BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 024098
         (272 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3GCE|A Chain A, Ferredoxin Of Carbazole 1,9a-Dioxygenase From Nocardioides
           Aromaticivorans Ic177
          Length = 121

 Score = 35.0 bits (79), Expect = 0.045,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 37/77 (48%), Gaps = 4/77 (5%)

Query: 92  VPVVPLSALPKGERRVIIQDGETILLLWYKDEVFAIENR-SPAEGAYSEGLINAKLTQDG 150
           V V  L  L  G       DG+ ++++   D V+AI N  S AE     G+ +A+  +  
Sbjct: 12  VRVATLDQLKPGVPTAFDVDGDEVMVVRDGDSVYAISNLCSHAEAYLDMGVFHAESLE-- 69

Query: 151 CIVCPTTESTFDLRTGA 167
            I CP     FD+RTGA
Sbjct: 70  -IECPLHVGRFDVRTGA 85


>pdb|2QPZ|A Chain A, Naphthalene 1,2-Dioxygenase Rieske Ferredoxin
          Length = 103

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 6/78 (7%)

Query: 90  NWVPVVPLSALPKGERRVIIQDGETILLLWYKDEVFAIENR-SPAEGAYSEGLINAKLTQ 148
            W+  V LS + +G+   +  +G+ + L   + E++A +N  +      S+G +  +  +
Sbjct: 3   KWIEAVALSDILEGDVLGVTVEGKELALYEVEGEIYATDNLCTHGSARMSDGYLEGREIE 62

Query: 149 DGCIVCPTTESTFDLRTG 166
                CP  +  FD+ TG
Sbjct: 63  -----CPLHQGRFDVCTG 75


>pdb|3SY9|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|B Chain B, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|C Chain C, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|D Chain D, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
          Length = 430

 Score = 29.6 bits (65), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 177 VMEGGASSDASAEIVF-SGKAQPGVTATDVNIEEVRMVVDEDLEGFG 222
           V++GG + D S  + + + +   G +A D +I+E R++VD  ++ FG
Sbjct: 377 VVQGGPAKDLSLRLRWATHRGTGGYSAVDNDIDEYRVIVDYPIDVFG 423


>pdb|2I7F|A Chain A, Sphingomonas Yanoikuyae B1 Ferredoxin
 pdb|2I7F|B Chain B, Sphingomonas Yanoikuyae B1 Ferredoxin
          Length = 108

 Score = 28.9 bits (63), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 13/85 (15%)

Query: 90  NWVPVVPLSALPKGERRVIIQDGETILLLWYKD-EVFAIENRSPAEGAYSEGLINAKLT- 147
           N + +  ++++  GE   + Q+    L ++  D EVF  +N        + G  NA LT 
Sbjct: 3   NKLRLCQVASVKDGEPVAVYQEKMPALAVYNVDGEVFVTDNLC------THG--NAMLTD 54

Query: 148 --QDGCIV-CPTTESTFDLRTGAVR 169
             QDG I+ CP    +FD+ TGA +
Sbjct: 55  GYQDGTIIECPFHGGSFDIATGAAK 79


>pdb|1Y5E|A Chain A, Crystal Structure Of Molybdenum Cofactor Biosynthesis
           Protein B
 pdb|1Y5E|B Chain B, Crystal Structure Of Molybdenum Cofactor Biosynthesis
           Protein B
 pdb|1Y5E|C Chain C, Crystal Structure Of Molybdenum Cofactor Biosynthesis
           Protein B
          Length = 169

 Score = 27.3 bits (59), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 11/24 (45%), Positives = 17/24 (70%)

Query: 199 GVTATDVNIEEVRMVVDEDLEGFG 222
           G+T  DV IE V  ++D+++ GFG
Sbjct: 83  GITKRDVTIEAVSALLDKEIVGFG 106


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.317    0.135    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,503,508
Number of Sequences: 62578
Number of extensions: 221222
Number of successful extensions: 455
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 452
Number of HSP's gapped (non-prelim): 6
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
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: 51 (24.3 bits)