure Of E. Coli Beta Carbo... 27 3.3
pdb|1DUS|A Chain A, Mj0882-A Hypothetical Protein From M. J... 26 5.7
pdb|1K20|A Chain A, Inorganic Pyrophosphatase (Family Ii) F... 26 5.7
pdb|1JPM|C Chain C, L-Ala-DL-Glu Epimerase >gi|18158850|pdb... 25 9.7
pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G ... 25 9.7
pdb|1HXD|A Chain A, Crystal Structure Of E. Coli Biotin Rep... 25 9.7
>pdb|1FVS|A Chain A, Solution Structure Of The Yeast Copper Transporter Domain
Ccc2a In The Apo And Cu(I) Load States
pdb|1FVQ|A Chain A, Solution Structure Of The Yeast Copper Transporter Domain
Ccc2a In The Apo And Cu(I) Loaded States
Length = 72
Score = 28.5 bits (62), Expect = 0.88
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 3/30 (10%)
Query: 233 CEMGYDQ---LKSLKECLEFCGYDAEFYKD 259
C++ YD S+KE +E CG+D E +D
Sbjct: 42 CQVTYDNEVTADSIKEIIEDCGFDCEILRD 71
>pdb|1FT9|A Chain A, Structure Of The Reduced (Feii) Co-Sensing Protein From R.
Rubrum
pdb|1FT9|B Chain B, Structure Of The Reduced (Feii) Co-Sensing Protein From R.
Rubrum
Length = 222
Score = 28.5 bits (62), Expect = 0.88
Identities = 15/49 (30%), Positives = 25/49 (50%), Gaps = 2/49 (4%)
Query: 22 GLESEILLGFVLQKERVFLHTHAYLELNHEEEVRFFEL--VEKRLNNCP 68
G E EI L ++ + +H+ +E EVRF ++ E++L CP
Sbjct: 58 GEEREISLFYLTSGDMFCMHSGCLVEATERTEVRFADIRTFEQKLQTCP 106
>pdb|1BM8| Dna-Binding Domain Of Mbp1
Length = 99
Score = 27.7 bits (60), Expect = 1.5
Identities = 21/50 (42%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 194 LEKSVLKEPHEALFGGVKGDEILKEIVFLAAKLKIPFLVCEMGYDQLKSL 243
LEK VLKE HE + GG + + +A +L F V YDQLK L
Sbjct: 51 LEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSV----YDQLKPL 96
>pdb|1MB1| Mbp1 From Saccharomyces Cerevisiae
Length = 130
Score = 27.7 bits (60), Expect = 1.5
Identities = 21/50 (42%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 194 LEKSVLKEPHEALFGGVKGDEILKEIVFLAAKLKIPFLVCEMGYDQLKSL 243
LEK VLKE HE + GG + + +A +L F V YDQLK L
Sbjct: 54 LEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSV----YDQLKPL 99
>pdb|1I6O|B Chain B, Crystal Structure Of E. Coli Beta Carbonic Anhydrase
(Ecca)
pdb|1I6O|A Chain A, Crystal Structure Of E. Coli Beta Carbonic Anhydrase
(Ecca)
Length = 220
Score = 26.6 bits (57), Expect = 3.3
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 99 LVQKALDIISQYHLKEIGEIGIGSGCVSVSLALENPNLSI 138
+VQ A+D++ H+ G G C V A+ENP L +
Sbjct: 80 VVQYAVDVLEVEHIIICGHYG----CGGVQAAVENPELGL 115
>pdb|1I6P|A Chain A, Crystal Structure Of E. Coli Beta Carbonic Anhydrase
(Ecca)
Length = 220
Score = 26.6 bits (57), Expect = 3.3
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 99 LVQKALDIISQYHLKEIGEIGIGSGCVSVSLALENPNLSI 138
+VQ A+D++ H+ G G C V A+ENP L +
Sbjct: 80 VVQYAVDVLEVEHIIICGHYG----CGGVQAAVENPELGL 115
>pdb|1DUS|A Chain A, Mj0882-A Hypothetical Protein From M. Jannaschii
Length = 194
Score = 25.8 bits (55), Expect = 5.7
