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= 012511
         (462 letters)

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

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



>pdb|3DTN|A Chain A, Crystal Structure Of Putative Methyltransferase-mm_2633
           From Methanosarcina Mazei .
 pdb|3DTN|B Chain B, Crystal Structure Of Putative Methyltransferase-mm_2633
           From Methanosarcina Mazei
          Length = 234

 Score = 32.7 bits (73), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 28/132 (21%), Positives = 61/132 (46%), Gaps = 18/132 (13%)

Query: 96  VLDFGAGTG--SAFWALREVWPRSLEKVNLVEPSQSMQRAGQSLMQGPKDLPLIHSYNSI 153
           +LD GAGTG  SAF  L E +P +     LV+ S+ M    ++  +G   +  I +    
Sbjct: 48  ILDLGAGTGLLSAF--LMEKYPEA--TFTLVDMSEKMLEIAKNRFRGNLKVKYIEA---- 99

Query: 154 QALNKDISKS--EREHDLVIASYVLGEVPSLQDRITIVRQLWDLTRDVLVLVEPGTPQGS 211
                D SK   E ++D+V+++  +  +   +D+  + ++ + + ++  + +      G 
Sbjct: 100 -----DYSKYDFEEKYDMVVSALSIHHLED-EDKKELYKRSYSILKESGIFINADLVHGE 153

Query: 212 SIISQMRSHILW 223
           +   +  +  +W
Sbjct: 154 TAFIENLNKTIW 165


>pdb|4AG5|A Chain A, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
 pdb|4AG5|B Chain B, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
 pdb|4AG5|C Chain C, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
 pdb|4AG5|D Chain D, Structure Of Virb4 Of Thermoanaerobacter Pseudethanolicus
          Length = 392

 Score = 29.6 bits (65), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 130 MQRAGQSLMQGPK-DLPLIHSYNSIQALNKDISKSEREHDLVIAS 173
           +QR GQ+L+  P   L L      ++A+   ++ SE EHDL++ +
Sbjct: 315 VQRYGQALLDNPTYKLLLAQGEKDLEAITTLMNLSEAEHDLLVNA 359


>pdb|3E8S|A Chain A, Crystal Structure Of Putative Sam Dependent
           Methyltransferase In Complex With Sah (Np_744700.1) From
           Pseudomonas Putida Kt2440 At 2.10 A Resolution
          Length = 227

 Score = 29.6 bits (65), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 10/87 (11%)

Query: 90  GFSPAKVLDFGAGTGSAFWALREVWPRSLEKVNLVEPSQSMQRAGQSLMQGPKDLPLIHS 149
           G  P +VLD G G G   W LR +  R +E V  V+  +++  A ++   G   L    S
Sbjct: 50  GRQPERVLDLGCGEG---WLLRALADRGIEAVG-VDGDRTLVDAARAAGAGEVHLA---S 102

Query: 150 YNSIQALNKDISKSEREHDLVIASYVL 176
           Y  +      + K   ++DL+ A++ L
Sbjct: 103 YAQLAEAKVPVGK---DYDLICANFAL 126


>pdb|1BCC|E Chain E, Cytochrome Bc1 Complex From Chicken
 pdb|3BCC|E Chain E, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
           From Chicken
 pdb|2BCC|E Chain E, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
          Length = 196

 Score = 28.5 bits (62), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 30/140 (21%), Positives = 59/140 (42%), Gaps = 23/140 (16%)

Query: 161 SKSEREHD--------LVIASYVLGEVPSLQDRITIVRQLWDLTRDVLVLVE-----PGT 207
           +KS RE D        LV A   LG   + ++ +T        + DVL + +        
Sbjct: 22  TKSSRESDPSRKGFSYLVTAVTTLGVAYAAKNVVTQFVSSMSASADVLAMSKIEIKLSDI 81

Query: 208 PQGSSIISQMRSHILWMEKRKSRKYEARKSKDTN--KETSKDLVTLRSG--VHIVAPCPH 263
           P+G ++  + R   L++  R  ++ +   + + +  ++   DL  ++    V ++  C H
Sbjct: 82  PEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTH 141

Query: 264 EGRCPLENSGKY------CH 277
            G  P+ N+G +      CH
Sbjct: 142 LGCVPIANAGDFGGYYCPCH 161


  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    0.133    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,716,279
Number of Sequences: 62578
Number of extensions: 580213
Number of successful extensions: 1486
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1485
Number of HSP's gapped (non-prelim): 28
length of query: 462
length of database: 14,973,337
effective HSP length: 102
effective length of query: 360
effective length of database: 8,590,381
effective search space: 3092537160
effective search space used: 3092537160
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)