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= 011271
         (489 letters)

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

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



>pdb|3HM5|A Chain A, Sant Domain Of Human Dna Methyltransferase 1 Associated
           Protein 1
 pdb|4IEJ|A Chain A, Crystal Structure Of A Dna Methyltransferase 1 Associated
           Protein 1 (dmap1) From Homo Sapiens At 1.45 A Resolution
          Length = 93

 Score = 91.3 bits (225), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/90 (50%), Positives = 60/90 (66%), Gaps = 4/90 (4%)

Query: 140 DYSFAKYNKSVDVVKYTDEEYEKYLTDPMWTKEETDQLFELCERFDLRFIVIADRFPSS- 198
           DY FA++NK+V V  Y+++EY+ YL D  WTK ETD LF+L  RFDLRF+VI DR+    
Sbjct: 4   DYPFARFNKTVQVPVYSEQEYQLYLHDDAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQ 63

Query: 199 ---RTVEELKDRYYGVSRAILIARAPSPTD 225
              R+VE+LK+RYY +   +   RA   TD
Sbjct: 64  FKKRSVEDLKERYYHICAKLANVRAVPGTD 93


>pdb|2RGH|A Chain A, Structure Of Alpha-Glycerophosphate Oxidase From
           Streptococcus Sp.: A Template For The Mitochondrial
           Alpha- Glycerophosphate Dehydrogenase
          Length = 571

 Score = 34.7 bits (78), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 13/82 (15%)

Query: 156 TDEEYEKYLTDPMWTKEETDQLFELCERFDLRFIVIADRFPSSR-TVEELKDRYYGVSRA 214
           TD +Y+   TDP  T+E+ D L +          VI  R+P +  T+ +++  + G+ R 
Sbjct: 313 TDTDYQGDFTDPKVTQEDVDYLLD----------VINHRYPEANITLADIEASWAGL-RP 361

Query: 215 ILIARAPSPTDVS-GHPLVKDP 235
           +LI  + SP+ +S G  L ++P
Sbjct: 362 LLIGNSGSPSTISRGSSLEREP 383


>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
           Oligomerization Domain
 pdb|2ZZG|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
           With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
           Oligomerization Domain
 pdb|2ZZG|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
           With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
           Oligomerization Domain
          Length = 752

 Score = 31.6 bits (70), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 64  SDEKITWQWLPFTNSARKDNLQLYH 88
            D K+TW+WLP T + +K   +LY 
Sbjct: 671 EDRKVTWEWLPRTTAEQKYGFRLYQ 695


>pdb|3CC2|G Chain G, The Refined Crystal Structure Of The Haloarcula
           Marismortui Large Ribosomal Subunit At 2.4 Angstrom
           Resolution With Rrna Sequence For The 23s Rrna And
           Genome-Derived Sequences For R-Proteins
 pdb|3CC4|G Chain G, Co-Crystal Structure Of Anisomycin Bound To The 50s
           Ribosomal Subunit
 pdb|3CC7|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation C2487u
 pdb|3CCE|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation U2535a
 pdb|3CCJ|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation C2534u
 pdb|3CCL|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation U2535c. Density For Anisomycin Is
           Visible But Not Included In Model.
 pdb|3CCM|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation G2611u
 pdb|3CCQ|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation A2488u
 pdb|3CCR|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation A2488c. Density For Anisomycin Is
           Visible But Not Included In The Model.
 pdb|3CCS|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation G2482a
 pdb|3CCU|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation G2482c
 pdb|3CCV|G Chain G, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
           23s Rrna Mutation G2616a
 pdb|3CD6|G Chain G, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
           Cc-puromycin
 pdb|3CPW|G Chain G, The Structure Of The Antibiotic Linezolid Bound To The
           Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|3CMA|G Chain G, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
           Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|3G4S|G Chain G, Co-Crystal Structure Of Tiamulin Bound To The Large
           Ribosomal Subunit
 pdb|3G6E|G Chain G, Co-Crystal Structure Of Homoharringtonine Bound To The
           Large Ribosomal Subunit
 pdb|3G71|G Chain G, Co-crystal Structure Of Bruceantin Bound To The Large
           Ribosomal Subunit
 pdb|3I55|G Chain G, Co-Crystal Structure Of Mycalamide A Bound To The Large
           Ribosomal Subunit
 pdb|3I56|G Chain G, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
           Large Ribosomal Subunit
          Length = 348

