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= 045070
         (441 letters)

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

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



>pdb|3SMT|A Chain A, Crystal Structure Of Human Set Domain-Containing Protein3
          Length = 497

 Score = 51.6 bits (122), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 87/384 (22%), Positives = 145/384 (37%), Gaps = 77/384 (20%)

Query: 57  DLTKGELILRVPKTALFTTECLLKSDQKLSLAVNRHLFLSPSQILIVCLLYEVGKGKSSW 116
           D+   EL L VP+  L T E    S      + +R L    +  L   LL E     +S+
Sbjct: 112 DIKAEELFLWVPRKLLXTVESAKNSVLGPLYSQDRILQAXGNIALAFHLLCERA-SPNSF 170

Query: 117 WYTYLMLLPRCYEILATFGPFEKQALQVDDAIXXXXXXXXXXXXXXXQAIKLME------ 170
           W  Y+  LP  Y+    F   E + LQ   AI                  K+++      
Sbjct: 171 WQPYIQTLPSEYDTPLYFEEDEVRYLQSTQAIHDVFSQYKNTARQYAYFYKVIQTHPHAN 230

Query: 171 ELKLKPQLLSFKAWLWASATVSSRTMHISWDEAG----CLCPVGDLFNYAAPGEGEESNI 226
           +L LK    +++ + WA ++V +R   I  ++       L P+ D  N+           
Sbjct: 231 KLPLKDSF-TYEDYRWAVSSVXTRQNQIPTEDGSRVTLALIPLWDXCNH----------- 278

Query: 227 GIEDVEGWMPAPCLPKGDTTDVLDSEKFNAHLHRLTDGRFEEDVNSYCFYARNNYKRGEQ 286
                              T+ L +  +N     L D R E      C  A  +++ GEQ
Sbjct: 279 -------------------TNGLITTGYN-----LEDDRCE------CV-ALQDFRAGEQ 307

Query: 287 VLLSYGTYTNLELLEHYGFLLNENPNDKVFISL-----------EPGMYSCCSWPRESQY 335
           + + YGT +N E + H GF  + N +D+V I L           +  + +    P  S +
Sbjct: 308 IYIFYGTRSNAEFVIHSGFFFDNNSHDRVKIKLGVSKSDRLYAXKAEVLARAGIPTSSVF 367

Query: 336 VDQNGKPSFS--LLSALRLWMTPVNQRRS----------VGHLAYSGHQLSVDNEISVMK 383
                +P  S  LL+ LR++     + +           +  L  S   +S DNE+ +  
Sbjct: 368 ALHFTEPPISAQLLAFLRVFCXTEEELKEHLLGDSAIDRIFTLGNSEFPVSWDNEVKLWT 427

Query: 384 WLSNNCLGMLNSLPTSKEEDALLL 407
           +L +    +L +  T+ EED  +L
Sbjct: 428 FLEDRASLLLKTYKTTIEEDKSVL 451


>pdb|4GAF|A Chain A, Crystal Structure Of Ebi-005, A Chimera Of Human Il-1beta
           And Il-1ra, Bound To Human Interleukin-1 Receptor Type 1
 pdb|4GAI|A Chain A, Crystal Structure Of Ebi-005, A Chimera Of Human Il-1beta
           And Il-1ra
 pdb|4GAI|B Chain B, Crystal Structure Of Ebi-005, A Chimera Of Human Il-1beta
           And Il-1ra
          Length = 153

 Score = 32.3 bits (72), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 31/116 (26%), Positives = 51/116 (43%), Gaps = 23/116 (19%)

Query: 269 DVNSYCFYARNNYKRGEQVLLSY--GTYTNLELLEHYGFLLNENPNDKVFISL---EPGM 323
           DVN   FY RNN     Q++  Y  G   NLE      F+  E  NDK+ ++L   E  +
Sbjct: 12  DVNQKTFYLRNN-----QLVAGYLQGPNVNLEEKFSMSFVQGEESNDKIPVALGLKEKNL 66

Query: 324 YSCCSWPRESQYVDQNGKPSFSLLSALRLWMTPVNQRRSVGHLAYSGHQLSVDNEI 379
           Y  C        V ++ KP+  L S     + P N  +      +  +++ ++N++
Sbjct: 67  YLSC--------VLKDDKPTLQLES-----VDPKNYPKKKMEKRFVFNKIEINNKL 109


>pdb|3B9V|A Chain A, Crystal Structure Of An Autonomous Vh Domain
 pdb|3B9V|B Chain B, Crystal Structure Of An Autonomous Vh Domain
 pdb|3B9V|C Chain C, Crystal Structure Of An Autonomous Vh Domain
 pdb|3B9V|D Chain D, Crystal Structure Of An Autonomous Vh Domain
          Length = 120

 Score = 28.9 bits (63), Expect = 5.4,   Method: Composition-based stats.
 Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 8/81 (9%)

Query: 217 APGEGEESNIGIEDVEGWMPAPCLPKGDTTDVLDSEKFNAHLHRLTDGRFEEDVNSYC-- 274
           APG+GEE    I    G+       KG  T   D+ K  A+L ++   R E+    YC  
Sbjct: 40  APGKGEEWVASIYPTNGYTRYADSVKGRFTISADTSKNTAYL-QMNSLRAEDTAVYYCAR 98

Query: 275 -----FYARNNYKRGEQVLLS 290
                FYA + + +G  V +S
Sbjct: 99  WGGDGFYAMDYWGQGTLVTVS 119


  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    0.135    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,470,497
Number of Sequences: 62578
Number of extensions: 504593
Number of successful extensions: 800
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 797
Number of HSP's gapped (non-prelim): 5
length of query: 441
length of database: 14,973,337
effective HSP length: 102
effective length of query: 339
effective length of database: 8,590,381
effective search space: 2912139159
effective search space used: 2912139159
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: 53 (25.0 bits)