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= psy10923
         (520 letters)

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

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



>pdb|3TIG|A Chain A, Tubulin Tyrosine Ligase
 pdb|3TII|A Chain A, Tubulin Tyrosine Ligase
 pdb|3TII|B Chain B, Tubulin Tyrosine Ligase
 pdb|3TIN|A Chain A, Tubulin Tyrosine Ligase
          Length = 380

 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 80/163 (49%), Gaps = 12/163 (7%)

Query: 76  VRVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTCPRCVVQKYIEKPLLIHGV--KFDL 133
           V + K  +   G GI I     ++   I     +     V+QKY+E PLL+     KFD+
Sbjct: 149 VWIAKSSSGAKGEGILISSDATELLDFIDNQGQVH----VIQKYLESPLLLEPGHRKFDI 204

Query: 134 RVWYVITNIDKFKIWVYHEGYVRFCSKPYSNI-LLDEARHLTNVRIQKQYRNVRDPPQLP 192
           R W ++ N  ++ I++Y EG +R  S+PYS+    D   HLTN  IQK++       +  
Sbjct: 205 RSWVLVDN--QYNIYLYREGVLRTSSEPYSDTNFQDMTSHLTNHCIQKEHSKNYGRYEEG 262

Query: 193 AELMWDFKQLRDYFTKNMNLPRKWDMIMRAMEESIVTIMRCAQ 235
            E+   F++   Y   ++N+  + + I+  ++E I   + C +
Sbjct: 263 NEMF--FEEFNQYLVTSLNINLE-NSILCQIKEIIRVCLSCLE 302



 Score = 37.0 bits (84), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 30/48 (62%), Gaps = 3/48 (6%)

Query: 237 WYVITNIDKFKIWVYHEGYVRFCSKPYSNI-LLDEARHLTNVRIQKQY 283
           W ++ N  ++ I++Y EG +R  S+PYS+    D   HLTN  IQK++
Sbjct: 207 WVLVDN--QYNIYLYREGVLRTSSEPYSDTNFQDMTSHLTNHCIQKEH 252


>pdb|4I4T|F Chain F, Crystal Structure Of Tubulin-rb3-ttl-zampanolide Complex
 pdb|4I50|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-epothilone A
           Complex
 pdb|4I55|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl Complex
 pdb|4IIJ|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-apo Complex
 pdb|4IHJ|F Chain F, Crystal Structure Of Tubulin-stathmin-ttl-adp Complex
          Length = 384

 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 61/110 (55%), Gaps = 9/110 (8%)

Query: 76  VRVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTCPRCVVQKYIEKPLLIHGV--KFDL 133
           V + K  A   G GI I  +  ++   I     +     V+QKY+EKPLL+     KFD+
Sbjct: 146 VWIAKSSAGAKGEGILISSEASELLDFIDEQGQVH----VIQKYLEKPLLLEPGHRKFDI 201

Query: 134 RVWYVITNIDKFKIWVYHEGYVRFCSKPYSNI-LLDEARHLTNVRIQKQY 182
           R W ++ ++  + I++Y EG +R  S+PY++    D+  HLTN  IQK+Y
Sbjct: 202 RSWVLVDHL--YNIYLYREGVLRTSSEPYNSANFQDKTCHLTNHCIQKEY 249



 Score = 34.7 bits (78), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 237 WYVITNIDKFKIWVYHEGYVRFCSKPYSNI-LLDEARHLTNVRIQKQY 283
           W ++ ++  + I++Y EG +R  S+PY++    D+  HLTN  IQK+Y
Sbjct: 204 WVLVDHL--YNIYLYREGVLRTSSEPYNSANFQDKTCHLTNHCIQKEY 249


>pdb|3LTO|A Chain A, Crystal Structure Of A Mevalonate Diphosphate
           Decarboxylase From Legionella Pneumophila
 pdb|3LTO|B Chain B, Crystal Structure Of A Mevalonate Diphosphate
           Decarboxylase From Legionella Pneumophila
          Length = 323

 Score = 29.3 bits (64), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 2/58 (3%)

Query: 257 RFCSKPYSNILLDEARHLTNVRIQKQYRNVRDPPQLPADLGDYNFLNYISEMTDYVRR 314
           + C KP+S I  D   H+ +V I+K +    D P +  D G    L Y S+ TD  R+
Sbjct: 247 KTCEKPFSYIT-DNTLHILSV-IEKFWNEKGDGPVVTXDAGPNVHLLYRSDQTDLARQ 302


  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
   0.325    0.139    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,720,066
Number of Sequences: 62578
Number of extensions: 639006
Number of successful extensions: 1617
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1608
Number of HSP's gapped (non-prelim): 9
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)