 Score = 31.2 bits (69), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 162 KYLTDPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYG-----VSRAIL 216
           K  T P W +EE D + E+ E ++   +V     P SR +++++   +G     VSR  L
Sbjct: 8   KTETIPEWKQEEVDAIVEMIESYESVGVVNIAGIP-SRQLQDMRRDLHGTAELRVSRNTL 66

Query: 217 IARAPSPTD 225
           + RA    D
Sbjct: 67  LERALDDVD 75


>pdb|1JJ2|G Chain G, Fully Refined Crystal Structure Of The Haloarcula
           Marismortui Large Ribosomal Subunit At 2.4 Angstrom
           Resolution
 pdb|1KQS|G Chain G, The Haloarcula Marismortui 50s Complexed With A
           Pretranslocational Intermediate In Protein Synthesis
 pdb|1K8A|I Chain I, Co-Crystal Structure Of Carbomycin A Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1K9M|I Chain I, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
           Subunit Of Haloarcula Marismortui
 pdb|1KD1|I Chain I, Co-crystal Structure Of Spiramycin Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1M1K|I Chain I, Co-Crystal Structure Of Azithromycin Bound To The 50s
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1M90|I Chain I, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
           Sparsomycin Bound To The 50s Ribosomal Subunit
 pdb|1K73|I Chain I, Co-Crystal Structure Of Anisomycin Bound To The 50s
           Ribosomal Subunit
 pdb|1KC8|I Chain I, Co-Crystal Structure Of Blasticidin S Bound To The 50s
           Ribosomal Subunit
 pdb|1N8R|I Chain I, Structure Of Large Ribosomal Subunit In Complex With
           Virginiamycin M
 pdb|1NJI|I Chain I, Structure Of Chloramphenicol Bound To The 50s Ribosomal
           Subunit
 pdb|1Q7Y|I Chain I, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
           Transferase Center Of The 50s Ribosomal Subunit
 pdb|1Q81|I Chain I, Crystal Structure Of Minihelix With 3' Puromycin Bound To
           A- Site Of The 50s Ribosomal Subunit.
 pdb|1Q82|I Chain I, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
           The 50s Ribosomal Subunit
 pdb|1Q86|I Chain I, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
           Simultaneously At Half Occupancy To Both The A-Site And
           P- Site Of The The 50s Ribosomal Subunit.
 pdb|1QVF|G Chain G, Structure Of A Deacylated Trna Minihelix Bound To The E
           Site Of The Large Ribosomal Subunit Of Haloarcula
           Marismortui
 pdb|1QVG|G Chain G, Structure Of Cca Oligonucleotide Bound To The Trna Binding
           Sites Of The Large Ribosomal Subunit Of Haloarcula
           Marismortui
 pdb|1S72|G Chain G, Refined Crystal Structure Of The Haloarcula Marismortui
           Large Ribosomal Subunit At 2.4 Angstrom Resolution
 pdb|1W2B|G Chain G, Trigger Factor Ribosome Binding Domain In Complex With 50s
 pdb|1YHQ|G Chain G, Crystal Structure Of Azithromycin Bound To The G2099a
           Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1YI2|G Chain G, Crystal Structure Of Erythromycin Bound To The G2099a
           Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1YIJ|G Chain G, Crystal Structure Of Telithromycin Bound To The G2099a
           Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1YIT|G Chain G, Crystal Structure Of Virginiamycin M And S Bound To The
           50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1YJ9|G Chain G, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
           Haloarcula Marismortui Containing A Three Residue
           Deletion In L22
 pdb|1YJN|G Chain G, Crystal Structure Of Clindamycin Bound To The G2099a
           Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1YJW|G Chain G, Crystal Structure Of Quinupristin Bound To The G2099a
           Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQ4|G Chain G, The Structure Of The Transition State Analogue "daa" Bound
           To The Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQ5|G Chain G, The Structure Of The Transition State Analogue "raa" Bound
           To The Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQ6|G Chain G, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
           Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQ7|G Chain G, The Structure Of The Transition State Analogue "dca" Bound
           To The Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQ8|G Chain G, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
           Sparsomycin Bound To The Large Ribosomal Subunit Of
           Haloarcula Marismortui
 pdb|1VQ9|G Chain G, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
           Sparsomycin Bound To The Large Ribosomal Subunit Of
           Haloarcula Marismortui
 pdb|1VQK|G Chain G, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
           The Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQL|G Chain G, The Structure Of The Transition State Analogue "dcsn"
           Bound To The Large Ribosomal Subunit Of Haloarcula
           Marismortui
 pdb|1VQM|G Chain G, The Structure Of The Transition State Analogue "dan" Bound
           To The Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQN|G Chain G, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
           Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|1VQO|G Chain G, The Structure Of Ccpmn Bound To The Large Ribosomal
           Subunit Haloarcula Marismortui
 pdb|1VQP|G Chain G, The Structure Of The Transition State Analogue "rap" Bound
           To The Large Ribosomal Subunit Of Haloarcula Marismortui
 pdb|2OTJ|G Chain G, 13-Deoxytedanolide Bound To The Large Subunit Of
           Haloarcula Marismortui
 pdb|2OTL|G Chain G, Girodazole Bound To The Large Subunit Of Haloarcula
           Marismortui
 pdb|2QA4|G Chain G, A More Complete Structure Of The The L7L12 STALK OF THE
           Haloarcula Marismortui 50s Large Ribosomal Subunit
 pdb|3CME|G Chain G, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
           Ribosomal Subunit Of Haloarcula Marismortui
 pdb|2QEX|G Chain G, Negamycin Binds To The Wall Of The Nascent Chain Exit
           Tunnel Of The 50s Ribosomal Subunit
 pdb|3CXC|G Chain G, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
           To The 50s Ribosomal Subunit Of H. Marismortui
          Length = 348

