RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780183|ref|YP_003064596.1| single-strand binding protein
(ssb) [Candidatus Liberibacter asiaticus str. psy62]
         (159 letters)



>3lgj_A Single-stranded DNA-binding protein; niaid, CAT scratch fever,
           rochalimaea, LYME disease, ALS collaborative
           crystallography, DNA replication; 2.50A {Bartonella
           henselae}
          Length = 169

 Score =  152 bits (384), Expect = 4e-38
 Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 16/159 (10%)

Query: 5   LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEEL 64
           LNKV+LIG LG DP+ +    G ++VN R+AT +S+ ++ T+++ EKTEWHSV+VF+   
Sbjct: 23  LNKVMLIGYLGDDPESKTMTSGAEVVNFRMATFESYMNKNTHQKVEKTEWHSVVVFNPHF 82

Query: 65  CRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMR----SMVMLDGRRDSLQGE 120
            +I  QYL KGSKVYIEG LQTRKWQD++G++RYTTEI++      + +LD +++     
Sbjct: 83  AKIALQYLHKGSKVYIEGKLQTRKWQDKNGHDRYTTEIVLPQYKGELHLLDAKKEQSASS 142

Query: 121 EQRSEQHSNNLKENVVGNRYSSPREESVFSDELDDEIPF 159
              + Q             Y+       +     D +PF
Sbjct: 143 SSVTSQ------------SYAIASGADDYGISAHDSMPF 169


>1se8_A Single-strand binding protein; DNA binding protein; 1.80A
           {Deinococcus radiodurans} SCOP: b.40.4.3
          Length = 301

 Score =  146 bits (369), Expect = 2e-36
 Identities = 35/143 (24%), Positives = 58/143 (40%), Gaps = 1/143 (0%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           M   +N V LIG L  DP++R+T +G  +    +A  D          R    +H V + 
Sbjct: 1   MARGMNHVYLIGALARDPELRYTGNGMAVFEATVAGEDRVIGN-DGRERNLPWYHRVSIL 59

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGE 120
            +      E+ L+ G  V +EG+L+ R+W+   G  R    +    M  L  + + +Q  
Sbjct: 60  GKPAEWQAERNLKGGDAVVVEGTLEYRQWEAPEGGKRSAVNVKALRMEQLGTQPELIQDA 119

Query: 121 EQRSEQHSNNLKENVVGNRYSSP 143
                      +  V+GN    P
Sbjct: 120 GGGVRMSGAMNEVLVLGNVTRDP 142



 Score =  114 bits (286), Expect = 1e-26
 Identities = 39/180 (21%), Positives = 79/180 (43%), Gaps = 24/180 (13%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           M  ++N+V+++GN+  DP++R+T  G  ++++ IA +++++DR   +R+EK  +    ++
Sbjct: 125 MSGAMNEVLVLGNVTRDPEIRYTPAGDAVLSLSIAVNENYQDR-QGQRQEKVHYIDATLW 183

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGE 120
            +    +  + LRKG  V I G L    W D+ GN R +T +    +  L     +    
Sbjct: 184 RDLAENM--KELRKGDPVMIMGRLVNEGWTDKDGNKRNSTRVEATRVEALARGAGNANSG 241

Query: 121 EQRS------EQHSNNLKENVVGNRYSSPREESVFS---------------DELDDEIPF 159
              +       Q +++      G   S P   +                     +D++PF
Sbjct: 242 YAAATPAAPRTQTASSAARPTSGGYQSQPSRAANTGSRSGGLDIDQGLDDFPPEEDDLPF 301


>3k81_C MP18 RNA editing complex protein; krepa6, single domain antibody,
           immune system, RNA BIND protein; 3.40A {Trypanosoma
           brucei}
          Length = 164

