RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780468|ref|YP_003064881.1| sensory box/GGDEF family
protein [Candidatus Liberibacter asiaticus str. psy62]
         (963 letters)



>3hvb_A Protein FIMX; EAL phosphodiesterase, biofilm, C-DI-GMP, hydrolase;
           2.99A {Pseudomonas aeruginosa PAO1}
          Length = 437

 Score =  154 bits (390), Expect = 7e-38
 Identities = 75/416 (18%), Positives = 162/416 (38%), Gaps = 7/416 (1%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592
           + QD +TG+ NR  FLD +   +   A       T+  I ++ Y  +    G++  D +L
Sbjct: 13  SSQDPVTGLYNRSHFLDLMDAAVQ-QAVTARKPSTLAYIHLNGYPSLQADHGLSGIDLLL 71

Query: 593 VSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPINLLEREI 652
             L   + E       LAR   + F  +   +      A     ++K       L  R  
Sbjct: 72  GQLAGLMREQFGEEADLARFGDSIFAALFKGKTPEQAQAALQRLLKKVENHLFELNGRSA 131

Query: 653 TVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESFRVSSFRSDRVMIKEDLC 712
             T SIG A        + +++  A      A  +GG+ ++ +  +   +      + + 
Sbjct: 132 QATLSIGVAGLDEKTAKAQDVMNRAHRCADDAARKGGSQIKQYNPAEELAAAAQRGDVIA 191

Query: 713 LA---VENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKA 769
           +    +E +   L++ P+I L  +     E L++  +P+   +  +EF+  A+E  + + 
Sbjct: 192 ILQQALETNSFRLLFQPVISLRGDSHENYEVLLRLLNPQGQEVPPAEFLHAAKEAGLAEK 251

Query: 770 INLFMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIK 829
           I+ +++    + +   R + +   +F+ ++ AS    D  L   +   +      P  + 
Sbjct: 252 IDRWVILNSIKLLAEHRAKGHQTKLFVHLSSASLQ--DPGLLPWLGVALKAARLPPESLV 309

Query: 830 LSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMT 889
              SE+      ++++ L   L  +     +  FG   +  + L ++    +K +GS + 
Sbjct: 310 FQISEADATSYLKQAKQLTQGLATLHCQAAISQFGCSLNPFNALKHLTVQFIKIDGSFVQ 369

Query: 890 G-STEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASPL 944
             +  +   IL+ +I      +   I   +     +  L + G  YIQ  ++  P 
Sbjct: 370 DLNQVENQEILKGLIAELHEQQKLSIVPFVESASVLATLWQAGATYIQGYYLQGPS 425


>3gfz_A Klebsiella pneumoniae BLRP1; TIM-barrel, EAL domain, BLUF domain,
           hydrolase, signaling protein; HET: C2E FMN; 2.05A
           {Klebsiella pneumoniae subsp} PDB: 3gfy_A* 3gfx_A*
           3gg0_A* 3gg1_A* 2kb2_A*
          Length = 413

 Score =  147 bits (371), Expect = 2e-35
 Identities = 47/277 (16%), Positives = 93/277 (33%), Gaps = 18/277 (6%)

Query: 675 KNAELAMYHAKHRGGNHVESFRVSSFRSDRVMIKEDLCL----AVENSELYLVYHPIIRL 730
            +    +  A    G           +  R M+           +           I+  
Sbjct: 130 NDRMFRLLSAFIADGGRYCLPEP--LQPSRWMMMPASGTAAPQHLPGQPCQFALQAIVEP 187

Query: 731 MDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINLFMLERIARDIISWRDQAN 790
             + +   EALI+      G      F  IA E      +             +   Q  
Sbjct: 188 AKKRVSSFEALIRSPT---GGSPVEMFAAIAAEDRYRFDLESKAYA------FALAGQLP 238

Query: 791 MPPIFILINIASKDLLDNE-LCEGMQALISKTLYSPSRIKLSFSESVVMGNPERSRLLLG 849
           +    + IN+    L  +      +   +      P ++ +  +E+ V+   ++ R +L 
Sbjct: 239 LGKHQLAINLLPGSLYHHPDAVGWLMDSLLAAGLRPDQVLIEVTETEVITCFDQFRKVLK 298

Query: 850 RLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTG--STEKRIAILRSIIPMAK 907
            LR  G+ L +DDFG   S LS L     D +K +  L+     +  + AI+ S++   +
Sbjct: 299 ALRVAGMKLAIDDFGAGYSGLSLLTRFQPDKIKVDAELVRDIHISGTKQAIVASVVRCCE 358

Query: 908 NIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASPL 944
           ++  T++A+ +    +   L  +G    Q    + P 
Sbjct: 359 DLGITVVAEGVETLEEWCWLQSVGIRLFQGFLFSRPC 395


>2r6o_A Putative diguanylate cyclase/phosphodiesterase (ggdef & EAL
           domains); ggdef and EAL domains, structural genomics,
           PSI-2; 1.80A {Thiobacillus denitrificans atcc 25259}
           PDB: 3ii8_A*
          Length = 294

 Score =  134 bits (337), Expect = 1e-31
 Identities = 70/257 (27%), Positives = 132/257 (51%), Gaps = 3/257 (1%)

Query: 703 DRVMIKEDLCLAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAE 762
           +R+ +   L  A+E +EL L Y PI+ L    IVG EAL++W+ P+ G +  S F+  AE
Sbjct: 23  ERLTLDTRLRQALERNELVLHYQPIVELASGRIVGGEALVRWEDPERGLVMPSAFIPAAE 82

Query: 763 ELCMIKAINLFMLERIARDIISWRDQAN-MPPIFILINIASKDLLDNELCEGMQALISKT 821
           +  +I A++ ++LE     + +W+ Q      + + +NI+++      L   +   ++++
Sbjct: 83  DTGLIVALSDWVLEACCTQLRAWQQQGRAADDLTLSVNISTRQFEGEHLTRAVDRALARS 142

Query: 822 LYSPSRIKLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTV 881
              P  ++L  +E+V++   +  R  L  LR  G+ L LDDFGT  S LSYL  +PF  +
Sbjct: 143 GLRPDCLELEITENVMLVMTDEVRTCLDALRARGVRLALDDFGTGYSSLSYLSQLPFHGL 202

Query: 882 KFNGSL--MTGSTEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSH 939
           K + S      +      I+ +I+ +A+ +   ++A+ I        L   GC++ Q + 
Sbjct: 203 KIDQSFVRKIPAHPSETQIVTTILALARGLGMEVVAEGIETAQQYAFLRDRGCEFGQGNL 262

Query: 940 VASPLGFNSILKLLKER 956
           +++P   ++   LL  +
Sbjct: 263 MSTPQAADAFASLLDRQ 279


>1w25_A Stalked-cell differentiation controlling protein; two-component
           system, response regulator, diguanylate cyclase, ggdef
           domain; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP:
           c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A*
          Length = 459

 Score =  132 bits (334), Expect = 3e-31
 Identities = 54/211 (25%), Positives = 94/211 (44%), Gaps = 3/211 (1%)

Query: 484 RVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKSLEGILCNAFQDNLTGIPN 543
            V+A +   + ++ R       +  +   I         + +L+  L  A  D LTG+ N
Sbjct: 239 MVKALEIGVNDILSRPIDPQELSARVKTQIQRKRYTDYLRNNLDHSLELAVTDQLTGLHN 298

Query: 544 RQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLVSLTRRIGELL 603
           R+    +L +++   AT      + ++IDID +KKIND  G  +GD+VL     R+   +
Sbjct: 299 RRYMTGQLDSLVK-RATLGGDPVSALLIDIDFFKKINDTFGHDIGDEVLREFALRLASNV 357

Query: 604 KFPDILARLSGNRFGIIL--ISENNSLKIADFAIAMRKSIAMPINLLEREITVTASIGFA 661
           +  D+  R  G  F +I+   +  ++L+IA+            +      + VT SIG +
Sbjct: 358 RAIDLPCRYGGEEFVVIMPDTALADALRIAERIRMHVSGSPFTVAHGREMLNVTISIGVS 417

Query: 662 SWTSSKITSSEMLKNAELAMYHAKHRGGNHV 692
           +      T   +LK A+  +Y AK  G N V
Sbjct: 418 ATAGEGDTPEALLKRADEGVYQAKASGRNAV 448


>3mtk_A Diguanylate cyclase/phosphodiesterase; structural genomics, PSI-2,
           protein structure initiative; 2.24A
           {Caldicellulosiruptor saccharolyticus}
          Length = 178

 Score =  131 bits (332), Expect = 5e-31
 Identities = 43/164 (26%), Positives = 84/164 (51%), Gaps = 7/164 (4%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592
           AF D LTG+PN+ S +  L   +   +  D +   ++ +++   +K+N   G  + D+++
Sbjct: 7   AFYDELTGLPNKNSLIRWLNLKV---SQMDCIDTYLIFLEVRDLEKLNVTYGYDLVDELI 63

Query: 593 VSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPINLLEREI 652
           + +++RI ++    +   ++  +RF II  SEN    I+DF   M   + +P N+    I
Sbjct: 64  IHISKRIKDIAGEGNKAFKIGFDRFAIICKSEN----ISDFIERMLSQLLLPYNVNGNLI 119

Query: 653 TVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESFR 696
            V  +IG A   +S   ++ +++  +LA+  AK  G N    F+
Sbjct: 120 RVNFNIGAAQIENSNEAAANLMRRCDLALIKAKEEGLNEYVIFK 163


>2bas_A YKUI protein; EAL domain, structural genomics, PSI, protein
           structure initiative, midwest center for structural
           genomics, MCSG; 2.61A {Bacillus subtilis} SCOP: c.1.33.1
           d.110.6.2 PDB: 2w27_A*
          Length = 431

 Score =  129 bits (325), Expect = 3e-30
 Identities = 43/247 (17%), Positives = 89/247 (36%), Gaps = 7/247 (2%)

Query: 700 FRSDRVMIKEDLCLAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFML 759
           F+S+ ++  + L +     ++   Y  I    ++++VG E L +             F+ 
Sbjct: 20  FQSNAML--DPLDILTNIDDVLPYYQAIFSAEEQKVVGYEVLGRILADSEIQSLGPFFLD 77

Query: 760 IAEELCMIKAINLFMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALIS 819
                     ++  ++ +     +          IF+  +     L   E    +     
Sbjct: 78  AGIPEEYKLEVDNRIIRQALDRFLEADSD---LLIFMNQDANLLMLDHGESFLELLKEYE 134