 Score = 30.8 bits (68), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 162 KYLTDPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYG-----VSRAIL 216
           K  T P W +EE D + E+ E ++   +V     P SR +++++   +G     VSR  L
Sbjct: 8   KTETIPEWKQEEVDAIVEMIESYESVGVVNIAGIP-SRQLQDMRRDLHGTAELRVSRNTL 66

Query: 217 IARAPSPTD 225
           + RA    D
Sbjct: 67  LERALDDVD 75


>pdb|3VSR|A Chain A, Arthrobacter Sp. K-1 Beta-Fructofuranosidase
 pdb|3VSS|A Chain A, Arthrobacter Sp. K-1 Beta-Fructofuranosidase Complexed
           With Fructose
          Length = 496

 Score = 30.0 bits (66), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 377 GVNLKPKVPTKAVCAEHLELRKEILTLLNLQKQLQYKEAEGSSYRDGS 424
           G N+KP  P  A+    ++  K+ +TL    K     +A+G+ Y+ G+
Sbjct: 190 GTNIKPYDPRIALSVGKVKANKKGVTLTGFNKVTDLLQADGTYYQTGA 237


>pdb|2RHQ|A Chain A, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
 pdb|2RHS|A Chain A, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
 pdb|2RHS|C Chain C, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
          Length = 294

 Score = 29.6 bits (65), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 10/51 (19%)

Query: 187 RFIVIADRFPSSRTVEELKDRYYGVSRAILIARAPSPTDVSGHPLVKDPYN 237
           R I I  + P +RTVEE++D + G+   I          V G+ + +D YN
Sbjct: 45  RQISIGSKHPLTRTVEEIEDLFLGLGYEI----------VDGYEVEQDYYN 85


