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|15646070|ref|NP_208252.1| cytochrome c551 peroxidase
[Helicobacter pylori 26695]
         (350 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|1EB7|A  Chain A, Crystal Structure Of The Di-Haem Cytoch...   269  4e-73
pdb|1IQC|A  Chain A, Crystal Structure Of Di-Heme Peroxidase...   234  8e-63

>pdb|1EB7|A Chain A, Crystal Structure Of The Di-Haem Cytochrome C Peroxidase
           From Pseudomonas Aeruginosa
          Length = 323

 Score =  269 bits (687), Expect = 4e-73
 Identities = 139/301 (46%), Positives = 197/301 (65%), Gaps = 18/301 (5%)

Query: 63  MTSAQVELGKMLYFDPRISTSYLVSCNTCHNLGLGGVDLVPSAIGSQWKKNPHLLSSPTV 122
           ++  Q ELGK L+FDPR+S S+++SCNTCHN+G GG D VP+++G  W+K P   +SPTV
Sbjct: 26  ISEQQRELGKKLFFDPRLSRSHVLSCNTCHNVGTGGADNVPTSVGHGWQKGPR--NSPTV 83

Query: 123 YNSVFNDVQFWDGRVTHLNEQAQGPIQSSFEMGADPKVVVEKINSMPGYVKLFRKAYGSK 182
           +N+VFN  QFWDGR   L EQA+GPIQ+S EM + P++V + + S+P YV  FRKA+   
Sbjct: 84  FNAVFNAAQFWDGRAKDLGEQAKGPIQNSVEMHSTPQLVEQTLGSIPEYVDAFRKAFPKA 143

Query: 183 VK-IDFKLIADSIAMFEATLITP-SRYDDFLRGNPKALSKAEKEGLNLFISKGCVACHNG 240
            K + F  +A +I  +EATL+TP S +D +L+G+ KAL   +K+GL  F+  GC ACHNG
Sbjct: 144 GKPVSFDNMALAIEAYEATLVTPDSPFDLYLKGDDKALDAQQKKGLKAFMDSGCSACHNG 203

Query: 241 INLGGTMQ-PFGVVKPYKFANVGDFKGDKNGLVKVPT-----------LRNITETMPYFH 288
           INLGG    PFG+VK    + +    GDK       T           LRN+  T PYFH
Sbjct: 204 INLGGQAYFPFGLVKKPDASVLPS--GDKGRFAVTKTQSDEYVFRAAPLRNVALTAPYFH 261

Query: 289 NGQFWDVKDAIKEMGSIQLGIEISDEEAKKIETFFGALRGKKPKIIYPELPIMTDKTPKP 348
           +GQ W++KDA+  MG+ QLG +++ ++ + I  F  +L GK+P++ YP LP  T+ TP+P
Sbjct: 262 SGQVWELKDAVAIMGNAQLGKQLAPDDVENIVAFLHSLSGKQPRVEYPLLPASTETTPRP 321

Query: 349 S 349
           +
Sbjct: 322 A 322



>pdb|1IQC|A Chain A, Crystal Structure Of Di-Heme Peroxidase From Nitrosomonas
           Europaea
 pdb|1IQC|B Chain B, Crystal Structure Of Di-Heme Peroxidase From Nitrosomonas
           Europaea
 pdb|1IQC|C Chain C, Crystal Structure Of Di-Heme Peroxidase From Nitrosomonas
           Europaea
 pdb|1IQC|D Chain D, Crystal Structure Of Di-Heme Peroxidase From Nitrosomonas
           Europaea
          Length = 308

 Score =  234 bits (598), Expect = 8e-63
 Identities = 127/287 (44%), Positives = 175/287 (60%), Gaps = 11/287 (3%)

Query: 69  ELGKMLYFDPRISTSYLVSCNTCHNLGLGGVDLVPSAIGSQWKKNPHLLSSPTVYNSVFN 128
           ELGKML+FDPR+S S  +SCN+CHNL +GG D + ++IG +W++ P  +++PTV NS  N
Sbjct: 20  ELGKMLFFDPRLSKSGFISCNSCHNLSMGGTDNITTSIGHKWQQGP--INAPTVLNSSMN 77

Query: 129 DVQFWDGRVTHLNEQAQGPIQSSFEMGADPKVVVEKINSMPGYVKLFRKAYGSKVKIDFK 188
             QFWDGR   L EQA GPI +  EM +  ++  + + SMP Y + F+K +GS  ++   
Sbjct: 78  LAQFWDGRAKDLKEQAAGPIANPKEMASTHEIAEKVVASMPQYRERFKKVFGSD-EVTID 136

Query: 189 LIADSIAMFEATLITP-SRYDDFLRGNPKALSKAEKEGLNLFISKGCVACHNGINLGG-T 246
            I  +IA FE TL+TP S++D +L G+  AL++ E EG NLF   GCV CHNG  +GG +
Sbjct: 137 RITTAIAQFEETLVTPGSKFDKWLEGDKNALNQDELEGYNLFKGSGCVQCHNGPAVGGSS 196

Query: 247 MQPFGVVKPYKFANVGDFKGDKNG------LVKVPTLRNITETMPYFHNGQFWDVKDAIK 300
            Q  GV KPY+  N    + D  G      + KVPTLRNI  T PYFH+G    ++ A++
Sbjct: 197 YQKMGVFKPYETKNPAAGRMDVTGNEADRNVFKVPTLRNIELTYPYFHDGGAATLEQAVE 256

Query: 301 EMGSIQLGIEISDEEAKKIETFFGALRGKKPKIIYPELPIMTDKTPK 347
            MG IQL  E + +E  KI  F   L G +P    P LP   + TP+
Sbjct: 257 TMGRIQLNREFNKDEVSKIVAFLKTLTGDQPDFKLPILPPSNNDTPR 303



  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
   0.318    0.137    0.404 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,107,886
Number of Sequences: 13198
Number of extensions: 90182
Number of successful extensions: 225
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 214
Number of HSP's gapped (non-prelim): 2
length of query: 350
length of database: 2,899,336
effective HSP length: 89
effective length of query: 261
effective length of database: 1,724,714
effective search space: 450150354
effective search space used: 450150354
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)