Query: 820 KTLYSPSRIKLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFD 879
                  R  L  +E    G+ E+   +L   R  GI + +D+ G + S L  +  +  D
Sbjct: 135 AKGIELHRFVLEITEHNFEGDIEQLYHMLAYYRTYGIKIAVDNIGKESSNLDRIALLSPD 194

Query: 880 TVKFNGSLMTGSTEKRI--AILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQD 937
            +K +   +  S        +L SI  +A+ I   ++ +DI     ++   R G  Y Q 
Sbjct: 195 LLKIDLQALKVSQPSPSYEHVLYSISLLARKIGAALLYEDIEANFQLQYAWRNGGRYFQG 254

Query: 938 SHVASPL 944
            ++ SP 
Sbjct: 255 YYLVSPS 261


>3ezu_A Ggdef domain protein; multidomain protein of unknown function with
           ggdef-domain, structural genomics; 1.95A {Geobacter
           sulfurreducens}
          Length = 342

 Score =  124 bits (312), Expect = 9e-29
 Identities = 53/305 (17%), Positives = 105/305 (34%), Gaps = 31/305 (10%)

Query: 398 QGIFSDGERQSLAVLG--SGDIVWDWDIV-RDRVTTTPDIATILGLASGSMHGPIRNWLP 454
           + +   G R++L ++     + + + +++ +                +  +         
Sbjct: 56  ERLQERGGRENLPIIIYKPAETLEELEMIGKSIDEQVERYTEAPSSEAACL--------- 106

Query: 455 YIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIG 514
              +  R     +  +F    R                 ++    R   +  G       
Sbjct: 107 ---LGFRLQLYLLHPAFASLCRLTRDASGEDLPDIGYGRYL----RRFIDGIGSCGLATA 159

Query: 515 ----IANDITEQKKSLEGILCNAFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMV 570
               +   +         +   +  D LTG+  R  F   + ++   +A        +M+
Sbjct: 160 ETELLGEALFRLWNEARQLAAQSHFDALTGVMTRAGFFKTVGSLAY-AAQRSGSNVGIML 218

Query: 571 IDIDKYKKINDVLGIAVGDDVLVSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKI 630
           ID+D +K + D  G   GD +L  +   I   L+  D++ R  G+ F + L S      +
Sbjct: 219 IDLDYFKLVGDNYGHQTGDRILQLVAETITSHLRRSDVVGRYDGDEFVVYL-SPVEPASL 277

Query: 631 ADFAIAMRKSIAMPINLLEREITVTASIGFASW---TSSKITSSEMLKNAELAMYHAKHR 687
              A  +R+SI        R + VTASIG A     T       E+++ A+  +  AK+ 
Sbjct: 278 RTVAENLRRSIEEESA---RMVPVTASIGVAQGILGTDVDGGIEELVRLADECLMQAKYT 334

Query: 688 GGNHV 692
           G N V
Sbjct: 335 GKNKV 339


>3bre_A Probable two-component response regulator; protein-nucleotide
           complex, signaling protein; HET: C2E; 2.40A {Pseudomonas
           aeruginosa PAO1} PDB: 3i5a_A*
          Length = 358

 Score =  116 bits (292), Expect = 2e-26
 Identities = 43/168 (25%), Positives = 77/168 (45%), Gaps = 6/168 (3%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592
              D LTG+ NR+ F + L      S  + + + ++++ID+D +K  ND  G   GD+ L
Sbjct: 171 MNSDGLTGLSNRRHFDEYLEMEWRRSLREQS-QLSLLMIDVDYFKSYNDTFGHVAGDEAL 229

Query: 593 VSLTRRIGE-LLKFPDILARLSGNRFGIIL--ISENNSLKIADFAIAMRKSIAMPINLLE 649
             +   I E   +  D+ AR  G  F ++L   S   +  +A+      +S+ +  +   
Sbjct: 230 RQVAGAIREGCSRSSDLAARYGGEEFAMVLPGTSPGGARLLAEKVRRTVESLQISHDQPR 289

Query: 650 REITVTASIGFASWTSSK--ITSSEMLKNAELAMYHAKHRGGNHVESF 695
               +T SIG ++        T   +++ A+ A+Y AK+ G N V   
Sbjct: 290 PGSHLTVSIGVSTLVPGGGGQTFRVLIEMADQALYQAKNNGRNQVGLM 337


>3pfm_A Ggdef domain protein; PSI2, MCSG, structural genomics, protein
           structure initiativ midwest center for structural
           genomics, EAL domain; 2.91A {Pseudomonas fluorescens}
          Length = 243

 Score =  114 bits (287), Expect = 8e-26
 Identities = 41/226 (18%), Positives = 91/226 (40%), Gaps = 11/226 (4%)

Query: 714 AVENSELYLVYHPIIRLMD-EEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINL 772
           A+      L + P++   D   ++  + L +    +   I +  F+   E       ++L
Sbjct: 15  ALSEQHFQLYFQPVVAARDTHLVLHYKVLSRLLDEQGQTIPAGRFLPWLERFGWTSRLDL 74

Query: 773 FMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIKLSF 832
            M       +     Q       + +N+++  L D      +  ++ +      R+ L  
Sbjct: 75  LM-------LEQVLRQMASHEDCLALNLSAATLADPHALNRVFEILRQHSDLGPRLTLEI 127

Query: 833 SESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTGST 892
            E  +       +L   RLR++G SL+L  FG + S++  L  +    +K +GS +    
Sbjct: 128 GEEQLPEQAMLEQLTR-RLRELGFSLSLQRFGGRFSMIGNLARLGLAYLKIDGSYIRDID 186

Query: 893 EKRI--AILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQ 936
           ++      + +I   A +I+  +IA+ +  E +++ +  MG   +Q
Sbjct: 187 QESDKRLFIEAIQRAAHSIDLPLIAERVETEGELQVIREMGLYGVQ 232


>3icl_A EAL/ggdef domain protein; structural genomics, PSI-2, protein
           structure initiative, northeast structural genomics,
           consortium, NESG; HET: MSE; 2.00A {Methylococcus
           capsulatus}
          Length = 171

 Score =  110 bits (274), Expect = 2e-24
 Identities = 58/160 (36%), Positives = 90/160 (56%), Gaps = 1/160 (0%)

Query: 536 DNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLVSL 595
           D +TG+PNRQ F DRL   L  +   D     ++ +D+D +K IND LG  VGD +L + 
Sbjct: 2   DTVTGLPNRQLFCDRLLQALA-AHERDGNPVVLLFLDVDNFKSINDSLGHLVGDRLLRAT 60

Query: 596 TRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPINLLEREITVT 655
             RI   ++  D +AR+ G++F I+L    ++L  A  A  +   +A P     ++I ++
Sbjct: 61  AERIRTAVRDGDTVARIGGDKFTILLNGAKDTLNGALVAQKILDGLAQPFVFGAQQIVIS 120

Query: 656 ASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESF 695
            SIG A   +   T  ++L+NA+ AMYHAK RG N+ + F
Sbjct: 121 VSIGIAVSPADGETMEQLLRNADTAMYHAKSRGKNNYQFF 160


>3kzp_A LMO0111 protein, putative diguanylate cyclase/phosphodiesterase;
           EAL-domain, structural genomics, PSI-2, protein
           structure initiative; 2.00A {Listeria monocytogenes}
          Length = 235

 Score =  109 bits (272), Expect = 4e-24
 Identities = 37/241 (15%), Positives = 78/241 (32%), Gaps = 25/241 (10%)

Query: 718 SELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLIAEELCMIKAINLFMLER 777
            +  L   P + ++   IV  E L++ D         SE   +  +  +  A + +  E 
Sbjct: 4   MKFQLFIQPKLDVLQGNIVEYEILLRDDSAV-PRFPLSELEAVLADEELYLAFSEWFSEA 62

Query: 778 IARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIKLSFSESVV 837
               +  + +          INIA + L   E    +  L S+      RI +  +E + 
Sbjct: 63  FLDVLKKYPNDR------FAINIAPQQLFYIETLHWLDKLKSE----SHRITVEMTEDIF 112

Query: 838 MGNPERSRL-----------LLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGS 886
                +  L            +  +  +G  + +DD     + L  +       ++   S
Sbjct: 113 DVPGHKRHLNANDKNAFILNKIKVIHGLGYHIAIDDVSCGLNSLERVMSYLPYIIEIKFS 172

Query: 887 LMTGST---EKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSHVASP 943
           L+       E  +  +++    A+  +   + + I  +  +  L   G    Q   V  P
Sbjct: 173 LIHFKNIPLEDLLLFIKAWANFAQKNKLDFVVEGIETKETMTLLESHGVSIFQGYLVNKP 232

Query: 944 L 944
            
Sbjct: 233 F 233


>3hv8_A Protein FIMX; EAL phosphodiesterase, biofilm, C-DI-GMP, hydrolase;
           HET: C2E; 1.45A {Pseudomonas aeruginosa PAO1} PDB:
           3hv9_A
          Length = 268

 Score =  103 bits (257), Expect = 2e-22
 Identities = 43/245 (17%), Positives = 101/245 (41%), Gaps = 3/245 (1%)

Query: 701 RSDRVMIKEDLCLAVENSELYLVYHPIIRLMDEEIVGLEALIQWDHPKWGNISSSEFMLI 760
            + R  +   L  A+E +   L++ P+I L  +     E L++  +P+   +  +EF+  
Sbjct: 14  AAQRGDVIAILQQALETNSFRLLFQPVISLRGDSHENYEVLLRLLNPQGQEVPPAEFLHA 73

Query: 761 AEELCMIKAINLFMLERIARDIISWRDQANMPPIFILINIASKDLLDNELCEGMQALISK 820
           A+E  + + I+ +++    + +   R + +   +F  ++++S  L D  L   +   +  
Sbjct: 74  AKEAGLAEKIDRWVILNSIKLLAEHRAKGHQTKLF--VHLSSASLQDPGLLPWLGVALKA 131

Query: 821 TLYSPSRIKLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDT 880
               P  +    SE+      ++++ L   L  +     +  FG   +  + L ++    
Sbjct: 132 ARLPPESLVFQISEADATSYLKQAKQLTQGLATLHCQAAISQFGCSLNPFNALKHLTVQF 191

Query: 881 VKFNGSLMTG-STEKRIAILRSIIPMAKNIETTIIAKDIYGEIDIKELTRMGCDYIQDSH 939
           +K +GS +   +  +   IL+ +I      +   I   +     +  L + G  YIQ  +
Sbjct: 192 IKIDGSFVQDLNQVENQEILKGLIAELHEQQKLSIVPFVESASVLATLWQAGATYIQGYY 251

