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|15644865|ref|NP_207035.1| porphobilinogen deaminase
(hemC) [Helicobacter pylori 26695]
(306 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|2YPN|A Chain A, Hydroxymethylbilane Synthase 239 2e-64
pdb|1YPN| Reduced Form Hydroxymethylbilane Synthase (K59q... 238 6e-64
pdb|1AH5| Reduced Form Selenomethionine-Labelled Hydroxym... 236 2e-63
pdb|1PDA| Porphobilinogen Deaminase (E.C.4.3.1.8) 217 1e-57
pdb|1MGP|A Chain A, Hypothetical Protein Tm841 From Thermot... 28 1.3
pdb|1JHN|A Chain A, Crystal Structure Of The Lumenal Domain... 27 2.9
pdb|1DQZ|A Chain A, Crystal Structure Of Antigen 85c From M... 26 6.5
pdb|1DQY|A Chain A, Crystal Structure Of Antigen 85c From M... 26 6.5
>pdb|2YPN|A Chain A, Hydroxymethylbilane Synthase
Length = 313
Score = 239 bits (611), Expect = 2e-64
Identities = 139/299 (46%), Positives = 193/299 (64%), Gaps = 3/299 (1%)
Query: 4 LVIGSRGSELALWQANHIKERLKKECL-IESEIQIVKTKGDKILDTPLNKIGGKGLFTKE 62
L I +R S LALWQA+++K++L + E+ + T+GD ILDTPL K+GGKGLF KE
Sbjct: 6 LRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVGGKGLFVKE 65
Query: 63 LEELLLKGAIDLAVHSLKDVPVVFEKGLDLACITKRADVRDTFLSVKFPDLMSLPKGAKV 122
LE LL+ D+AVHS+KDVPV F +GL L I +R D RD F+S + L +LP G+ V
Sbjct: 66 LEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIV 125
Query: 123 GTTSLRRSMQIKLKRQDLDTESLRGNVQTRLKKLECGEFDAIILAEAGLCRLEIQGAKYR 182
GT+SLRR Q+ +R DL SLRGNV TRL KL+ GE+DAIILA AGL RL ++ ++ R
Sbjct: 126 GTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLE-SRIR 184
Query: 183 KAFSVEEMIPSMGQGALGVE-MLKNHKHFATLQKLNDEKSAFCCRLEREFIKGLNGGCQI 241
A E +P++GQGA+G+E L + + L LN ++A ER L GGCQ+
Sbjct: 185 AALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEGGCQV 244
Query: 242 PIGVHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
PIG +A L+ + ++A++G P+G ++I E++G A + L EE L +GA+EIL
Sbjct: 245 PIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREIL 303
>pdb|1YPN| Reduced Form Hydroxymethylbilane Synthase (K59q Mutant) Crystal
Structure After 2 Hours In A Flow Cell Determined By
Time-Resolved Laue Diffraction
Length = 313
Score = 238 bits (607), Expect = 6e-64
Identities = 138/299 (46%), Positives = 193/299 (64%), Gaps = 3/299 (1%)
Query: 4 LVIGSRGSELALWQANHIKERLKKECL-IESEIQIVKTKGDKILDTPLNKIGGKGLFTKE 62
L I +R S LALWQA+++K++L + E+ + T+GD ILDTPL K+GG+GLF KE
Sbjct: 6 LRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVGGQGLFVKE 65
Query: 63 LEELLLKGAIDLAVHSLKDVPVVFEKGLDLACITKRADVRDTFLSVKFPDLMSLPKGAKV 122
LE LL+ D+AVHS+KDVPV F +GL L I +R D RD F+S + L +LP G+ V
Sbjct: 66 LEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIV 125
Query: 123 GTTSLRRSMQIKLKRQDLDTESLRGNVQTRLKKLECGEFDAIILAEAGLCRLEIQGAKYR 182
GT+SLRR Q+ +R DL SLRGNV TRL KL+ GE+DAIILA AGL RL ++ ++ R
Sbjct: 126 GTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLE-SRIR 184
Query: 183 KAFSVEEMIPSMGQGALGVE-MLKNHKHFATLQKLNDEKSAFCCRLEREFIKGLNGGCQI 241
A E +P++GQGA+G+E L + + L LN ++A ER L GGCQ+
Sbjct: 185 AALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEGGCQV 244
Query: 242 PIGVHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
PIG +A L+ + ++A++G P+G ++I E++G A + L EE L +GA+EIL
Sbjct: 245 PIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREIL 303
>pdb|1AH5| Reduced Form Selenomethionine-Labelled Hydroxymethylbilane
Synthase Determined By Mad
Length = 313
Score = 236 bits (602), Expect = 2e-63
Identities = 139/299 (46%), Positives = 190/299 (63%), Gaps = 3/299 (1%)
Query: 4 LVIGSRGSELALWQANHIKERLKKECL-IESEIQIVKTKGDKILDTPLNKIGGKGLFTKE 62
L I +R S LALWQA+++K++L + E+ T+GD ILDTPL K+GGKGLF KE
Sbjct: 6 LRIATRQSPLALWQAHYVKDKLXASHPGLVVELVPXVTRGDVILDTPLAKVGGKGLFVKE 65
Query: 63 LEELLLKGAIDLAVHSLKDVPVVFEKGLDLACITKRADVRDTFLSVKFPDLMSLPKGAKV 122
LE LL+ D+AVHS KDVPV F +GL L I +R D RD F+S + L +LP G+ V
Sbjct: 66 LEVALLENRADIAVHSXKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIV 125
Query: 123 GTTSLRRSMQIKLKRQDLDTESLRGNVQTRLKKLECGEFDAIILAEAGLCRLEIQGAKYR 182