>pdb|1A0E|A Chain A, Xylose Isomerase From Thermotoga Neapolitana
 pdb|1A0E|D Chain D, Xylose Isomerase From Thermotoga Neapolitana
          Length = 443

 Score = 28.9 bits (63), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 165 TDPM-WTKEETDQLFELCERFDLRFIVIADR--FPSSRTVEE 203
           TDPM       D LFE CE+ ++ +    DR   P  +T+ E
Sbjct: 72  TDPMDKAFARVDALFEFCEKLNIEYFCFHDRDIAPEGKTLRE 113


>pdb|3HAH|A Chain A, Crystal Structure Of Human Pacsin1 F-Bar Domain (C2
           Lattice)
 pdb|3HAH|B Chain B, Crystal Structure Of Human Pacsin1 F-Bar Domain (C2
           Lattice)
          Length = 325

 Score = 28.9 bits (63), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 145 KYNKSVDVVKYTDEEYEKYLTD-----PMWTKEETDQLFELCERFDLRFIVI 191
           K +K    V+ T E+YEK L D     P +  E  +Q+FE C++F+ + +V 
Sbjct: 194 KVDKCKQDVQKTQEKYEKVLEDVGKTTPQYM-ENMEQVFEQCQQFEEKRLVF 244


>pdb|3QNI|A Chain A, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3QNI|B Chain B, Crystal Structure Of Human Pacsin 1 F-Bar Domain
          Length = 307

 Score = 28.5 bits (62), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 145 KYNKSVDVVKYTDEEYEKYLTD-----PMWTKEETDQLFELCERFDLRFIVI 191
           K +K    V+ T E+YEK L D     P +  E  +Q+FE C++F+ + +V 
Sbjct: 194 KVDKCKQDVQKTQEKYEKVLEDVGKTTPQYM-ENMEQVFEQCQQFEEKRLVF 244


>pdb|3Q84|A Chain A, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3Q84|B Chain B, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3Q84|G Chain G, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3Q84|H Chain H, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3Q84|M Chain M, Crystal Structure Of Human Pacsin 1 F-Bar Domain
 pdb|3Q84|N Chain N, Crystal Structure Of Human Pacsin 1 F-Bar Domain
          Length = 295

 Score = 28.5 bits (62), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 145 KYNKSVDVVKYTDEEYEKYLTD-----PMWTKEETDQLFELCERFDLRFIVI 191
           K +K    V+ T E+YEK L D     P +  E  +Q+FE C++F+ + +V 
Sbjct: 181 KVDKCKQDVQKTQEKYEKVLEDVGKTTPQYX-ENXEQVFEQCQQFEEKRLVF 231


>pdb|3HAI|A Chain A, Crystal Structure Of Human Pacsin1 F-Bar Domain (P21
           Lattice)
 pdb|3HAI|B Chain B, Crystal Structure Of Human Pacsin1 F-Bar Domain (P21
           Lattice)
 pdb|3HAI|C Chain C, Crystal Structure Of Human Pacsin1 F-Bar Domain (P21
           Lattice)
 pdb|3HAI|D Chain D, Crystal Structure Of Human Pacsin1 F-Bar Domain (P21
           Lattice)
          Length = 308

 Score = 28.5 bits (62), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 145 KYNKSVDVVKYTDEEYEKYLTD-----PMWTKEETDQLFELCERFDLRFIVI 191
           K +K    V+ T E+YEK L D     P +  E  +Q+FE C++F+ + +V 
Sbjct: 194 KVDKCKQDVQKTQEKYEKVLEDVGKTTPQYM-ENMEQVFEQCQQFEEKRLVF 244


  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
   0.315    0.131    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,384,476
Number of Sequences: 62578
Number of extensions: 606693
Number of successful extensions: 1446
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1442
Number of HSP's gapped (non-prelim): 17
length of query: 489
length of database: 14,973,337
effective HSP length: 103
effective length of query: 386
effective length of database: 8,527,803
effective search space: 3291731958
effective search space used: 3291731958
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)