 Score =  138 bits (348), Expect = 6e-34
 Identities = 27/148 (18%), Positives = 56/148 (37%), Gaps = 7/148 (4%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
              S+N V L+G +  D           +    + T+       T E   + + H++  F
Sbjct: 18  CCKSVNSVTLVGVVH-DIQSGFV-YEDAVTQFTLTTTSIDTTHPTQEVVVEKDHHTIRCF 75

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEII-----MRSMVMLDGRRD 115
            E     V+Q +++G+ V + G L+     + S N  +    I        + ++ G R 
Sbjct: 76  GELFSAEVKQKVKEGNVVCVNGRLRLSPQLEPSCNKHFYFPYIQVQPPHGQVAVIHGDRR 135

Query: 116 SLQGEEQRSEQHSNNLKENVVGNRYSSP 143
           ++      + +   + KE   G++   P
Sbjct: 136 TVPAAVNPAVEDIKSEKEGSGGDQSGVP 163


>3eiv_A Single-stranded DNA-binding protein 2; DNA damage, DNA repair, DNA
           replication, phosphoprotein; 2.14A {Streptomyces
           coelicolor}
          Length = 199

 Score =  137 bits (345), Expect = 1e-33
 Identities = 27/124 (21%), Positives = 55/124 (44%)

Query: 3   ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE 62
           A    + ++GNL  DP++R T  G  +   R+A++    DR TNE ++            
Sbjct: 2   AGETVITVVGNLVDDPELRFTPSGAAVAKFRVASTPRTFDRQTNEWKDGESLFLTCSVWR 61

Query: 63  ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQ 122
           +    V + L++G +V ++G L+ R ++D+ G  R   E+ +  +        +   +  
Sbjct: 62  QAAENVAESLQRGMRVIVQGRLKQRSYEDREGVKRTVYELDVDEVGASLRSATAKVTKTS 121

Query: 123 RSEQ 126
              +
Sbjct: 122 GQGR 125


>3afp_A Single-stranded DNA-binding protein; OB-fold, quaternary structure
           and stability, changes on oligomerisation,
           water-bridges, DNA damage; 2.05A {Mycobacterium leprae}
           PDB: 3afq_A 1ue1_A 1ue5_A 1ue6_A 1ue7_A 1x3e_A 1x3f_A
           1x3g_A 3a5u_A*
          Length = 168

 Score =  135 bits (340), Expect = 5e-33
 Identities = 36/167 (21%), Positives = 66/167 (39%), Gaps = 10/167 (5%)

Query: 3   ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE 62
           A    + ++GNL ADP++R T  G  +VN  +A++    DR + E ++            
Sbjct: 2   AGDTTITIVGNLTADPELRFTSSGAAVVNFTVASTPRIYDRQSGEWKDGEALFLRCNIWR 61

Query: 63  ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQ 122
           E    V + L +G++V + G L+ R ++ + G  R   E+ +  +        +   +  
Sbjct: 62  EAAENVAESLTRGARVIVTGRLKQRSFETREGEKRTVVEVEVDEIGPSLRYATAKVNKAS 121

Query: 123 RS----------EQHSNNLKENVVGNRYSSPREESVFSDELDDEIPF 159
           RS           + +       VG+        S      D+E PF
Sbjct: 122 RSXXXXXXFGSGSRQAPAQMSGGVGDDPWGSAPTSGSFGVGDEEPPF 168


>1eqq_A Single stranded DNA binding protein; beta barrel, protein-DNA
           complex, replication/RNA complex; HET: 5MU; 3.20A
           {Escherichia coli} SCOP: b.40.4.3
          Length = 178

 Score =  134 bits (337), Expect = 1e-32
 Identities = 70/175 (40%), Positives = 102/175 (58%), Gaps = 20/175 (11%)

Query: 4   SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEE 63
            +NKVIL+GNLG DP+VR+  +G  + NI +ATS+SW+D+ T E +E+TEWH  +V   +
Sbjct: 5   GVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHR-VVLFGK 63

Query: 64  LCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMR---SMVMLDGRRDS---- 116
           L  +  +YLRKGS+VYIEG L+TRKW DQSG +RYTTE+++    +M ML GR+      
Sbjct: 64  LAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPA 123