Query: 940 VASPL 944
           +  P 
Sbjct: 252 LQGPS 256


>3hvw_A Diguanylate-cyclase (DGC); alpha-beta protein., structural
           genomics, PSI-2, protein structure initiative; 1.70A
           {Pseudomonas aeruginosa}
          Length = 176

 Score =  103 bits (258), Expect = 2e-22
 Identities = 27/160 (16%), Positives = 54/160 (33%), Gaps = 5/160 (3%)

Query: 534 FQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVLV 593
             D  TG+ NR    + ++  L        +     ++ +     I   LG    +D+++
Sbjct: 1   MIDEPTGLYNRLRLQEDVSLRLQRDGALTVI--AADLLPLALLNTIIRTLGYPFSNDLML 58

Query: 594 SLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPINLLEREIT 653
               RI   L     L ++S  RFG++L       +     + + ++   P+      I 
Sbjct: 59  EARDRIRAEL-PDFTLYKISPTRFGLLL-PRQQQEETESVCLRLLRAFESPVVCRGIPIK 116

Query: 654 VTASIGFASWTSSKITSSE-MLKNAELAMYHAKHRGGNHV 692
               +G        +   +  L+    A   A+ RG    
Sbjct: 117 ANVGLGVLPLADDTLDGDQDWLRLVVSAADDARDRGVGWA 156


>3ign_A Diguanylate cyclase; ggdef domain, A1U3W3_marav, NESG, MQR89A,
           structural genomics, PSI-2, protein structure
           initiative; HET: C2E; 1.83A {Marinobacter aquaeolei VT8}
          Length = 177

 Score =  101 bits (253), Expect = 6e-22
 Identities = 41/162 (25%), Positives = 73/162 (45%), Gaps = 3/162 (1%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592
           +  D LTG+ NR ++ + +    +          ++++ DID +K +ND  G   GD+V+
Sbjct: 8   SMTDRLTGLLNRGTWENLVDAEYE-RFRRYGQATSLVMFDIDHFKPVNDTYGHLAGDEVI 66

Query: 593 VSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIA-MPINLLERE 651
                     ++  D   R  G  FGIIL  E ++         +R++I    ++    +
Sbjct: 67  RHTADVTRNNIRQSDSAGRYGGEEFGIIL-PETDAESARVICERIREAIEKSTVSTSAGD 125

Query: 652 ITVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVE 693
           I  T S+G A  T +     + ++ A+ A+Y AK  G N V 
Sbjct: 126 IQYTVSMGIAQLTETPENYMQWMQKADEALYKAKESGRNKVV 167


>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein
           structure initiative, MI center for structural genomics,
           MCSG; 2.37A {Chromobacterium violaceum}
          Length = 125

 Score = 88.7 bits (220), Expect = 5e-18
 Identities = 25/120 (20%), Positives = 44/120 (36%), Gaps = 1/120 (0%)

Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNF 464
           +    A   +G   W   +   R+  +  +  I G  S +       +   +H +DR   
Sbjct: 7   KLLHTAESDAGIGSWVLHMESGRLEWSQAVHDIFGTDSATFDATEDAYFQRVHPDDRARV 66

Query: 465 RTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKK 524
           R  LD  V         E+R+   D Q   ++ R      ++G +    G   D+TE K+
Sbjct: 67  RRELDRHV-LGDRPFDVEYRIVRPDGQVRELLERNHIQRQASGQVDHLWGTVIDMTEHKQ 125


>3mr0_A Sensory box histidine kinase/response regulator; PAS fold,
           structural genomics, PSI-2; HET: PG5; 1.49A
           {Burkholderia thailandensis}
          Length = 142

 Score = 76.5 bits (188), Expect = 2e-14
 Identities = 34/120 (28%), Positives = 55/120 (45%), Gaps = 1/120 (0%)

Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNF 464
           ER  LAV G+   +WDW+     +  +P    I+G     +   I      IH +DR   
Sbjct: 9   ERFQLAVSGASAGLWDWNPKTGAMYLSPHFKKIMGYEDHELPDEITGHRESIHPDDRARV 68

Query: 465 RTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKK 524
              L + + +R      E+RVR     F W+  R + + NS G+  R +G   D+T++K+
Sbjct: 69  LAALKAHLEHRDTY-DVEYRVRTRSGDFRWIQSRGQALWNSAGEPYRMVGWIMDVTDRKR 127


>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein.,
           structural genomics, PSI-2, protein structure
           initiative; 1.90A {Marinobacter aquaeolei VT8}
          Length = 115

 Score = 71.5 bits (174), Expect = 9e-13
 Identities = 19/110 (17%), Positives = 39/110 (35%), Gaps = 3/110 (2%)

Query: 414 SGDIVWDWDIVRDRVT-TTPDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFV 472
           +  I W  +          P I  +LG   GS      +W   +H  D++          
Sbjct: 2   TKAIPWKINWQTMAFEYIGPQIEALLGWPQGSWKSV-EDWATRMHPEDQEWVVNFCVKQS 60

Query: 473 GYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQ 522
                  + ++R    D  + W+   +  + + +G++   IG   DI+ +
Sbjct: 61  E-CGVDHEADYRALHRDGHYVWIRDVVHVVRDDSGEVEALIGFMFDISLE 109


>3hva_A Protein FIMX; ggdef diguanylate cyclase, biofilm, C-DI-GMP,
           transferase; 2.04A {Pseudomonas aeruginosa PAO1}
          Length = 177

 Score = 67.8 bits (164), Expect = 1e-11
 Identities = 35/164 (21%), Positives = 62/164 (37%), Gaps = 1/164 (0%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGDDVL 592
           + QD +TG+ NR  FLD +   +   A       T+  I ++ Y  +    G++  D +L
Sbjct: 13  SSQDPVTGLYNRSHFLDLMDAAVQ-QAVTARKPSTLAYIHLNGYPSLQADHGLSGIDLLL 71

Query: 593 VSLTRRIGELLKFPDILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPINLLEREI 652
             L   + E       LAR   + F  +   +      A     ++K       L  R  
Sbjct: 72  GQLAGLMREQFGEEADLARFGDSIFAALFKGKTPEQAQAALQRLLKKVENHLFELNGRSA 131

Query: 653 TVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESFR 696
             T SIG A        + +++  A      A  +GG+ ++ + 
Sbjct: 132 QATLSIGVAGLDEKTAKAQDVMNRAHRCADDAARKGGSQIKQYN 175


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 66.1 bits (161), Expect = 3e-11
 Identities = 82/549 (14%), Positives = 165/549 (30%), Gaps = 238/549 (43%)

Query: 557 LSATDDNLRPTVM-------VIDI------------DKYKK-INDVLGIAVGDDVLVSLT 596
           + A   + RP  +       V+ +            +++ K + +       DD   +  
Sbjct: 1   MDAY--STRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA 58

Query: 597 RRIGELL-KFPD-ILARLSGNRFGIILISENNSLKIA------DFAIAMRKSIAMPINLL 648
               EL+ KF   + + +  ++ G      +  L +        +             L 
Sbjct: 59  ----ELVGKFLGYVSSLVEPSKVG----QFDQVLNLCLTEFENCY-------------LE 97

Query: 649 EREI-TVTASIGFASWTSSKITSSEMLKNAEL--AMYHAKHRGGNHVESFRVSS-FRS-- 702
             +I  + A +        +   + ++K  EL      A+       +    S+ FR+  
Sbjct: 98  GNDIHALAAKL-------LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150

Query: 703 -DRVMI---------KEDLCLAVENSELYLVYHP----IIRLMDE---EIV--------- 736
                +          +D     E  +LY  YH     +I+   E   E++         
Sbjct: 151 EGNAQLVAIFGGQGNTDD-YFE-ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208

Query: 737 ---GLEALIQW-DHPKWGNISSSEFMLIAE---------ELC--MIKAINL-----FMLE 776
              GL  +++W ++P   N    +++L            +L   ++ A  L      +  
Sbjct: 209 FTQGLN-ILEWLENPS--NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS 265

Query: 777 RIA------RDII---------SWRD--------------------QA----NMPPIFIL 797
            +       + ++         SW                      +A    ++PP  + 
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL- 324

Query: 798 INIASKDLLDNELCEG----M-----------QALISKT---LYSPSRIKLSFSES---- 835
                +D L+N   EG    M           Q  ++KT   L +  ++++S        
Sbjct: 325 -----EDSLENN--EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377

Query: 836 VVMGNPERSRLLLG---RLRKIGISLTLDDFGTKCSLLSYLGYIPFD------------- 879
           VV G P+ S  L G    LRK      LD   ++         IPF              
Sbjct: 378 VVSGPPQ-S--LYGLNLTLRKAKAPSGLDQ--SR---------IPFSERKLKFSNRFLPV 423

Query: 880 TVKFNGSLMTGSTEKRIAILRSIIPMAKNIETTIIAKD----IY----GEIDIKE----- 926
              F+  L+  +++    I + +  +  N+     AKD    +Y    G  D++      
Sbjct: 424 ASPFHSHLLVPASDL---INKDL--VKNNVS--FNAKDIQIPVYDTFDGS-DLRVLSGSI 475

Query: 927 ---LTRMGC 932
              +     
Sbjct: 476 SERIVDCII 484



 Score = 61.5 bits (149), Expect = 8e-10
 Identities = 112/701 (15%), Positives = 191/701 (27%), Gaps = 309/701 (44%)

Query: 77  VSASSIRHRGDWAVFALANTSDSQLERLIVVPHYRLVGSHF--------FSPDLGSRRII 128
           + A S R         L   S   LE +++VP      S F        F+  L      
Sbjct: 1   MDAYSTRP------LTL---SHGSLEHVLLVPT----ASFFIASQLQEQFNKILPE---- 43

Query: 129 SVTPSEGFSLDRIPNSDSDVFRITINPGAVVTFIMEISTPNLPQIYLWEPNFYKDTVNSF 188
              P+EGF+ D  P + +++       G  + ++  +  P+    +          +  F
Sbjct: 44  ---PTEGFAADDEPTTPAELV------GKFLGYVSSLVEPSKVGQF---DQVLNLCLTEF 91

Query: 189 --TLYRGIIIG--VASLLAIFLTIFYMVNRSSMLIPTFAMAWVVLGYISIDFGFLSKLVN 244
                 G  I    A LL    T          LI  +  A ++                
Sbjct: 92  ENCYLEGNDIHALAAKLLQENDTTLVKTKE---LIKNYITARIMAK-------------- 134