Identities = 23/96 (23%), Positives = 52/96 (53%), Gaps = 6/96 (6%)
Query: 114 EIGEIGIGSGCVSVSLALENPNLSIYASDISPNALEVASKNIEHFCLKE-RVFLKQTRLW 172
+I ++G G G + ++LA E + + +DI+ A+++A +NI+ L + + + L+
Sbjct: 55 DILDLGCGYGVIGIALADEVKSTT--XADINRRAIKLAKENIKLNNLDNYDIRVVHSDLY 112
Query: 173 DHMP--MIEMLVSNPPYIARNYPLEKSVLKEPHEAL 206
+++ +++NPP A L + +++E E L
Sbjct: 113 ENVKDRKYNKIITNPPIRAGKEVLHR-IIEEGKELL 147
>pdb|1K20|A Chain A, Inorganic Pyrophosphatase (Family Ii) From Streptococcus
Gordonii At 1.5 A Resolution
pdb|1K20|B Chain B, Inorganic Pyrophosphatase (Family Ii) From Streptococcus
Gordonii At 1.5 A Resolution
Length = 310
Score = 25.8 bits (55), Expect = 5.7
Identities = 16/48 (33%), Positives = 26/48 (53%), Gaps = 1/48 (2%)
Query: 113 KEIGEIGIGSGCVSVSLALENPNLSIYASDISPNALEVASKNIEHFCL 160
KEI + + SG +S +L L++P I+P E+A N+E + L
Sbjct: 137 KEIAGLML-SGLISDTLLLKSPTTHPTDKAIAPELAELAGVNLEEYGL 183
>pdb|1JPM|C Chain C, L-Ala-DL-Glu Epimerase
pdb|1JPM|A Chain A, L-Ala-DL-Glu Epimerase
pdb|1JPM|B Chain B, L-Ala-DL-Glu Epimerase
pdb|1JPM|D Chain D, L-Ala-DL-Glu Epimerase
Length = 366
Score = 25.0 bits (53), Expect = 9.7
Identities = 17/62 (27%), Positives = 29/62 (46%)
Query: 58 ELVEKRLNNCPIEYLLESCDFYGRSFFVNEHVLIPRPETEILVQKALDIISQYHLKEIGE 117
ELVE+ ++ + L + D +E V PR E+L ++ D+I+ +K G
Sbjct: 216 ELVEQPVHKDDLAGLKKVTDATDTPIMADESVFTPRQAFEVLQTRSADLINIKLMKAGGI 275
Query: 118 IG 119
G
Sbjct: 276 SG 277
>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a
Length = 691
Score = 25.0 bits (53), Expect = 9.7
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 16 QKGFRGGLESEILLGFVLQKERVFLHTHAYLELNHEE 52
QKG ++S L+GF + +V L+ +Y E++ E
Sbjct: 543 QKGIEEAMQSGPLIGFPVVDIKVTLYDGSYAEVDSSE 579
>pdb|1HXD|A Chain A, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|1HXD|B Chain B, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|1BIA| Bira Bifunctional Protein (Acts As Biotin Operon Repressor And
Biotin Holoenzyme Synthetase) (E.C.6.3.4.15)
pdb|1BIB| Bira Bifunctional Protein (Acts As Biotin Operon Repressor And
Biotin Holoenzyme Synthetase) (E.C.6.3.4.15) Complex
With Biotinylated Lysine
Length = 321
Score = 25.0 bits (53), Expect = 9.7
Identities = 10/29 (34%), Positives = 16/29 (54%)
Query: 98 ILVQKALDIISQYHLKEIGEIGIGSGCVS 126
+ V +D +QY L IGE+ G C++
Sbjct: 81 VAVLPVIDSTNQYLLDRIGELKSGDACIA 109
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
0.322 0.142 0.415
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,547,365
Number of Sequences: 13198
Number of extensions: 61050
Number of successful extensions: 115
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 108
Number of HSP's gapped (non-prelim): 11
length of query: 276
length of database: 2,899,336
effective HSP length: 87
effective length of query: 189
effective length of database: 1,751,110
effective search space: 330959790
effective search space used: 330959790
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)