Query: 117 ------LQGEEQRSEQHSNNLKENVVGNRYSSPREESVFS------DELDDEIPF 159
                  Q +    +           G   S P++ +  +       + DD+IPF
Sbjct: 124 GGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNEPPMDFDDDIPF 178


>3k7u_C MP18 RNA editing complex protein; OB-fold, RNA-editing proteins,
           kinetoplastids, system, RNA binding protein; 2.10A
           {Trypanosoma brucei} PDB: 3k80_D
          Length = 148

 Score =  129 bits (325), Expect = 3e-31
 Identities = 28/148 (18%), Positives = 57/148 (38%), Gaps = 7/148 (4%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           M  S+N V L+G +  D           +    + T+       T E   + + H++  F
Sbjct: 2   MSKSVNSVTLVGVVH-DIQSGFV-YEDAVTQFTLTTTSIDTTHPTQEVVVEKDHHTIRCF 59

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIM-----RSMVMLDGRRD 115
            E     V+Q +++G+ V + G L+     + S N  +    I        + ++ G R 
Sbjct: 60  GELFSAEVKQKVKEGNVVCVNGRLRLSPQLEPSCNKHFYFPYIQVQPPHGQVAVIHGDRR 119

Query: 116 SLQGEEQRSEQHSNNLKENVVGNRYSSP 143
           ++      + +   + KE   G++   P
Sbjct: 120 TVPAAVNPAVEDIKSEKEGSGGDQSGVP 147


>2fxq_A Single-strand binding protein; strand beta-sheet extended loops,
           DNA binding protein; 1.85A {Thermus aquaticus} PDB:
           2ihe_A 2cwa_A 2ihf_A
          Length = 264

 Score =  126 bits (318), Expect = 2e-30
 Identities = 35/133 (26%), Positives = 65/133 (48%), Gaps = 3/133 (2%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           M   LN+V LIG L A PD+R+T  G  I+++ +A  D++ D  + + RE   +H V + 
Sbjct: 1   MARGLNQVFLIGTLTARPDMRYTPGGLAILDLNLAGQDAFTDE-SGQEREVPWYHRVRLL 59

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGE 120
                 +    L KG  +++EG L+ R+W ++ G  +   ++    +  L+GR      +
Sbjct: 60  -GRQAEMWGDLLEKGQLIFVEGRLEYRQW-EKDGEKKSEVQVRAEFIDPLEGRGRETLED 117

Query: 121 EQRSEQHSNNLKE 133
            +   +    L +
Sbjct: 118 ARGQPRLRRALNQ 130



 Score = 84.8 bits (209), Expect = 8e-18
 Identities = 36/159 (22%), Positives = 64/159 (40%), Gaps = 18/159 (11%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           +  +LN+VIL+GNL  DPD+R+T  G  +V + +A ++  +     +  E+T +  V  +
Sbjct: 124 LRRALNQVILMGNLTRDPDLRYTPQGTAVVRLGLAVNERRR----GQEEERTHFLEVQAW 179

Query: 61  SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGE 120
            E         LRKG  + + G L    W   SG  R+ T +    +           G 
Sbjct: 180 RE--LAEWASELRKGDGLLVIGRLVNDSWTSSSGERRFQTRVEALRLERPTRGPAQAGGS 237

Query: 121 EQRSEQHSNNLKENVVGNRYSSPREESVFSDELDDEIPF 159
              + Q                  +E +     ++++PF
Sbjct: 238 RPPTVQTG------------GVDIDEGLEDFPPEEDLPF 264


>1x3e_A Single-strand binding protein; oligonucleotide binding fold,
           DNA-binding protein, DNA binding protein; 2.15A
           {Mycobacterium smegmatis} PDB: 1x3f_A 1x3g_A 1ue1_A
           1ue5_A 1ue6_A 1ue7_A
          Length = 165