Query: 245 LPSGELLIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACI-------AILF 297
                    R   + + S+     LF        +A++    F G             L+
Sbjct: 135 ---------RPFDKKSNSA-----LFR--AVGEGNAQL-VAIFGGQGNTDDYFEELRDLY 177

Query: 298 CMSFYYPMVTASIARI--TLASIVL-------YYTYFIIYHGMKGYERAVLLIPAWILIF 348
               Y+ +V   I     TL+ ++         +T      G+         I  W    
Sbjct: 178 QT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFT-----QGLN--------ILEW---- 218

Query: 349 IWFIGLWMAITKRLDNDIIQPALVGGLVLIVI---LIG------FTVIQHVL-------- 391
                        L+N    P     L+ I I   LIG      + V   +L        
Sbjct: 219 -------------LENPSNTPD-KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR 264

Query: 392 -----ATGYFSQGIFSDGERQSLAVLGSGDIVWD--WDIVRDRVT-----------TTPD 433
                ATG+ SQG+ +     ++A+  +    W+  +  VR  +T             P+
Sbjct: 265 SYLKGATGH-SQGLVT-----AVAIAETDS--WESFFVSVRKAITVLFFIGVRCYEAYPN 316

Query: 434 IATILGLASGSM------HG---P-----IRN---------------WLP---YIHI--- 458
            +    L   S+      +    P     I N                LP    + I   
Sbjct: 317 TS----LPP-SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371

Query: 459 NDRDNFRTIL----DSFVGYRRGRLQYEFRVRAAD--NQFHWMIIRIRPMSNSNGDILRY 512
           N   N   ++     S  G     L+   + +A    +Q      RI P S         
Sbjct: 372 NGAKNL--VVSGPPQSLYGLNL-TLR---KAKAPSGLDQ-----SRI-PFS--------- 410

Query: 513 IGIANDITEQKKSLEGILCNAFQDNLTGI--PNRQSFLDRLTTIL--DLSATDDNLRPTV 568
                    ++K         F +    +  P     L   + ++  DL   + +     
Sbjct: 411 ---------ERKL-------KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA-- 452

Query: 569 MVIDIDKYKKINDVLGIAV-----GDD-------VLVSLTRRIGEL-------LKFP--D 607
                       D + I V     G D       +   +   I  L        +F    
Sbjct: 453 -----------KD-IQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500

Query: 608 IL----ARLSG-------NRFG----IIL-----ISENNSL 628
           IL       SG       N+ G    +I+     I+ ++  
Sbjct: 501 ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY 541



 Score = 38.0 bits (88), Expect = 0.011
 Identities = 42/276 (15%), Positives = 75/276 (27%), Gaps = 119/276 (43%)

Query: 2   LLSNSLRSHFEKAFL----ILVLFLLWMVSPSFAIEPINISSSDRVLDLTSITRIYVNQG 57
           +L+  L   FE  +L    I  L      +         +  +  ++      + Y    
Sbjct: 83  VLNLCLT-EFENCYLEGNDIHAL-----AAKLLQENDTTLVKTKELI------KNY---- 126

Query: 58  EDFQVFTAADIDGISRRIEVSASSIRHRGDWAVFALANTSDSQL--------------ER 103
                 TA           ++      + + A+F      ++QL              E 
Sbjct: 127 -----ITA---------RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE 172

Query: 104 LIVVPH-YR-LVGS--HFFSPDLGSRRIISVTP-------SEGFSL-------DRIPNSD 145
           L  +   Y  LVG    F +  L     +  T        ++G ++          P+ D
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSE---LIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229

Query: 146 ----SDV------------FRIT-----INPGA--------------VVT--FIMEISTP 168
                 +            + +T       PG               +VT   I E  + 
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS- 288

Query: 169 NLPQIYLWEPNFYKDTVNSFT-LYRGIIIGVASLLA 203
                  WE +F+     + T L+    IGV    A
Sbjct: 289 -------WE-SFFVSVRKAITVLFF---IGVRCYEA 313



 Score = 29.5 bits (66), Expect = 4.1
 Identities = 28/93 (30%), Positives = 39/93 (41%), Gaps = 24/93 (25%)

Query: 75   IEVSASSIRHR-GDWAVFALANTSD-SQLERLIVVPHYRLVGSHFFSPDLGSRRIISVTP 132
            I   A+   H  G++A  ALA+ +D   +E L+ V  YR           G    ++V  
Sbjct: 1753 IPADATFAGHSLGEYA--ALASLADVMSIESLVEVVFYR-----------GMTMQVAVPR 1799

Query: 133  SEGFSLDRIPNSDSDVFRITINPGAV-VTFIME 164
             E   L R     S+   I INPG V  +F  E
Sbjct: 1800 DE---LGR-----SNYGMIAINPGRVAASFSQE 1824


>3i5c_A Fusion of general control protein GCN4 and WSPR response regulator
           protein; C-DI-GMP, ggdef, leucine zipper, signaling
           protein; HET: C2E; 1.94A {Pseudomonas aeruginosa PAO1}
           PDB: 3i5b_A*
          Length = 206

 Score = 56.3 bits (134), Expect = 3e-08
 Identities = 35/168 (20%), Positives = 61/168 (36%), Gaps = 6/168 (3%)

Query: 533 AFQDNLTGIPNRQSFLDRLTTILDLSATDDNLRPTVMVIDIDKYKKINDVLGIAVGD-DV 591
              D LTG+ NR+ F + L       +  +  + ++++ID+D +K  ND  G   GD  +
Sbjct: 30  VNSDGLTGLSNRRHFDEYLEMEWR-RSLREQSQLSLLMIDVDYFKSYNDTFGHVAGDEAL 88

Query: 592 LVSLTRRIGELLKFPDILARLSGNRFGI----ILISENNSLKIADFAIAMRKSIAMPINL 647
                       +  D+ AR  G  F +            L            I+     
Sbjct: 89  RQVAGAIREGCSRSSDLAARYGGEEFAMVLPGTSPGGARLLAEKVRRTVESLQISHDQPR 148

Query: 648 LEREITVTASIGFASWTSSKITSSEMLKNAELAMYHAKHRGGNHVESF 695
               +TV+  +          T   +++ A+ A+Y AK+ G N V   
Sbjct: 149 PGSHLTVSIGVSTLVPGGGGQTFRVLIEMADQALYQAKNNGRNQVGLM 196


>3eeh_A Putative light and redox sensing histidine kinase; structural
           genomics, PSI, MCSG, protein structure initiative; HET:
           PG5; 1.95A {Haloarcula marismortui}
          Length = 125

 Score = 52.8 bits (125), Expect = 4e-07
 Identities = 28/117 (23%), Positives = 46/117 (39%), Gaps = 3/117 (2%)

Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTT-PDIATILGLASGSMHGPIRNWLPYIHINDRDN 463
            R       + DI+W++      V         I G +   +     ++L  IH  DR+ 
Sbjct: 11  RRVRELTEATNDILWEFTADLSEVLVINSAYEDIWGRSVAKLRENPHDFLNGIHPEDREL 70

Query: 464 FRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDIT 520
            +  + S           E RV A +    W+ I+  P++N  G+ +R  G A DIT
Sbjct: 71  MKDTMQSL--MDGESADVECRVNATEEYQRWVWIQGEPITNDAGETVRVAGFARDIT 125


>3icy_A Sensor protein; sensory box histidine kinase/response regulator
           domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A
           {Chlorobaculum tepidum}
          Length = 118

 Score = 51.9 bits (123), Expect = 6e-07
 Identities = 21/119 (17%), Positives = 36/119 (30%), Gaps = 1/119 (0%)

Query: 402 SDGERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDR 461
           S+ E     V      ++  D+           A +  L S        N L  IH +DR
Sbjct: 1   SNAEELQALVDNIPAAIYHLDVSGQATIRFRPPAFLKTLVSEHAGTTRLNTLSMIHHDDR 60

Query: 462 DNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDIT 520
                        +         V   + + HW+   +R   + +G      GI  ++T
Sbjct: 61  HMLSNAYSKLREAKHSLTLVYRIVTP-EGKLHWIEDHMRSSFSDDGLFSGIDGILCEVT 118


>3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2,
           protein structure initiative, northeast structural
           genomics consortium; 2.00A {Colwellia psychrerythraea}
          Length = 124

 Score = 46.1 bits (109), Expect = 3e-05
 Identities = 22/121 (18%), Positives = 42/121 (34%), Gaps = 6/121 (4%)

Query: 406 RQSLAVL-GSGDIVWDWDIVRDRVTTT-PDIATILGLASGSMHGPIRNWLPYIHINDRDN 463
           +Q         D +   D+ +  +        T+ G +     G     +  +H+     
Sbjct: 7   KQRAKAFDYVFDAIVVTDL-QGFIIDWNKGSETLYGYSKEQAIG---QPVNMLHVPGDTE 62

Query: 464 FRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQK 523
             T         +G+   E R+   D    W+     P+   N  ++  +GI  DIT++K
Sbjct: 63  HITSEVISAVENQGKWTGEIRMLHKDGHIGWIESMCVPIYGENYQMVGALGINRDITKRK 122

Query: 524 K 524
           K
Sbjct: 123 K 123


>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain,
           heterodimer, internal cavity, activator, angiogenesis,
           congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
           3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 2b02_A*
           2k7s_A 2a24_B
          Length = 121

 Score = 45.9 bits (108), Expect = 5e-05
 Identities = 15/94 (15%), Positives = 31/94 (32%), Gaps = 3/94 (3%)

Query: 432 PDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQ 491
                 +G     +    +N + + H  D+   R      V  +   L   FR R+ + +
Sbjct: 29  HRCVATVGYQPQELL--GKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKNQE 86

Query: 492 FHWMIIRIRPMSNS-NGDILRYIGIANDITEQKK 524
           + WM        N  + +I   I    ++    +
Sbjct: 87  WLWMRTSSFTFQNPYSDEIEYIICTNTNVKNSSQ 120


>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological
           rhythms, cytoplasm, nucleus, phosphoprotein,
           transcription; 2.40A {Mus musculus}
          Length = 309

 Score = 45.1 bits (105), Expect = 8e-05
 Identities = 17/202 (8%), Positives = 46/202 (22%), Gaps = 1/202 (0%)

Query: 355 WMAITKRLDNDIIQPALVGGLVLIVILIGFTVIQHVLATGYFSQGIFSDGERQSLAVLGS 414
                  +              +   L+     Q   +                   +  
Sbjct: 103 SFFCRVSVGKHHENEIRYQPFRMTPYLVKVQEQQGAESQLCCLLLAERVHSGYEAPRIPP 162

Query: 415 GDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGY 474
              ++      + +    D   +  L            L  +H +DR     I    +  
Sbjct: 163 EKRIFTTTHTPNCLFQAVDERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLAIHKKILQA 222