GT+SLRR Q+ +R DL SLRGNV TRL KL+ GE+DAIILA AGL RL ++ ++ R
Sbjct: 126 GTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLE-SRIR 184
Query: 183 KAFSVEEMIPSMGQGALGVE-MLKNHKHFATLQKLNDEKSAFCCRLEREFIKGLNGGCQI 241
A E +P++GQGA+G+E L + + L LN ++A ER L GGCQ+
Sbjct: 185 AALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAXNTRLEGGCQV 244
Query: 242 PIGVHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
PIG +A L+ + ++A++G P+G ++I E++G A L EE L +GA+EIL
Sbjct: 245 PIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQXGISLAEELLNNGAREIL 303
>pdb|1PDA| Porphobilinogen Deaminase (E.C.4.3.1.8)
Length = 296
Score = 217 bits (553), Expect = 1e-57
Identities = 132/299 (44%), Positives = 185/299 (61%), Gaps = 12/299 (4%)
Query: 4 LVIGSRGSELALWQANHIKERLKKECL-IESEIQIVKTKGDKILDTPLNKIGGKGLFTKE 62
L I +R S LALWQA+++K++L + E+ + T+GD I GKGLF KE
Sbjct: 4 LRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVI---------GKGLFVKE 54
Query: 63 LEELLLKGAIDLAVHSLKDVPVVFEKGLDLACITKRADVRDTFLSVKFPDLMSLPKGAKV 122
LE LL+ D+AVHS+KDVPV F +GL L I +R D RD F+S + L +LP G+ V
Sbjct: 55 LEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIV 114
Query: 123 GTTSLRRSMQIKLKRQDLDTESLRGNVQTRLKKLECGEFDAIILAEAGLCRLEIQGAKYR 182
GT+SLRR Q+ +R DL SLRGNV TRL KL+ GE+DAIILA AGL RL ++ ++ R
Sbjct: 115 GTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLE-SRIR 173
Query: 183 KAFSVEEMIPSMGQGALGVE-MLKNHKHFATLQKLNDEKSAFCCRLEREFIKGLNGGCQI 241
A E +P++GQGA+G+E L + + L LN ++A ER L GGCQ+
Sbjct: 174 AALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEGGCQV 233
Query: 242 PIGVHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
PIG +A L+ + ++A++G P+G ++I E++G A + L EE L +GA+EIL
Sbjct: 234 PIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREIL 292
>pdb|1MGP|A Chain A, Hypothetical Protein Tm841 From Thermotoga Maritima
Reveals Fatty Acid Binding Function
Length = 313
Score = 28.1 bits (61), Expect = 1.3
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 250 MGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAK 297
+G+ +KI+ L + NG+ + ++ +GDK KA + + E L E G+K
Sbjct: 208 VGNLLKIRVCLHIENGELIPYRKVRGDK-KAIEALIEKLREDTPEGSK 254
>pdb|1JHN|A Chain A, Crystal Structure Of The Lumenal Domain Of Calnexin
Length = 424
Score = 26.9 bits (58), Expect = 2.9
Identities = 18/59 (30%), Positives = 28/59 (46%)
Query: 159 GEFDAIILAEAGLCRLEIQGAKYRKAFSVEEMIPSMGQGALGVEMLKNHKHFATLQKLN 217
G IL++A + + AKY + V+EM + G G+ ++ KH A KLN
Sbjct: 35 GTLSGWILSKAKKDDTDDEIAKYDGKWEVDEMKETKLPGDKGLVLMSRAKHHAISAKLN 93
>pdb|1DQZ|A Chain A, Crystal Structure Of Antigen 85c From Mycobacterium
Tuberculosis
pdb|1DQZ|B Chain B, Crystal Structure Of Antigen 85c From Mycobacterium
Tuberculosis
Length = 280
Score = 25.8 bits (55), Expect = 6.5
Identities = 15/56 (26%), Positives = 27/56 (47%)
Query: 245 VHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
V ++ MG +K+Q G P+ ++ + D +D+ EE+ QSG I+
Sbjct: 11 VPSASMGRDIKVQFQGGGPHAVYLLDGLRAQDDYNGWDINTPAFEEYYQSGLSVIM 66
>pdb|1DQY|A Chain A, Crystal Structure Of Antigen 85c From Mycobacterium
Tuberculosis With Diethyl Phosphate Inhibitor
Length = 283
Score = 25.8 bits (55), Expect = 6.5
Identities = 15/56 (26%), Positives = 27/56 (47%)
Query: 245 VHASLMGDRVKIQAVLGLPNGKEVITKEKQGDKTKAFDLVQELLEEFLQSGAKEIL 300
V ++ MG +K+Q G P+ ++ + D +D+ EE+ QSG I+
Sbjct: 14 VPSASMGRDIKVQFQGGGPHAVYLLDGLRAQDDYNGWDINTPAFEEYYQSGLSVIM 69
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 0.138 0.385
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,665,285
Number of Sequences: 13198
Number of extensions: 68226
Number of successful extensions: 171
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 151
Number of HSP's gapped (non-prelim): 8
length of query: 306
length of database: 2,899,336
effective HSP length: 88
effective length of query: 218
effective length of database: 1,737,912
effective search space: 378864816
effective search space used: 378864816
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)