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= 018372
         (357 letters)

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

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



>pdb|4ANI|A Chain A, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|B Chain B, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|E Chain E, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|F Chain F, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
          Length = 213

 Score =  105 bits (261), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 59/153 (38%), Positives = 87/153 (56%), Gaps = 14/153 (9%)

Query: 192 MKQMQDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRASSVVKENFL 251
           + +M+ + LR +A+ EN + RT +E E ++K+  Q+ A  LL V DN  RA        L
Sbjct: 75  LSEMEHRYLRLYADFENFRRRTRQEMEAAEKYRAQSLASDLLPVLDNFERA--------L 126

Query: 252 KIDPSNDTAGAVPLLKSLLEGVEMTEKQLGEVFKKFGVEKFDPINEPFDPHRHNAMFQLP 311
           KI+  N+ A      KS+L+G+EM  + L +  KK GVE  + + +PFDP+ H A+ Q  
Sbjct: 127 KIETDNEQA------KSILQGMEMVYRSLVDALKKEGVEAIEAVGKPFDPYLHQAVMQAE 180

Query: 312 DNSKPPGTVAHVLKSGYTLYERVIRPAEVGVTQ 344
                P TV   L+ GY L +RV+RPA V V+Q
Sbjct: 181 AEGYEPNTVVEELQKGYKLKDRVLRPAMVKVSQ 213


>pdb|1DKG|A Chain A, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
 pdb|1DKG|B Chain B, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
          Length = 197

 Score = 95.9 bits (237), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 83/150 (55%), Gaps = 13/150 (8%)

Query: 196 QDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRASSVVKENFLKIDP 255
           +D +LR  AEMEN++ RT  + E + KFA++ F   LL V D+L RA  V        D 
Sbjct: 59  RDGILRVKAEMENLRRRTELDIEKAHKFALEKFINELLPVIDSLDRALEVA-------DK 111

Query: 256 SNDTAGAVPLLKSLLEGVEMTEKQLGEVFKKFGVEKFDPINEPFDPHRHNAMFQLPDNSK 315
           +N      P + +++E +E+T K + +V +KFGVE     N P DP+ H A+  +  +  
Sbjct: 112 AN------PDMSAMVEDIELTLKSMLDVVRKFGVEVIAETNVPLDPNVHQAIAMVESDDV 165

Query: 316 PPGTVAHVLKSGYTLYERVIRPAEVGVTQA 345
            PG V  +++ GYTL  R IR A V V +A
Sbjct: 166 APGNVLGIMQKGYTLNGRTIRAAMVTVAKA 195


>pdb|3A6M|A Chain A, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
 pdb|3A6M|B Chain B, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
          Length = 177

 Score = 65.5 bits (158), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/156 (30%), Positives = 72/156 (46%), Gaps = 19/156 (12%)

Query: 189 NEEMKQMQDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRASSVVKE 248
            EE+K ++DK LR  A+ +N + R   E +  ++  +    +ALL V D+L RA      
Sbjct: 32  EEELKGLKDKYLRLLADFDNYRKRMEEELKAREREGVLKALRALLPVLDDLDRAL----- 86

Query: 249 NFLKIDPSNDTAGAVPLLKSLLEGVEMTEKQLGEVFKKFGVEKFDPINEPFDPHRHNAMF 308
            F +  P           +S+ +GV         +    GVE+     E FDP  H A+ 
Sbjct: 87  EFAEASP-----------ESIRQGVRAIRDGFFRILAGLGVEEVPGEGEAFDPRYHEAVG 135

Query: 309 QLPDNSKPPGTVAHVLKSGYTLYERVIRPAEVGVTQ 344
            LP     PG VA V + G+ + E ++RPA V V +
Sbjct: 136 LLPGE---PGKVAKVFQRGFRMGEALVRPARVAVGE 168


  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
   0.310    0.126    0.347 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,170,961
Number of Sequences: 62578
Number of extensions: 366160
Number of successful extensions: 630
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 616
Number of HSP's gapped (non-prelim): 10
length of query: 357
length of database: 14,973,337
effective HSP length: 100
effective length of query: 257
effective length of database: 8,715,537
effective search space: 2239893009
effective search space used: 2239893009
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)