Query: 475 RRG-RLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKSLEGILCNA 533
                     R R  + ++  +        N     + +I   + +     + +      
Sbjct: 223 GGQPFDYSPIRFRTRNGEYITLDTSWSSFINPWSRKISFIIGRHKVRVGPLNEDVFAAPP 282

Query: 534 FQDNLTGIPNRQSFLDRLTTIL 555
             +  T  P+ Q   +++  +L
Sbjct: 283 CPEEKTPHPSVQELTEQIHRLL 304


>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein
           structure initiati northeast structural genomics
           consortium; 2.60A {Desulfitobacterium hafniense}
          Length = 126

 Score = 42.0 bits (98), Expect = 7e-04
 Identities = 8/112 (7%), Positives = 26/112 (23%), Gaps = 6/112 (5%)

Query: 414 SGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVG 473
             D++   +     +     +   LG     +       +                    
Sbjct: 8   IEDMILIINREGRLLYANTAVPKKLGYTHEELMSMHILTITSAGKMAEGEKIL----AEL 63

Query: 474 YRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKS 525
           +   +      +   +        RI      N        I  D+++++++
Sbjct: 64  FAGKKESLPLSLEKKEGTSIPAKARIWQGKWHNEPC--LFAIIKDLSKEERA 113


>1n9l_A PHOT-LOV1, putative blue light receptor; phototropin, flavin,
           electron transport; HET: FMN; 1.90A {Chlamydomonas
           reinhardtii} SCOP: d.110.3.6 PDB: 1n9n_A* 1n9o_A*
          Length = 109

 Score = 42.0 bits (98), Expect = 7e-04
 Identities = 13/89 (14%), Positives = 30/89 (33%), Gaps = 3/89 (3%)

Query: 432 PDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQ 491
                + G     + G    +L      D    + I D+    +             D  
Sbjct: 23  EGFYAMTGYGPDEVLGHNCRFLQGEG-TDPKEVQKIRDAI--KKGEACSVRLLNYRKDGT 79

Query: 492 FHWMIIRIRPMSNSNGDILRYIGIANDIT 520
             W ++ + P+   +G + +++G+  D+T
Sbjct: 80  PFWNLLTVTPIKTPDGRVSKFVGVQVDVT 108


>1wa9_A Period circadian protein; PAS domain, circadian rhythm, clock
           protein, phosphorylation, polymorphism; 3.15A
           {Drosophila melanogaster} PDB: 3gec_A
          Length = 368

 Score = 41.2 bits (95), Expect = 0.001
 Identities = 14/149 (9%), Positives = 34/149 (22%), Gaps = 3/149 (2%)

Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHIND--RD 462
               +    S                     + LG     + G       +       ++
Sbjct: 148 VPDEILSQKSPKFAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKE 207

Query: 463 NFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQ 522
            + T++              +R    +  +  +        N     L ++   + + + 
Sbjct: 208 TYETVMKKGQTAGASFCSKPYRFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHRVFQG 267

Query: 523 KKSLEGILCNAFQDNLTGIPNRQSFLDRL 551
            K    +   A    L      QS   R+
Sbjct: 268 PK-QCNVFEAAPTCKLKISEEAQSRNTRI 295



 Score = 30.0 bits (66), Expect = 2.4
 Identities = 18/135 (13%), Positives = 44/135 (32%), Gaps = 10/135 (7%)

Query: 432 PDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQ----YEFRVRA 487
           P I  +LG       G  R+++ ++H+ DR  F + + + +     R       +     
Sbjct: 25  PSITDVLGYPRDMWLG--RSFIDFVHLKDRATFASQITTGIPIAESRGSVPKDAKSTFCV 82

Query: 488 ADNQFHWMIIRIRPMSN--SNGDILRYIGIANDITEQKKSLEGILCNAFQDNL--TGIPN 543
              ++  +      +     + +  R      +  E+ +    ++ N     L     P 
Sbjct: 83  MLRRYRGLKSGGFGVIGRPVSYEPFRLGLTFREAPEEARPDNYMVSNGTNMLLVICATPI 142

Query: 544 RQSFLDRLTTILDLS 558
           + S+      +   S
Sbjct: 143 KSSYKVPDEILSQKS 157


>3cax_A Uncharacterized protein PF0695; structural genomics, unknown
           function, PSI-2, protein structure initiative; 2.43A
           {Pyrococcus furiosus dsm 3638}
          Length = 369

 Score = 41.0 bits (95), Expect = 0.001
 Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 5/75 (6%)

Query: 450 RNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDI 509
           R                IL +F   + GR +          +  ++ I+  P+ N  G+ 
Sbjct: 280 RPVQLCHPPKSVYVVNKILKAF---KEGRKKEATFWLRLREK--YVYIKYVPLFNEKGEY 334

Query: 510 LRYIGIANDITEQKK 524
           +  + +  DI   KK
Sbjct: 335 IGTLEMTMDIAPYKK 349


>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain,
           heterodimer, internal cavity, activator, angiogenesis,
           congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
           3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A
          Length = 117

 Score = 40.9 bits (95), Expect = 0.001
 Identities = 11/95 (11%), Positives = 31/95 (32%), Gaps = 4/95 (4%)

Query: 432 PDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQ 491
             I  ++G     + G         +        T     +  +   +  ++R+ A    
Sbjct: 26  DRITELIGYHPEELLGRSAYEF---YHALDSENMTKSHQNLCTKGQVVSGQYRMLAKHGG 82

Query: 492 FHWMIIRIRPMSNS-NGDILRYIGIANDITEQKKS 525
           + W+  +   + N  N      + +   ++E +K+
Sbjct: 83  YVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIEKN 117


>2z6d_A Phototropin-2; PAS-fold, LOV-fold, alternative splicing,
           ATP-binding, chromophore, flavoprotein, FMN, kinase,
           membrane, nucleotide-binding; HET: FMN; 2.00A
           {Arabidopsis thaliana} PDB: 2z6c_A*
          Length = 130

 Score = 40.3 bits (93), Expect = 0.002
 Identities = 15/123 (12%), Positives = 44/123 (35%), Gaps = 4/123 (3%)

Query: 406 RQSLAVLGSGDIVWDWDIVRDRVT-TTPDIATILGLASGSMHGPIRNWLPYIHINDRDNF 464
           + +L+ L    +V D       +   +    T+ G +S  + G    +L     +  +  
Sbjct: 9   KTALSTLQQTFVVSDATQPHCPIVYASSGFFTMTGYSSKEIVGRNCRFLQGPDTDKNEVA 68

Query: 465 RTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKK 524
           +                       D    W ++ + P+ +  G+ +++IG+  ++++  +
Sbjct: 69  KIR---DCVKNGKSYCGRLLNYKKDGTPFWNLLTVTPIKDDQGNTIKFIGMQVEVSKYTE 125

Query: 525 SLE 527
            + 
Sbjct: 126 GVN 128


>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase,
           cell adhesion, nucleotide-binding, protein engineering,
           RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa}
           PDB: 2wkr_A* 2wkp_A*
          Length = 332

 Score = 40.2 bits (93), Expect = 0.002
 Identities = 10/81 (12%), Positives = 26/81 (32%)

Query: 475 RRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKSLEGILCNAF 534
            +  +  +        +  W +  ++PM +  GD+  +IG+  D TE  +          
Sbjct: 81  NQTEVTVQLINYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVML 140

Query: 535 QDNLTGIPNRQSFLDRLTTIL 555
                   +  +       ++
Sbjct: 141 IKKTAENIDEAAKELIKCVVV 161


>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG,
           structural genomics, center for structural genomics;
           1.65A {Burkholderia thailandensis} PDB: 3mqo_A
          Length = 120

 Score = 40.0 bits (93), Expect = 0.002
 Identities = 9/80 (11%), Positives = 25/80 (31%), Gaps = 1/80 (1%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
                R++      +D         S V    G    +  ++ A  +  W  +  R + +
Sbjct: 40  ADLIGRSFEVLYPSSDEFERIGERISPVMIAHGSYADDRIMKRAGGELFWCHVTGRAL-D 98

Query: 505 SNGDILRYIGIANDITEQKK 524
               +   +    D++  ++
Sbjct: 99  RTAPLAAGVWTFEDLSATRR 118


>3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory
           proteins, LUXR family, structural genomics; 2.04A
           {Bacteroides thetaiotaomicron vpi-5482}
          Length = 258

 Score = 40.0 bits (93), Expect = 0.003
 Identities = 20/135 (14%), Positives = 42/135 (31%), Gaps = 18/135 (13%)

Query: 407 QSLAVLGSGDIVWDWDIVRDR-VTTTPDIATILGLASGSMHGPIRN------WLPYIHIN 459
           +SL  + +G      D+   +   T    A  LGL        + +          IH  
Sbjct: 36  RSLTEV-NGGCAVISDLSNRKSYVTVHPWANFLGLTPEEAALSVIDSMDEDCIYRRIHPE 94

Query: 460 DRDNFRTILDSFV---------GYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN-SNGDI 509
           D    R +   F             + R +   R+      + ++   ++ M N   G++
Sbjct: 95  DLVEKRLMEYKFFQKTFSMSPGERLKYRGRCRLRMMNEKGVYQYIDNLVQIMQNTPAGNV 154

Query: 510 LRYIGIANDITEQKK 524
                + +   +Q+ 
Sbjct: 155 WLIFCLYSLSADQRP 169


>3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural
           genomics, midwest center for structural genomics; HET:
           PGE; 2.49A {Geobacter sulfurreducens}
          Length = 114

 Score = 39.5 bits (91), Expect = 0.003
 Identities = 18/116 (15%), Positives = 33/116 (28%), Gaps = 4/116 (3%)

Query: 405 ERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATILGLASGSMHGPIRNWLPYIHINDRDNF 464
           ER  L    +   +  +D     +  +       GL  G + G     +      +  + 
Sbjct: 3   ERLRLFTEHAPAALAMFDREMRYLAVSRRWREDYGLGDGDILGMSHYDIFPEIGEEWKSV 62

Query: 465 RTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDIT 520
                +           E     AD +  W+   +RP     G +   +    DIT
Sbjct: 63  HRRGLA----GEVIRVEEDCFVRADGRTQWLRWEVRPWYEGEGRVGGVVIFTEDIT 114


>3mxq_A Sensor protein; PSI2, MCSG, structural genomics, protein structure
           initiativ midwest center for structural genomics; 2.78A
           {Vibrio cholerae o1 biovar el tor}
          Length = 152

