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= 003509
         (814 letters)

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

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



>pdb|3PFN|A Chain A, Crystal Structure Of Human Nad Kinase
 pdb|3PFN|B Chain B, Crystal Structure Of Human Nad Kinase
 pdb|3PFN|C Chain C, Crystal Structure Of Human Nad Kinase
 pdb|3PFN|D Chain D, Crystal Structure Of Human Nad Kinase
          Length = 365

 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 51/119 (42%), Positives = 76/119 (63%), Gaps = 7/119 (5%)

Query: 682 QMLMWKTTPRTVLVLKKPGPA-LMEEAKEVASFLYHQEKMNILVEPDVHD--IFARIPGF 738
           Q L W  +P++VLV+KK   A L++  KE+ + L  +E   + VE  V +    A    F
Sbjct: 30  QRLTWNKSPKSVLVIKKXRDASLLQPFKELCTHLX-EENXIVYVEKKVLEDPAIASDESF 88

Query: 739 GFVQTFYL---QDTSDLHERVDFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLT 794
           G V+  +    +D  D+  ++DF+ CLGGDG +L+AS+LF+G+VPPV +F+LGSLGFLT
Sbjct: 89  GAVKKKFCTFREDYDDISNQIDFIICLGGDGTLLYASSLFQGSVPPVXAFHLGSLGFLT 147


>pdb|3AFO|A Chain A, Crystal Structure Of Yeast Nadh Kinase Complexed With Nadh
 pdb|3AFO|B Chain B, Crystal Structure Of Yeast Nadh Kinase Complexed With Nadh
          Length = 388

 Score = 68.2 bits (165), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 69/129 (53%), Gaps = 13/129 (10%)

Query: 677 PSTQQQMLMWKTTPRTVLVLKKP-GPALMEEAKEVASFLYHQ-EKMNILVEPDVHDIFAR 734
           P+++ Q L+W+   + V + KKP  P+  E   E  + L+    ++N++V+PDV +  ++
Sbjct: 28  PNSKLQSLIWQNPLQNVYITKKPWTPSTREAMVEFITHLHESYPEVNVIVQPDVAEEISQ 87

Query: 735 I--------PGFGFVQTFYLQDTSDLHERVDFVACLGGDGVILHASNLFRGA-VPPVISF 785
                    P    +   Y     D+  R D +  LGGDG ILH  ++F    VPPV++F
Sbjct: 88  DFKSPLENDPNRPHI--LYTGPEQDIVNRTDLLVTLGGDGTILHGVSMFGNTQVPPVLAF 145

Query: 786 NLGSLGFLT 794
            LG+LGFL+
Sbjct: 146 ALGTLGFLS 154


>pdb|1U0R|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1U0R|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1U0R|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1U0R|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1U0T|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1U0T|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Nad Kinase
 pdb|1Y3I|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Nad
           Kinase-Nad Complex
 pdb|1Y3I|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Nad
           Kinase-Nad Complex
          Length = 307

 Score = 40.8 bits (94), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 23/37 (62%)

Query: 757 DFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFL 793
           + V  LGGDG  L A+ L R A  PV+  NLG +GFL
Sbjct: 77  ELVLVLGGDGTFLRAAELARNASIPVLGVNLGRIGFL 113


>pdb|1Y3H|A Chain A, Crystal Structure Of Inorganic PolyphosphateATP-Nad Kinase
           From Mycobacterium Tuberculosis
 pdb|1Y3H|B Chain B, Crystal Structure Of Inorganic PolyphosphateATP-Nad Kinase
           From Mycobacterium Tuberculosis
          Length = 307

 Score = 40.4 bits (93), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 23/37 (62%)

Query: 757 DFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFL 793
           + V  LGGDG  L A+ L R A  PV+  NLG +GFL
Sbjct: 77  ELVLVLGGDGTFLRAAELARNASIPVLGVNLGRIGFL 113


>pdb|1YT5|A Chain A, Crystal Structure Of Nad Kinase From Thermotoga Maritima
 pdb|1YT5|B Chain B, Crystal Structure Of Nad Kinase From Thermotoga Maritima
 pdb|1YT5|C Chain C, Crystal Structure Of Nad Kinase From Thermotoga Maritima
 pdb|1YT5|D Chain D, Crystal Structure Of Nad Kinase From Thermotoga Maritima
          Length = 258

 Score = 35.8 bits (81), Expect = 0.088,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 757 DFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLTSH 796
           D +  +GGDG +L A+       P ++ F  G LGFLTS+
Sbjct: 43  DLIVVVGGDGTVLKAAKKAADGTP-MVGFKAGRLGFLTSY 81


