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= 022805
         (292 letters)

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

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



>pdb|1Z7Z|I Chain I, Cryo-Em Structure Of Human Coxsackievirus A21 Complexed
           With Five Domain Icam-1kilifi
          Length = 450

 Score = 32.0 bits (71), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 18/89 (20%)

Query: 186 RSEVIWRAVERALGPGFSRDKCDVKL-VGTPLTHQRFLRRNRGTYGPAIQA----GKETF 240
           R++++ +A     G  FS   C   L V   L H+   R  R  YGP +      G  T+
Sbjct: 326 RAQLLLKATPEDNGRSFS---CSATLEVAGQLIHKNQTRELRVLYGPRLDERDCPGNWTW 382

Query: 241 PGHS----------TPIPQLYCCGDSTFP 259
           P +S           P+P+L C  D TFP
Sbjct: 383 PENSQQTPMCQAWGNPLPELKCLKDGTFP 411


>pdb|2OZ4|A Chain A, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
           Cell Surface Dimerization
          Length = 265

 Score = 32.0 bits (71), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 18/89 (20%)

Query: 186 RSEVIWRAVERALGPGFSRDKCDVKL-VGTPLTHQRFLRRNRGTYGPAIQA----GKETF 240
           R++++ +A     G  FS   C   L V   L H+   R  R  YGP +      G  T+
Sbjct: 141 RAQLLLKATPEDNGRSFS---CSATLEVAGQLIHKNQTRELRVLYGPRLDERDCPGNWTW 197

Query: 241 PGHS----------TPIPQLYCCGDSTFP 259
           P +S           P+P+L C  D TFP
Sbjct: 198 PENSQQTPMCQAWGNPLPELKCLKDGTFP 226


>pdb|1P53|A Chain A, The Crystal Structure Of Icam-1 D3-D5 Fragment
 pdb|1P53|B Chain B, The Crystal Structure Of Icam-1 D3-D5 Fragment
          Length = 266

 Score = 32.0 bits (71), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 18/89 (20%)

Query: 186 RSEVIWRAVERALGPGFSRDKCDVKL-VGTPLTHQRFLRRNRGTYGPAIQA----GKETF 240
           R++++ +A     G  FS   C   L V   L H+   R  R  YGP +      G  T+
Sbjct: 142 RAQLLLKATPEDNGRSFS---CSATLEVAGQLIHKNQTRELRVLYGPRLDERDCPGNWTW 198

Query: 241 PGHS----------TPIPQLYCCGDSTFP 259
           P +S           P+P+L C  D TFP
Sbjct: 199 PENSQQTPMCQAWGNPLPELKCLKDGTFP 227


>pdb|3MQ2|A Chain A, Crystal Structure Of 16s Rrna Methyltranferase Kamb
 pdb|3MQ2|B Chain B, Crystal Structure Of 16s Rrna Methyltranferase Kamb
          Length = 218

 Score = 30.0 bits (66), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 5/68 (7%)

Query: 38  LDAILPLSATATALPPLSIRGDLGVLSTVAARYAPSLLKSFIQMGPQGALGATKLLRPFS 97
           L  +L L ATA  LPPLS  G+L VL         SLL+  +   P+   G   + RP +
Sbjct: 80  LPNLLYLWATAERLPPLSGVGELHVLMPWG-----SLLRGVLGSSPEMLRGMAAVCRPGA 134

Query: 98  EIVDSLEL 105
             + +L L
Sbjct: 135 SFLVALNL 142


>pdb|4B6A|TT Chain t, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
           With Arx1 And Rei1
          Length = 614

 Score = 28.1 bits (61), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 8/61 (13%)

Query: 239 TFPGHSTPIPQLYCCG-------DSTFPGIGVPAVAASGAIV-ANSLVSVSQHSELLDAI 290
           T PGH  P+P+L           +ST   I +P       IV  +S VS +   ELL   
Sbjct: 488 TLPGHELPLPKLGVSAIKLKSLMNSTKESISLPVARECNTIVLCDSSVSTTDRPELLRLT 547

Query: 291 G 291
           G
Sbjct: 548 G 548


  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
   0.318    0.138    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,972,405
Number of Sequences: 62578
Number of extensions: 362149
Number of successful extensions: 1008
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1007
Number of HSP's gapped (non-prelim): 6
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)