 Score = 39.6 bits (92), Expect = 0.004
 Identities = 13/97 (13%), Positives = 29/97 (29%), Gaps = 8/97 (8%)

Query: 437 ILGLASGSMHGPIRNWL-----PYIHINDRDNFRTILDSFVGYRRGRLQYEFR---VRAA 488
            +     +M G     L      Y+             SF  + +      F+     + 
Sbjct: 54  RVIFDGETMQGKNILELFPESADYLKRKIDTALVIESSSFSSWEQKPHLLPFKSSRPVSG 113

Query: 489 DNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKS 525
           + +  +  + + P+ + +G I        D+T Q   
Sbjct: 114 EEEQMYQNLEVIPIHSEDGTIEHVCLCVYDVTIQASQ 150


>2gj3_A Nitrogen fixation regulatory protein; PAS domain, FAD, redox
           sensor, atomic resolution, transferase; HET: FAD; 1.04A
           {Azotobacter vinelandii}
          Length = 120

 Score = 37.7 bits (86), Expect = 0.012
 Identities = 9/77 (11%), Positives = 22/77 (28%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
               +      +                  ++         R  D   +   + + P+ N
Sbjct: 42  SEEVLGKNESILSNGTTPRLVYQALWGRLAQKKPWSGVLVNRRKDKTLYLAELTVAPVLN 101

Query: 505 SNGDILRYIGIANDITE 521
             G+ + Y+G+  D +E
Sbjct: 102 EAGETIYYLGMHRDTSE 118


>1v9y_A Heme PAS sensor protein; signaling protein; HET: HEM; 1.32A
           {Escherichia coli K12} SCOP: d.110.3.2 PDB: 1v9z_A*
           1vb6_A* 1s67_L* 1s66_L*
          Length = 167

 Score = 37.6 bits (86), Expect = 0.015
 Identities = 10/83 (12%), Positives = 22/83 (26%), Gaps = 2/83 (2%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
           +   I   +P         +          R   +  E ++   D    W    +  +S 
Sbjct: 81  IGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGMSRELQLEKKDGSKIWTRFALSKVSA 140

Query: 505 SNGDILRYIGIANDITEQKKSLE 527
                  Y+ +  D + +    E
Sbjct: 141 EGKVY--YLALVRDASVEMAQKE 161


>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain,
           mycobacteium tuberculos molecule binding domain; 2.30A
           {Mycobacterium tuberculosis}
          Length = 185

 Score = 37.0 bits (85), Expect = 0.020
 Identities = 8/79 (10%), Positives = 24/79 (30%), Gaps = 4/79 (5%)

Query: 450 RNWLPYIHINDRDNFRTILDSFVGYRRGR----LQYEFRVRAADNQFHWMIIRIRPMSNS 505
           +         +      +LD        +     + +     +  +  +    + P   +
Sbjct: 79  QPAREVYPELEGQQIYEMLDRVYQTGEPQSGSEWRLQTDYDGSGVEERYFDFVVTPRRRA 138

Query: 506 NGDILRYIGIANDITEQKK 524
           +G I     I +D+T + +
Sbjct: 139 DGSIEGVQLIVDDVTSRVR 157


>2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM, fusion,
           lipidic cubic phase, lipidic, mesophase, cholesterol,
           membrane protein; HET: MAL CAU CLR PLM 12P; 2.40A {Homo
           sapiens} PDB: 3d4s_A*
          Length = 500

 Score = 36.9 bits (84), Expect = 0.023
 Identities = 32/208 (15%), Positives = 67/208 (32%), Gaps = 47/208 (22%)

Query: 154 NPGAVVTFIMEISTPNLPQIYLWEPNFYKDTVNSFTLYRGIIIGVASLLAIF---LTIFY 210
            PG    F++  +  + P     + +  +     + +  GI++ +  L  +F   L I  
Sbjct: 10  QPGNGSAFLLAPNRSHAP-----DHDVTQQRDEVWVVGMGIVMSLIVLAIVFGNVLVITA 64

Query: 211 MVNRSSMLIPTFAMAWVVLGYISIDFGFLSKLVNLPSGELLIWRACSEIALSSSLIIFLF 270
           +     +   T                    + +L         AC+++ +  +++ F  
Sbjct: 65  IAKFERLQTVTNYF-----------------ITSL---------ACADLVMGLAVVPFGA 98

Query: 271 MYLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMVTASIARITLASIVLYYTYFIIYHG 330
            ++    W       TF    C    F  S     VTASI  + + ++     YF I   
Sbjct: 99  AHILMKMW-------TFGNFWCE---FWTSIDVLCVTASIETLCVIAV---DRYFAITSP 145

Query: 331 MKGYERAVLLIPAWILIFIWFIGLWMAI 358
            K            I++ +W +    + 
Sbjct: 146 FKYQSLLTKNKARVIILMVWIVSGLTSF 173


>2qkp_A Uncharacterized protein; structural genomics, unknown function,
           PSI-2, protein structure initiative; 1.75A
           {Streptococcus mutans UA159}
          Length = 151

 Score = 36.0 bits (81), Expect = 0.045
 Identities = 8/80 (10%), Positives = 21/80 (26%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
              P +        +       +   F   R G+         ++    ++ +    + +
Sbjct: 56  KRTPSQVGRNVELCHPPKVLDKVKKVFELLRNGQRDKVNMWFQSERLGKFVYVTYAAVRD 115

Query: 505 SNGDILRYIGIANDITEQKK 524
             GD    +    DI    +
Sbjct: 116 QAGDFQGVLEYVQDIKPFFE 135


>3k3c_A Protein RV1364C/MT1410; sensor, PAS, signal transduction,
           fatty-acid binding, sigma regulator, signaling protein;
           HET: PLM; 1.62A {Mycobacterium tuberculosis} PDB: 3k3d_A
          Length = 158

 Score = 35.6 bits (81), Expect = 0.054
 Identities = 7/93 (7%), Positives = 23/93 (24%)

Query: 432 PDIATILGLASGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQ 491
                   L           +         +    +  +         + +     +  +
Sbjct: 45  AAYRGFSPLLDTVGQPAREVYPELEGQQIYEMLDRVYQTGEPQSGSEWRLQTDYDGSGVE 104

Query: 492 FHWMIIRIRPMSNSNGDILRYIGIANDITEQKK 524
             +    + P   ++G I     I +D+T + +
Sbjct: 105 ERYFDFVVTPRRRADGSIEGVQLIVDDVTSRVR 137


>3d72_A Vivid PAS protein VVD; circadian, photoreceptor, blue-light, LOV,
           signaling protein; HET: FAD; 1.65A {Neurospora crassa}
           PDB: 3is2_A* 2pd8_A* 3hjk_A* 2pdr_A* 2pd7_A* 2pdt_A*
           3hji_A*
          Length = 149

 Score = 35.4 bits (81), Expect = 0.066
 Identities = 7/44 (15%), Positives = 16/44 (36%)

Query: 475 RRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIAND 518
           R   +Q E      + Q     + + P+ +  G+    +G   +
Sbjct: 106 RNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCE 149


>2vv6_A FIXL, sensor protein FIXL; signaling protein, transferase,
           phosphoprotein, nitrogen fixation, PER-ARNT-SIM,
           metal-binding, PAS, iron; HET: HEM; 1.5A {Bradyrhizobium
           japonicum} PDB: 1xj6_A* 1xj4_A* 2vv7_A* 2vv8_A* 1lsw_A*
           1dp8_A* 1dp9_A* 1drm_A* 1lsv_A* 1dp6_A* 1lsx_A* 1lt0_A*
           1y28_A* 2cmn_A* 1xj3_A* 1xj2_A* 2owh_A* 2owj_A*
          Length = 119

 Score = 35.0 bits (79), Expect = 0.082
 Identities = 10/80 (12%), Positives = 26/80 (32%), Gaps = 2/80 (2%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
           +   +   +P    +  D++ +   +        +      +  D     M + I  M +
Sbjct: 34  IGQNVNILMPEPDRSRHDSYISRYRTTSDPHIIGIGRIVTGKRRDGTTFPMHLSIGEMQS 93

Query: 505 SNGDILRYIGIANDITEQKK 524
                  + G   D+TE ++
Sbjct: 94  GGEPY--FTGFVRDLTEHQQ 111


>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory
           system, two-component signal transduction, transferase,
           phosphorylation, SCOD; 1.7A {Bacillus subtilis}
          Length = 111

 Score = 35.1 bits (79), Expect = 0.083
 Identities = 8/80 (10%), Positives = 27/80 (33%)

Query: 444 SMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMS 503
             +        ++     +  + +++S+       +   FR    D+   W+   +  ++
Sbjct: 32  LGYLQGEMIGSFLKTFLHEEDQFLVESYFYNEHHLMPCTFRFIKKDHTIVWVEAAVEIVT 91

Query: 504 NSNGDILRYIGIANDITEQK 523
                  R I +   + E++
Sbjct: 92  TRAERTEREIILKMKVLEEE 111


>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator,
           complex, LXXLL motif, transcriptional regulation; 2.2A
           {Mus musculus} SCOP: d.110.3.8
          Length = 132

 Score = 34.6 bits (79), Expect = 0.095
 Identities = 9/76 (11%), Positives = 15/76 (19%), Gaps = 2/76 (2%)

Query: 450 RNWLPYIHINDRDNFRTILDSFVGYRRGR-LQYEFRVRAADNQFHWMIIRIRPMSNS-NG 507
           +    +     R+             RG      +R    D        R +        
Sbjct: 41  KCIYAFFQPQGREPSYARQLFQEVMTRGTASSPSYRFILNDGTMLSAHTRCKLCYPQSPD 100

Query: 508 DILRYIGIANDITEQK 523
                +GI     E  
Sbjct: 101 MQPFIMGIHIIDREHS 116


>1byw_A Protein (human ERG potassium channel); PAS domain, potassium
           channel domain; 2.60A {Homo sapiens} SCOP: d.110.3.6
          Length = 110

 Score = 33.5 bits (75), Expect = 0.21
 Identities = 8/71 (11%), Positives = 22/71 (30%)

Query: 452 WLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDILR 511
              ++H            +         + E      D      ++ + P+ N +G ++ 
Sbjct: 40  TCDFLHGPCTQRRAAAQIAQALLGAEERKVEIAFYRKDGSCFLCLVDVVPVKNEDGAVIM 99

Query: 512 YIGIANDITEQ 522
           +I     + E+
Sbjct: 100 FILNFEVVMEK 110


>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase,
           phosphoprotein, transferase, flavoprotein; HET: FAD;
           2.34A {Methylococcus capsulatus}
          Length = 227