>pdb|1Z0S|A Chain A, Crystal Structure Of An Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Atp
 pdb|1Z0S|B Chain B, Crystal Structure Of An Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Atp
 pdb|1Z0S|C Chain C, Crystal Structure Of An Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Atp
 pdb|1Z0S|D Chain D, Crystal Structure Of An Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Atp
 pdb|1Z0U|A Chain A, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus Bound By Nadp
 pdb|1Z0U|B Chain B, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus Bound By Nadp
 pdb|1Z0Z|A Chain A, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Nad
 pdb|1Z0Z|B Chain B, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Nad
 pdb|1Z0Z|C Chain C, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Nad
 pdb|1Z0Z|D Chain D, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Nad
          Length = 278

 Score = 35.0 bits (79), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 741 VQTFYLQDTSDLHERVDFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLT 794
           V+       S+  E  DF+  +GGDG IL      +   PP+   N G +G LT
Sbjct: 54  VEVELFNQPSEELENFDFIVSVGGDGTILRILQKLKRC-PPIFGINTGRVGLLT 106


>pdb|4HAO|A Chain A, Crystal Structure Of Inorganic PolyphosphateATP-Nad Kinase
           From Yersinia Pestis Co92
 pdb|4HAO|B Chain B, Crystal Structure Of Inorganic PolyphosphateATP-Nad Kinase
           From Yersinia Pestis Co92
          Length = 304

 Score = 34.7 bits (78), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 26/45 (57%)

Query: 750 SDLHERVDFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLT 794
           +D+ ++ D    +GGDG +L A+ +       VI  N G+LGFLT
Sbjct: 59  ADIGQKADLAVVVGGDGNMLGAARVLARYDIKVIGVNRGNLGFLT 103


>pdb|1SUW|A Chain A, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Its Substrate And Product:
           Insights Into The Catalysis Of Nad Kinase
 pdb|1SUW|B Chain B, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Its Substrate And Product:
           Insights Into The Catalysis Of Nad Kinase
 pdb|1SUW|C Chain C, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Its Substrate And Product:
           Insights Into The Catalysis Of Nad Kinase
 pdb|1SUW|D Chain D, Crystal Structure Of A Nad Kinase From Archaeoglobus
           Fulgidus In Complex With Its Substrate And Product:
           Insights Into The Catalysis Of Nad Kinase
          Length = 249

 Score = 34.7 bits (78), Expect = 0.23,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 741 VQTFYLQDTSDLHERVDFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLT 794
           V+       S+  E  DF+  +GGDG IL      +   PP+   N G +G LT
Sbjct: 25  VEVELFNQPSEELENFDFIVSVGGDGTILRILQKLK-RCPPIFGINTGRVGLLT 77


>pdb|2AN1|A Chain A, Structural Genomics, The Crystal Structure Of A Putative
           Kinase From Salmonella Typhimurim Lt2
 pdb|2AN1|B Chain B, Structural Genomics, The Crystal Structure Of A Putative
           Kinase From Salmonella Typhimurim Lt2
 pdb|2AN1|C Chain C, Structural Genomics, The Crystal Structure Of A Putative
           Kinase From Salmonella Typhimurim Lt2
 pdb|2AN1|D Chain D, Structural Genomics, The Crystal Structure Of A Putative
           Kinase From Salmonella Typhimurim Lt2
          Length = 292

 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 25/45 (55%)

Query: 750 SDLHERVDFVACLGGDGVILHASNLFRGAVPPVISFNLGSLGFLT 794
           +++ ++ D    +GGDG +L A+         VI  N G+LGFLT
Sbjct: 58  AEIGQQADLAVVVGGDGNMLGAARTLARYDINVIGINRGNLGFLT 102


>pdb|2V28|A Chain A, Apo Structure Of The Cold Active Phenylalanine Hydroxylase
           From Colwellia Psychrerythraea 34h
 pdb|2V28|B Chain B, Apo Structure Of The Cold Active Phenylalanine Hydroxylase
           From Colwellia Psychrerythraea 34h
          Length = 267

 Score = 31.6 bits (70), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 686 WKTTPRTVLVLKKPGPALMEEAK-EVASFLYHQEKMNILVEPDV-HDIFARIP 736
           W+  P   L+       L+ E K  VA+F+  +E+M+ L EPD+ H+IF   P
Sbjct: 77  WECYPVPALIGFGEFFRLLSEKKFPVATFIRSREEMDYLQEPDIFHEIFGHCP 129


>pdb|3PZ6|A Chain A, The Crystal Structure Of Glleurs-Cp1
 pdb|3PZ6|B Chain B, The Crystal Structure Of Glleurs-Cp1
 pdb|3PZ6|C Chain C, The Crystal Structure Of Glleurs-Cp1
 pdb|3PZ6|D Chain D, The Crystal Structure Of Glleurs-Cp1
 pdb|3PZ6|E Chain E, The Crystal Structure Of Glleurs-Cp1
 pdb|3PZ6|F Chain F, The Crystal Structure Of Glleurs-Cp1
          Length = 311

