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= 036072
         (631 letters)

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

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



>pdb|3MZK|B Chain B, Sec13SEC16 COMPLEX, S.CEREVISIAE
 pdb|3MZK|C Chain C, Sec13SEC16 COMPLEX, S.CEREVISIAE
          Length = 441

 Score = 32.0 bits (71), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 9/77 (11%)

Query: 493 EMVRSGFKPTIHTYNMIMKSYFQTGNYEMGRKVWDEMIRRGCCPDDNSYTVLIGGLISQD 552
           +M+ + ++  I+   M + ++ QTGN+       DE +R      D +  +L+G L+ +D
Sbjct: 141 DMIPNAYRLDINC-QMRVLAFLQTGNH-------DEALRLALSKRDYAIALLVGSLMGKD 192

Query: 553 RSGEAY-KYLEEMLEKG 568
           R  E   KYL E    G
Sbjct: 193 RWSEVIQKYLYEGFTAG 209


>pdb|1VBR|A Chain A, Crystal Structure Of Complex Xylanase 10b From Thermotoga
           Maritima With Xylobiose
 pdb|1VBR|B Chain B, Crystal Structure Of Complex Xylanase 10b From Thermotoga
           Maritima With Xylobiose
 pdb|1VBU|A Chain A, Crystal Structure Of Native Xylanase 10b From Thermotoga
           Maritima
 pdb|1VBU|B Chain B, Crystal Structure Of Native Xylanase 10b From Thermotoga
           Maritima
          Length = 328

 Score = 29.6 bits (65), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 20/28 (71%)

Query: 448 RMDIVYDLLKEMEERGCPPDGLTYNALI 475
           + + VY+++KE++E+G P DG+ +   I
Sbjct: 185 KSNFVYNMIKELKEKGVPVDGIGFQMHI 212


>pdb|3NIY|A Chain A, Crystal Structure Of Native Xylanase 10b From Thermotoga
           Petrophila Rku-1
 pdb|3NIY|B Chain B, Crystal Structure Of Native Xylanase 10b From Thermotoga
           Petrophila Rku-1
 pdb|3NJ3|A Chain A, Crystal Structure Of Xylanase 10b From Thermotoga
           Petrophila Rku-1 In Complex With Xylobiose
 pdb|3NJ3|B Chain B, Crystal Structure Of Xylanase 10b From Thermotoga
           Petrophila Rku-1 In Complex With Xylobiose
          Length = 341

 Score = 29.6 bits (65), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 20/28 (71%)

Query: 448 RMDIVYDLLKEMEERGCPPDGLTYNALI 475
           + + VY+++KE++E+G P DG+ +   I
Sbjct: 201 KSNFVYNMIKELKEKGVPVDGIGFQMHI 228


>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 29.6 bits (65), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 24/131 (18%), Positives = 55/131 (41%), Gaps = 6/131 (4%)

Query: 395 KIGKRSDAIKLFEVMKAKGPSPNVRSYTIMIWKFCKQNAAVYTCLITGFGNRRRMDIVYD 454
           K G   +A++L++  +  G   +   Y ++++      AA  +    G          +D
Sbjct: 38  KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRG------FD 91

Query: 455 LLKEMEERGCPPDGLTYNALIKLMKIQKMPDEAVRIYKEMVRSGFKPTIHTYNMIMKSYF 514
           + K+M      P+  T+    +L   +  P+ A  + K+M   G +P + +Y   +  + 
Sbjct: 92  IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151

Query: 515 QTGNYEMGRKV 525
           + G+ +   +V
Sbjct: 152 RKGDADKAYEV 162


  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
   0.319    0.134    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,548,674
Number of Sequences: 62578
Number of extensions: 641589
Number of successful extensions: 1719
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1711
Number of HSP's gapped (non-prelim): 8
length of query: 631
length of database: 14,973,337
effective HSP length: 105
effective length of query: 526
effective length of database: 8,402,647
effective search space: 4419792322
effective search space used: 4419792322
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)