 Score = 33.4 bits (74), Expect = 0.23
 Identities = 9/74 (12%), Positives = 19/74 (25%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
               I +               +        R   +        D + +W  I   P+  
Sbjct: 154 QSPSILDSPLADQETLAAMQEALQAGQPWSGRLLNRRRTGPAPHDAEDYWAEISTTPIHT 213

Query: 505 SNGDILRYIGIAND 518
               ++ Y+ I +D
Sbjct: 214 DGNGLVGYVQIQHD 227


>3bwl_A Sensor protein; structural genomics, APC87707.1, PAS domain,
           HTR-like protein, PSI-2, protein structure initiative;
           HET: MSE I3A; 1.73A {Haloarcula marismortui atcc 43049}
          Length = 126

 Score = 32.8 bits (73), Expect = 0.33
 Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 4/71 (5%)

Query: 450 RNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSNSNGDI 509
           R+   +  + D ++ +T L  F      R ++E      D     + + +   +    D 
Sbjct: 60  RSIWEFDLMFDAEDVQTQLSGFS--VDERRKFEGLYERRDGSTMSVEVHLLRFNLEGED- 116

Query: 510 LRYIGIANDIT 520
            R++ I+ DIT
Sbjct: 117 -RFLAISRDIT 126


>1ft9_A Carbon monoxide oxidation system transcription regulator; heme
           sensor, catabolite gene activator protein; HET: HEM;
           2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1
          Length = 222

 Score = 32.5 bits (73), Expect = 0.42
 Identities = 14/129 (10%), Positives = 32/129 (24%), Gaps = 7/129 (5%)

Query: 389 HVLATGYFSQGIFSDGERQSLAVLGSGDIVWDWDIVRDRVTTTPDIATI-------LGLA 441
            V+  G     +  +    SL  L SGD+           T   ++              
Sbjct: 45  FVVVDGRLRVYLVGEEREISLFYLTSGDMFCMHSGCLVEATERTEVRFADIRTFEQKLQT 104

Query: 442 SGSMHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRP 501
             SM   +   L     +       ++   +  R      +            +I+ +  
Sbjct: 105 CPSMAWGLIAILGRALTSCMRTIEDLMFHDIKQRIAGFFIDHANTTGRQTQGGVIVSVDF 164

Query: 502 MSNSNGDIL 510
                 +++
Sbjct: 165 TVEEIANLI 173


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 32.3 bits (72), Expect = 0.53
 Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 3/27 (11%)

Query: 544 RQSFLDRLTTILDLSATDDNLRPTVMV 570
           +Q+ L +L   L L A DD+  P + +
Sbjct: 19  KQA-LKKLQASLKLYA-DDS-APALAI 42



 Score = 30.0 bits (66), Expect = 2.4
 Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 6/25 (24%)

Query: 851 LRKIGISLTL--DD----FGTKCSL 869
           L+K+  SL L  DD       K ++
Sbjct: 22  LKKLQASLKLYADDSAPALAIKATM 46


>2hk2_A Diphosphomevalonate decarboxylase; mevalonate diphosphate
           decarboxylase, lyase; 2.30A {Staphylococcus aureus} PDB:
           2hk3_A
          Length = 331

 Score = 32.1 bits (72), Expect = 0.62
 Identities = 13/55 (23%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 856 ISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTGSTEKRIAILRSIIPMAKNIE 910
           IS+TL+ F T+   +++   +  D    NG  ++G   ++I+    I+     I+
Sbjct: 38  ISVTLEKFYTETK-VTFNDQLTQDQFWLNGEKVSGKELEKISKYMDIVRNRAGID 91


>2v0u_A NPH1-1, LOV2; kinase, transferase, ATP-binding,
           serine/threonine-protein kinase, light-induced signal
           transduction, phototropin1; HET: FMN; 1.40A {Avena
           sativa} PDB: 2v0w_A* 2v1b_A* 2v1a_A* 1jnu_A* 1g28_A*
          Length = 146

 Score = 31.9 bits (71), Expect = 0.68
 Identities = 10/48 (20%), Positives = 20/48 (41%)

Query: 480 QYEFRVRAADNQFHWMIIRIRPMSNSNGDILRYIGIANDITEQKKSLE 527
             +        +  W +  ++PM +  GD+  +IG+  D TE  +   
Sbjct: 77  TVQLINYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAA 124


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
           acid synthase, acyl-carrier-protein, beta-ketoacyl
           reductase, beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 31.7 bits (71), Expect = 0.77
 Identities = 42/165 (25%), Positives = 75/165 (45%), Gaps = 33/165 (20%)

Query: 783 ISWRDQANMPPIFILINIASKDLLDNELCEGMQALISKTLYSPSRIKLSFSESVVMGNPE 842
           ++++D+      ++LI  A K  +  E+ +G+    +K + + SR    FS+ V     +
Sbjct: 472 VTFKDK------YVLITGAGKGSIGAEVLQGLLQGGAKVVVTTSR----FSKQVT----D 517

Query: 843 RSRLLLGRLRKIGISLTLDDF--GTKCSLLSYLGYIPFDTVKFNGSLMTGSTEKRIAILR 900
             + +  +    G +L +  F  G+K  + + + +I +DT K NG L  G        L 
Sbjct: 518 YYQSIYAKYGAKGSTLIVVPFNQGSKQDVEALIEFI-YDTEK-NGGL--GWD------LD 567

Query: 901 SIIPMA----KNIETT-IIAKDIYG-EIDIKELTR-MGCDYIQDS 938
           +IIP A    + IE   I +K  +   I +  + R MGC   Q S
Sbjct: 568 AIIPFAAIPEQGIELEHIDSKSEFAHRIMLTNILRMMGCVKKQKS 612


>3eml_A Human adenosine A2A receptor/T4 lysozyme chimera; caffeine, GPCR,
           membrane protein, LCP, mesophase, structural genomics,
           PSI-2; HET: ZMA STE; 2.60A {Homo sapiens}
          Length = 488

 Score = 31.1 bits (69), Expect = 1.2
 Identities = 24/166 (14%), Positives = 49/166 (29%), Gaps = 41/166 (24%)

Query: 194 IIIGVASLLAIFLTIFYMVNRSSMLIPTFAMAWVVLGYISIDFGFLSKLVNLPSGELLIW 253
           + I V ++L   L  + +   S++   T                    +V+L        
Sbjct: 29  LAIAVLAILGNVLVCWAVWLNSNLQNVTNYF-----------------VVSL-------- 63

Query: 254 RACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMVTASIARI 313
            A ++I     L I   + +              +   C   LF   F   +  +SI   
Sbjct: 64  -AAADI-AVGVLAIPFAITISTGFC--------AACHGC---LFIACFVLVLTQSSI--F 108

Query: 314 TLASIVLYYTYFIIYHGMKGYERAVLLIPAWILIFIWFIGLWMAIT 359
           +L +I +     I    ++            I+   W +   + +T
Sbjct: 109 SLLAIAIDRYIAIRIP-LRYNGLVTGTRAKGIIAICWVLSFAIGLT 153


>2ei4_A AR 2, archaerhodopsin-2; membrane protein, retinal,
           bacterioruberin, proton pump, transport protein; HET:
           GLC RET 22B L2P; 2.10A {Halobacterium SP} PDB: 1vgo_A*
           2z55_A* 1uaz_A*
          Length = 253

 Score = 30.8 bits (69), Expect = 1.5
 Identities = 19/173 (10%), Positives = 44/173 (25%), Gaps = 18/173 (10%)

Query: 196 IGVASLLAIFLTIFYMVN-------RSSMLIPTFAMAWVVLGYISIDFGFLSKLVNLPSG 248
           IG   +L                  R    I           Y+++ FG     V L SG
Sbjct: 19  IGTLLMLIGTFYFIARGWGVTDKEAREYYAITILVPGIASAAYLAMFFGIGVTEVELASG 78

Query: 249 EL--LIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMV 306
            +  + +   ++   ++ L++     L           I    +  +  L          
Sbjct: 79  TVLDIYYARYADWLFTTPLLLLDLALLAKVDRVTIGTLIGVDALMIVTGLIG--ALSKTP 136

Query: 307 TASIARITLASIVLYYTYFIIYHGMKGYERAV-------LLIPAWILIFIWFI 352
            A       ++I   +  + +   ++                   ++  +W  
Sbjct: 137 LARYTWWLFSTIAFLFVLYYLLTSLRSAAAKRSEEVRSTFNTLTALVAVLWTA 189


>1d06_A Nitrogen fixation regulatory protein FIXL; oxygen sensor, histidine
           kinase, PAS, high-resolution, two- component system;
           HET: HEM; 1.40A {Rhizobium meliloti} SCOP: d.110.3.2
           PDB: 1ew0_A*
          Length = 130

 Score = 30.4 bits (67), Expect = 1.8
 Identities = 10/76 (13%), Positives = 25/76 (32%), Gaps = 2/76 (2%)

Query: 445 MHGPIRNWLPYIHINDRDNFRTILDSFVGYRRGRLQYEFRVRAADNQFHWMIIRIRPMSN 504
           +   +R  +P  + ++ D +     +    R   +      +  D     M + +  M +
Sbjct: 57  IGQNLRILMPEPYRHEHDGYLQRYMATGEKRIIGIDRVVSGQRKDGSTFPMKLAVGEMRS 116

Query: 505 SNGDILRYIGIANDIT 520
                  + G   D+T
Sbjct: 117 GGERF--FTGFIRDLT 130


>1zxu_A AT5G01750 protein; PFAM PF01167, TULP, structural genomics, protein
           structure initiative, center for eukaryotic structural
           genomics, CESG; 1.70A {Arabidopsis thaliana} SCOP:
           d.23.1.2 PDB: 2q4m_A
          Length = 217

 Score = 30.3 bits (68), Expect = 2.4
 Identities = 21/108 (19%), Positives = 33/108 (30%), Gaps = 12/108 (11%)

Query: 60  FQVFTAADIDGISRRIEVSASSI-RHRGDWAVFALANTSDSQLERLIVVPHYRLVGSHF- 117
           +QVF     D       V  SS+ + +    VF   N  +           +R+ GS   
Sbjct: 102 WQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEK-------RCDFRVKGSWLE 154

Query: 118 --FSPDLGSRRIISVTPSEGFSLDRIPNSDSDVFRITINPGAVVTFIM 163
                  G    I        ++  +     D F +T+ P     FI 
Sbjct: 155 RSCVVYAGESDAIVAQMHRKHTVQSVFLGK-DNFSVTVYPNVDYAFIA 201


>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
           membrane, membrane, transmembrane, transport protein;
           HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
           3gi9_C* 3gi8_C
          Length = 444

