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= 023843
         (276 letters)

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

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



>pdb|1WLJ|A Chain A, Human Isg20
          Length = 189

 Score =  110 bits (274), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 61/167 (36%), Positives = 98/167 (58%), Gaps = 16/167 (9%)

Query: 81  DVVAMDCEMVGISQGNKSALGRVSLVNKWGNLIYDEFVRPLERVVDFRTRISGIRPRDLR 140
           +VVAMDCEMVG+    +S L R SLVN  G ++YD+F+RP   + D+RTR+SG+ P+ + 
Sbjct: 6   EVVAMDCEMVGLGPHRESGLARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHMV 65

Query: 141 KAKDFPTVQKKVAELIEGRILVGHALHNDLKALLLTHSKKDLRDTSEYQPFLNR------ 194
            A  F   + ++ +L++G+++VGH L +D +AL     K+D+   + Y    +R      
Sbjct: 66  GATPFAVARLEILQLLKGKLVVGHDLKHDFQAL-----KEDMSGYTIYDTSTDRLLWREA 120

Query: 195 ---NGRSKALRHLAAEILAVEIQNG--EHCPIDDARAAMLLYMKNRK 236
              + R  +LR L+  +L   IQN    H  ++DARA M LY  +++
Sbjct: 121 KLDHCRRVSLRVLSERLLHKSIQNSLLGHSSVEDARATMELYQISQR 167


>pdb|1ZBH|A Chain A, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
           3'- Exonuclease
 pdb|1ZBH|B Chain B, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
           3'- Exonuclease
 pdb|1ZBH|C Chain C, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
           3'- Exonuclease
 pdb|1ZBH|D Chain D, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
           3'- Exonuclease
          Length = 299

 Score = 29.3 bits (64), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 114 YDEFVRPL--ERVVDFRTRISGIRPRDLRKAKDFPTVQKKVAELIE 157
           + ++VRP    ++ DF   ++GI    + +A  FP V KKV +L++
Sbjct: 120 FQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLKKVIDLMK 165


>pdb|1X79|B Chain B, Crystal Structure Of Human Gga1 Gat Domain Complexed With
           The Gat-Binding Domain Of Rabaptin5
 pdb|1X79|C Chain C, Crystal Structure Of Human Gga1 Gat Domain Complexed With
           The Gat-Binding Domain Of Rabaptin5
          Length = 112

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 7/66 (10%)

Query: 179 KKDLRDTSEYQPFLNRNGRSKA-------LRHLAAEILAVEIQNGEHCPIDDARAAMLLY 231
           +K ++D  E + F+ ++    +       LR  A+EIL  E+Q G      D +  M + 
Sbjct: 23  EKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEILLEELQQGLSQAKRDVQEQMAVL 82

Query: 232 MKNRKQ 237
           M++R+Q
Sbjct: 83  MQSREQ 88


>pdb|1GCW|A Chain A, Co Form Hemoglobin From Mustelus Griseus
 pdb|1GCW|C Chain C, Co Form Hemoglobin From Mustelus Griseus
 pdb|1GCV|A Chain A, Deoxy Form Hemoglobin From Mustelus Griseus
 pdb|1GCV|C Chain C, Deoxy Form Hemoglobin From Mustelus Griseus
          Length = 140

 Score = 28.5 bits (62), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 166 LHNDLKALLLTHSKKDLRDTSEYQPFLNRNGRSKALRHLAAEILAVEIQNGEHCPIDDAR 225
           LH+ L+ L LTH KK L D   + P L+         HL       E     HC +D   
Sbjct: 76  LHSHLETLALTHGKKLLVDPQNF-PMLSECIIVTLATHL------TEFSPDTHCAVDKLL 128

Query: 226 AAMLLYMKNR 235
           +A+   + +R
Sbjct: 129 SAICQELSSR 138


>pdb|1ZBU|A Chain A, Crystal Structure Of Full-Length 3'-Exonuclease
 pdb|1ZBU|B Chain B, Crystal Structure Of Full-Length 3'-Exonuclease
 pdb|1ZBU|C Chain C, Crystal Structure Of Full-Length 3'-Exonuclease
 pdb|1ZBU|D Chain D, Crystal Structure Of Full-Length 3'-Exonuclease
          Length = 349

 Score = 28.5 bits (62), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 114 YDEFVRPL--ERVVDFRTRISGIRPRDLRKAKDFPTVQKKVAEL 155
           + ++VRP    ++ DF   ++GI    + +A  FP V KKV +L
Sbjct: 170 FQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLKKVIDL 213


  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
   0.314    0.130    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,351,477
Number of Sequences: 62578
Number of extensions: 283603
Number of successful extensions: 533
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 530
Number of HSP's gapped (non-prelim): 10
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)