 Score = 31.6 bits (70), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 25/87 (28%), Positives = 37/87 (42%), Gaps = 20/87 (22%)

Query: 157 EDVLSGRSSIMNAYRVADISMTEDQLPPLAIFR-------SEMKRCCESMHIALENYLTP 209
           +D+L  R+ I   Y V D+ +  +   PL I         S ++ C ES           
Sbjct: 199 KDILENRNGIAEKYGV-DVGLMLEPYSPLPIIEIPDIGTLSAVRLCEES----------- 246

Query: 210 EDVRSLDVWRKLQRLKNVCYDSGFPRG 236
            +V SL    KL ++K +CY  GF  G
Sbjct: 247 -NVSSLHDRAKLTQIKEICYTKGFYTG 272


>pdb|2V27|A Chain A, Structure Of The Cold Active Phenylalanine Hydroxylase
           From Colwellia Psychrerythraea 34h
 pdb|2V27|B Chain B, Structure Of The Cold Active Phenylalanine Hydroxylase
           From Colwellia Psychrerythraea 34h
          Length = 275

 Score = 31.2 bits (69), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 686 WKTTPRTVLVLKKPGPALMEEAK-EVASFLYHQEKMNILVEPDV-HDIFARIP 736
           W+  P   L+       L+ E K  VA+F+  +E+M+ L EPD+ H+IF   P
Sbjct: 77  WECYPVPALIGFGEFFRLLSEKKFPVATFIRSREEMDYLQEPDIFHEIFGHCP 129


>pdb|2ZSH|A Chain A, Structural Basis Of Gibberellin(Ga3)-Induced Della
           Recognition By The Gibberellin Receptor
 pdb|2ZSI|A Chain A, Structural Basis Of Gibberellin(Ga4)-Induced Della
           Recognition By The Gibberellin Receptor
          Length = 351

 Score = 30.8 bits (68), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 29/68 (42%), Gaps = 12/68 (17%)

Query: 74  QSNDPSQLPWIGPVPGDIAEVEAYCRIFRAAERLHA----ALMDTLCNPLTGEC-----T 124
           Q   PS L    PV GDI  V  +   F      H+    A+ DTLC  L G C     +
Sbjct: 95  QEQPPSILDLEKPVDGDIVPVILF---FHGGSFAHSSANSAIYDTLCRRLVGLCKCVVVS 151

Query: 125 VSYEFTPE 132
           V+Y   PE
Sbjct: 152 VNYRRAPE 159


>pdb|2E8Y|A Chain A, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168
 pdb|2E8Y|B Chain B, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168
 pdb|2E8Z|A Chain A, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168 Complexed With Alpha-Cyclodextrin
 pdb|2E8Z|B Chain B, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168 Complexed With Alpha-Cyclodextrin
 pdb|2E9B|A Chain A, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168 Complexed With Maltose
 pdb|2E9B|B Chain B, Crystal Structure Of Pullulanase Type I From Bacillus
           Subtilis Str. 168 Complexed With Maltose
          Length = 718

 Score = 30.4 bits (67), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 30/128 (23%), Positives = 54/128 (42%), Gaps = 19/128 (14%)

Query: 692 TVLVLK------KPGPALMEEAKEVASFLYHQEKMNILVEPDVHDIFARIPGFGFVQTFY 745
           TVL +K      KPG  L  E  ++A+ L H++K  +   P       R+PG GF    +
Sbjct: 415 TVLYMKEKATKAKPGILLFGEGWDLATPLPHEQKAALANAP-------RMPGIGFFNDMF 467

Query: 746 LQDT--SDLHERVDFVACLGGDG--VILHASNLFRG--AVPPVISFNLGSLGFLTSHPVS 799
                 +  H +    A   G+    ++H      G  A+ P++     S+ ++ SH   
Sbjct: 468 RDAVKGNTFHLKATGFALGNGESAQAVMHGIAGSSGWKALAPIVPEPSQSINYVESHDNH 527

Query: 800 SYLNSLCF 807
           ++ + + F
Sbjct: 528 TFWDKMSF 535


  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
   0.316    0.132    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,622,211
Number of Sequences: 62578
Number of extensions: 991432
Number of successful extensions: 2269
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2255
Number of HSP's gapped (non-prelim): 20
length of query: 814
length of database: 14,973,337
effective HSP length: 107
effective length of query: 707
effective length of database: 8,277,491
effective search space: 5852186137
effective search space used: 5852186137
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: 56 (26.2 bits)