 Score = 30.0 bits (66), Expect = 2.5
 Identities = 16/121 (13%), Positives = 39/121 (32%), Gaps = 13/121 (10%)

Query: 209 FYMVNRSSMLIPTFAMAWVVLGYISIDFGFLSKLVNLPSGELLIWRACSEIALSSSLIIF 268
              V   S        A  VL  +  +   ++ + +              + +   L + 
Sbjct: 313 ERKVWFKSTEGLYITSALGVLFALLFNMEGVASITSA-------------VFMVIYLFVI 359

Query: 269 LFMYLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMVTASIARITLASIVLYYTYFIIY 328
           L  Y+  +    +   + FS I  + +   + +Y  +    +    +A+ +    + IIY
Sbjct: 360 LSHYILIDEVGGRKEIVIFSFIVVLGVFLLLLYYQWITNRFVFYGIIATFIGVLIFEIIY 419

Query: 329 H 329
            
Sbjct: 420 R 420


>3g2f_A Bone morphogenetic protein receptor type-2; kinase, structural
           genomics, structural genomics consortium, SGC,
           ATP-binding, disease mutation; HET: ADP; 2.35A {Homo
           sapiens}
          Length = 336

 Score = 29.7 bits (66), Expect = 3.3
 Identities = 8/46 (17%), Positives = 22/46 (47%)

Query: 620 ILISENNSLKIADFAIAMRKSIAMPINLLEREITVTASIGFASWTS 665
           +L+  + +  I+DF ++MR +    +   E +    + +G   + +
Sbjct: 151 VLVKNDGTCVISDFGLSMRLTGNRLVRPGEEDNAAISEVGTIRYMA 196


>2gs8_A Mevalonate pyrophosphate decarboxylase; structural genomics, PSI,
           protein structure initiative; HET: MSE; 1.50A
           {Streptococcus pyogenes m1 gas}
          Length = 317

 Score = 29.4 bits (65), Expect = 4.4
 Identities = 12/58 (20%), Positives = 19/58 (32%)

Query: 856 ISLTLDDFGTKCSLLSYLGYIPFDTVKFNGSLMTGSTEKRIAILRSIIPMAKNIETTI 913
           ISLTL++  T  S+         D    NG L       +I+ +             +
Sbjct: 38  ISLTLENMFTTTSVSFLPDTATSDQFYINGILQNDEEHTKISAIIDQFRQPGQAFVKM 95


>3kvc_A Retinoid isomerohydrolase; 7-bladed beta-propeller, monotopic
           membrane protein, sensory transduction, vision,
           isomerase, non-heme iron protein; 1.90A {Bos taurus}
           PDB: 3fsn_A
          Length = 533

 Score = 29.4 bits (65), Expect = 4.6
 Identities = 17/131 (12%), Positives = 40/131 (30%), Gaps = 6/131 (4%)

Query: 211 MVNRSSMLIPTFAMAWVV-----LGYISID-FGFLSKLVNLPSGELLIWRACSEIALSSS 264
           + N  +     F++A+ +     L     D       +V  P  +           L+ +
Sbjct: 189 VYNIGNCFGKNFSIAYNIVKIPPLQADKEDPISKSEIVVQFPCSDRFKPSYVHSFGLTPN 248

Query: 265 LIIFLFMYLHWNRWHAKVGYITFSGIACIAILFCMSFYYPMVTASIARITLASIVLYYTY 324
            I+F+   +  N +     +  +            +    +  A   R    +     + 
Sbjct: 249 YIVFVETPVKINLFKFLSSWSLWGANYMDCFESNETMGVWLHIADKKRKKYINNKYRTSP 308

Query: 325 FIIYHGMKGYE 335
           F ++H +  YE
Sbjct: 309 FNLFHHINTYE 319


>3jui_A Translation initiation factor EIF-2B subunit epsilon; heat repeat,
           guanine nucleotide exchange factor, disease mutation,
           leukodystrophy; 2.00A {Homo sapiens}
          Length = 182

 Score = 29.1 bits (65), Expect = 4.9
 Identities = 21/127 (16%), Positives = 40/127 (31%), Gaps = 19/127 (14%)

Query: 621 LISENNSLKIADFAIAMRKSIAMPINLLE-REITVTASIGFASW-TSSKITSSEMLKNAE 678
           L+ E NSLK A             I+L E  ++     + F      S + SS       
Sbjct: 35  LVLEINSLKYA-----------YNISLKEVMQVLSHVVLEFPLQQMDSPLDSSRYCALLL 83

Query: 679 LAMYHAKHRGGNHVESFRVSSFRSDRVMIKEDLCLAVENSELYLVYHPIIRLM-DEEIVG 737
             +   K        ++ +         +       +E+  L +    ++      EI+ 
Sbjct: 84  PLL---KAWSP-VFRNY-IKRAADHLEALAAIEDFFLEHEALGISMAKVLMAFYQLEILA 138

Query: 738 LEALIQW 744
            E ++ W
Sbjct: 139 GETILSW 145


>3m73_A Tellurite resistance protein TEHA homolog; anion channel, alpha
           helical integral membrane protein, STRU genomics, PSI-2;
           HET: BOG; 1.15A {Haemophilus influenzae} PDB: 3m75_A*
           3m74_A* 3m77_A* 3m71_A* 3m7b_A* 3m7c_A* 3m7e_A* 3m7l_A*
           3m78_A* 3m76_A* 3m72_A*
          Length = 314

 Score = 28.5 bits (63), Expect = 6.5
 Identities = 20/219 (9%), Positives = 47/219 (21%), Gaps = 22/219 (10%)

Query: 194 IIIGVASLLAIFLTIFYMV---------------NRSSMLIPTFAMAWVVLGYISIDFGF 238
           ++  VAS + I   + Y                       I    +  +++G I   +  
Sbjct: 43  VLGIVASAVWILFILMYAYKLRYYFEEVRAEYHSPVRFSFIALIPITTMLVGDILYRWNP 102

Query: 239 LSKLVNLPSGELLIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACIAILFC 298
                     E+LIW       L S+L +            +         +A       
Sbjct: 103 -------LIAEVLIWIGTIGQLLFSTLRVSELWQGGVFEQKSTHPSFYLPAVAANFTSAS 155

Query: 299 MSFYYPMVTASIARITLASIVLYYTYFIIYHGMKGYERAVLLIPAWILIFIWFIGLWMAI 358
                              I       ++   ++             ++         A 
Sbjct: 156 SLALLGYHDLGYLFFGAGMIAWIIFEPVLLQHLRISSLEPQFRATMGIVLAPAFVCVSAY 215

Query: 359 TKRLDNDIIQPALVGGLVLIVILIGFTVIQHVLATGYFS 397
                 ++   A +      + L     +   +     +
Sbjct: 216 LSINHGEVDTLAKILWGYGFLQLFFLLRLFPWIVEKGLN 254


>1dqu_A Isocitrate lyase; beta barrel; 2.80A {Emericella nidulans} SCOP:
           c.1.12.7
          Length = 538

 Score = 28.7 bits (64), Expect = 7.2
 Identities = 9/27 (33%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 402 SDGERQSLA-VLGSGDIVWDWDIVRDR 427
           S+ E +++A  +   DI +DW+  R R
Sbjct: 339 SNLEARAIAKEIAGTDIYFDWEAPRTR 365


>3pbl_A D(3) dopamine receptor, lysozyme chimera; structural genomics,
           PSI-2, protein structure initiative, AC technologies
           center for gene to 3D structure; HET: ETQ MAL; 2.89A
           {Homo sapiens}
          Length = 481

 Score = 28.6 bits (63), Expect = 7.5
 Identities = 20/118 (16%), Positives = 42/118 (35%), Gaps = 18/118 (15%)

Query: 242 LVNLPSGELLIWRACSEIALSSSLIIFLFMYLHWNRWHAKVGYITFSGIACIAILFCMSF 301
           +V+L         A +++ L ++L++   +YL         G   FS I C   +     
Sbjct: 77  VVSL---------AVADL-LVATLVMPWVVYLEVTG-----GVWNFSRICCDVFVTLDVM 121

Query: 302 YYPMVTASIARITL---ASIVLYYTYFIIYHGMKGYERAVLLIPAWILIFIWFIGLWM 356
                  ++  I++    ++V+   Y            A+++   W+L F     L  
Sbjct: 122 MCTASIWNLCAISIDRYTAVVMPVHYQHGTGQSSCRRVALMITAVWVLAFAVSCPLLF 179


>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
           potential tentoxin binding site, hydrolase; 3.20A
           {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
           PDB: 1kmh_A*
          Length = 507

 Score = 28.4 bits (63), Expect = 8.4
 Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 598 RIGELLKFPD----ILARLSGNRFGIILISENNSLKIADFAIAMRKSIAMPI 645
             GEL++F +    I   L  N  G++L+ +   ++      A  +   +P+
Sbjct: 49  MAGELVEFEEGTIGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPV 100


>3og7_A AKAP9-BRAF fusion protein; proto-oncogene, V600E, kinase,
           transferase; HET: 032; 2.45A {Homo sapiens} PDB: 3c4c_A*
           3c4d_A* 3idp_A* 3ii5_A* 3d4q_A* 2fb8_A* 1uwj_A* 1uwh_A*
          Length = 289

 Score = 28.1 bits (63), Expect = 9.5
 Identities = 10/21 (47%), Positives = 15/21 (71%)

Query: 620 ILISENNSLKIADFAIAMRKS 640
           I + E+N++KI DF +A  KS
Sbjct: 151 IFLHEDNTVKIGDFGLATEKS 171


>3lb7_A RAF proto-oncogene serine/threonine-protein kinas; kinase domain,
           alternative splicing, ATP-binding, disease MU kinase,
           metal-binding; 4.00A {Homo sapiens} PDB: 3omv_A*
          Length = 307

 Score = 28.1 bits (63), Expect = 9.9
 Identities = 9/21 (42%), Positives = 13/21 (61%)

Query: 620 ILISENNSLKIADFAIAMRKS 640
           I + E  ++KI DF +A  KS
Sbjct: 163 IFLHEGLTVKIGDFGLATVKS 183


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.326    0.141    0.420 

Gapped
Lambda     K      H
   0.267   0.0529    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 8,523,232
Number of extensions: 416948
Number of successful extensions: 1729
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1672
Number of HSP's successfully gapped: 114
Length of query: 963
Length of database: 5,693,230
Length adjustment: 101
Effective length of query: 862
Effective length of database: 3,244,586
Effective search space: 2796833132
Effective search space used: 2796833132
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 61 (27.7 bits)