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= 044945
         (296 letters)

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

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



>pdb|1RNF|A Chain A, X-Ray Crystal Structure Of Unliganded Human Ribonuclease 4
 pdb|1RNF|B Chain B, X-Ray Crystal Structure Of Unliganded Human Ribonuclease 4
 pdb|2RNF|A Chain A, X-ray Crystal Structure Of Human Ribonuclease 4 In Complex
           With D(up)
 pdb|2RNF|B Chain B, X-ray Crystal Structure Of Human Ribonuclease 4 In Complex
           With D(up)
          Length = 120

 Score = 31.2 bits (69), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 2   IANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSS 61
           I NI  +    N++  NG   C+E + K     D    RA +   Y  +      + +  
Sbjct: 51  IWNIRSICSTTNIQCKNGKMNCHEGVVKVTDCRDTGSSRAPNC-RYRAIASTRRVVIACE 109

Query: 62  GGRQVDIHFDG 72
           G  QV +HFDG
Sbjct: 110 GNPQVPVHFDG 120


>pdb|3TRI|A Chain A, Structure Of A Pyrroline-5-Carboxylate Reductase (Proc)
           From Coxiella Burnetii
 pdb|3TRI|B Chain B, Structure Of A Pyrroline-5-Carboxylate Reductase (Proc)
           From Coxiella Burnetii
          Length = 280

 Score = 29.3 bits (64), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 3/72 (4%)

Query: 188 AYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPD 247
           AY+ LI EAL+   E  EQ G   +T E+L +              + +  +   +++P 
Sbjct: 179 AYIFLIXEALQ---EAAEQLGLTKETAELLTEQTVLGAARXALETEQSVVQLRQFVTSPG 235

Query: 248 GTTIRVIKNLPS 259
           GTT + IK L S
Sbjct: 236 GTTEQAIKVLES 247


>pdb|3SXZ|A Chain A, Metal-Free Fcd Domain Of Tm0439 A Putative Transcriptional
           Regulator
 pdb|3SXZ|B Chain B, Metal-Free Fcd Domain Of Tm0439 A Putative Transcriptional
           Regulator
          Length = 140

 Score = 28.1 bits (61), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 5/67 (7%)

Query: 168 VELAEKVADMILMIEPNNTGAYVILINEALKDLLERM---EQEGYVPDTKEVLLDVEEEQ 224
           + L EK+ D I ++   N   YV+  N   K+L+ER+   ++EG +   KE L +VE E 
Sbjct: 76  ISLYEKIWDRIDLVRHLNE-RYVVS-NREHKELIERIISGDKEGAIEKLKEHLKNVEAET 133

Query: 225 KKNILYY 231
            KN+  Y
Sbjct: 134 IKNLYTY 140


>pdb|3FMS|A Chain A, Crystal Structure Of Tm0439, A Gntr Transcriptional
           Regulator
          Length = 209

 Score = 27.7 bits (60), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 5/67 (7%)

Query: 168 VELAEKVADMILMIEPNNTGAYVILINEALKDLLERM---EQEGYVPDTKEVLLDVEEEQ 224
           + L EK+ D I ++   N   YV+  N   K+L+ER+   ++EG +   KE L +VE E 
Sbjct: 142 ISLYEKIWDRIDLVRHLNE-RYVV-SNREHKELIERIISGDKEGAIEKLKEHLKNVEAET 199

Query: 225 KKNILYY 231
            KN+  Y
Sbjct: 200 IKNLYTY 206


>pdb|3SXY|A Chain A, Metal-Free Full-Length Structure Of Tm0439, A
           Metal-Binding Fcd Family Transcriptional Regulator
 pdb|3SXY|B Chain B, Metal-Free Full-Length Structure Of Tm0439, A
           Metal-Binding Fcd Family Transcriptional Regulator
          Length = 218

 Score = 27.7 bits (60), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 5/68 (7%)

Query: 168 VELAEKVADMILMIEPNNTGAYVILINEALKDLLERM---EQEGYVPDTKEVLLDVEEEQ 224
           + L EK+ D I ++   N   YV+  N   K+L+ER+   ++EG +   KE L +VE E 
Sbjct: 151 ISLYEKIWDRIDLVRHLNE-RYVV-SNREHKELIERIISGDKEGAIEKLKEHLKNVEAET 208

Query: 225 KKNILYYH 232
            KN+  Y 
Sbjct: 209 IKNLYTYE 216


  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
   0.322    0.139    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,746,727
Number of Sequences: 62578
Number of extensions: 365089
Number of successful extensions: 935
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 932
Number of HSP's gapped (non-prelim): 10
length of query: 296
length of database: 14,973,337
effective HSP length: 98
effective length of query: 198
effective length of database: 8,840,693
effective search space: 1750457214
effective search space used: 1750457214
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)