 Score =  124 bits (312), Expect = 8e-30
 Identities = 39/164 (23%), Positives = 68/164 (41%), Gaps = 7/164 (4%)

Query: 3   ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE 62
           A    + ++GNL ADP++R T  G  + N  +A++    DR + E ++            
Sbjct: 2   AGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRMFDRQSGEWKDGEALFLRCNIWR 61

Query: 63  ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQ 122
           E    V + L +GS+V + G L+ R ++ + G  R   E+ +  +        +   +  
Sbjct: 62  EAAENVAESLTRGSRVIVTGRLKQRSFETREGEKRTVVEVEVDEIGPSLRYATAKVNKAS 121

Query: 123 RSEQHSNNLKENVVGNRYSSPREESVFS-------DELDDEIPF 159
           RS            G+R S P+++   S          DDE PF
Sbjct: 122 RSXXXXXXFGSGGGGSRQSEPKDDPWGSAPASGSFSGADDEPPF 165


>1qvc_A Single stranded DNA binding protein monomer; beta-barrel; 2.20A
           {Escherichia coli} SCOP: b.40.4.3 PDB: 1kaw_A 1eyg_A
           1sru_A
          Length = 145

 Score =  118 bits (298), Expect = 4e-28
 Identities = 62/116 (53%), Positives = 87/116 (75%), Gaps = 4/116 (3%)

Query: 4   SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEE 63
            +NKVIL+GNLG DP+VR+  +G  + NI +ATS+SW+D+ T E +E+TEWH V++F  +
Sbjct: 4   GVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFG-K 62

Query: 64  LCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMR---SMVMLDGRRDS 116
           L  +  +YLRKGS+VYIEG L+TRKW DQSG +RYTTE+++    +M ML GR+  
Sbjct: 63  LAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGG 118


>3koj_A Uncharacterized protein YCF41; single-strand binding protein
           family, PF00436, SNR59A, NESG, structural genomics,
           PSI-2; 1.90A {Synechococcus elongatus pcc 6301}
          Length = 108

 Score =  114 bits (287), Expect = 9e-27
 Identities = 18/106 (16%), Positives = 39/106 (36%), Gaps = 9/106 (8%)

Query: 3   ASLNKVILIGNLGADPDVRHTQDGRKIV-NIRIATSDSWKDRVTNERREKTEWHSVIVFS 61
           + +N  IL   +   P +R+ QD +  V  + +               +      V+ + 
Sbjct: 9   SHMNSCILQATVVEAPQLRYAQDNQTPVAEMVVQFPGLSSK-------DAPARLKVVGWG 61

Query: 62  EELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSM 107
             + + ++   R   +V +EG L+        GN    TE+ +  +
Sbjct: 62  A-VAQELQDRCRLNDEVVLEGRLRINSLLKPDGNREKQTELTVTRV 106


>3ull_A DNA binding protein; DNA replication, mitochondrion, transit
           peptide; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3
           PDB: 1s3o_A* 2dud_A
          Length = 132

 Score =  108 bits (270), Expect = 8e-25
 Identities = 34/123 (27%), Positives = 64/123 (52%), Gaps = 5/123 (4%)

Query: 1   MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNE-----RREKTEWH 55
           +  SLN+V L+G +G DP +R  +    +    +AT++ W+   +         +KT WH
Sbjct: 10  LERSLNRVHLLGRVGQDPVLRQVEGKNPVTIFSLATNEMWRSGDSEVYQLGDVSQKTTWH 69

Query: 56  SVIVFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRD 115
            + VF   L  +  QY++KGS++Y+EG +   ++ D++   R  T II  +++ L  +  
Sbjct: 70  RISVFRPGLRDVAYQYVKKGSRIYLEGKIDYGEYMDKNNVRRQATTIIADNIIFLSDQTK 129

Query: 116 SLQ 118
             +
Sbjct: 130 EKE 132


>1z9f_A Single-strand binding protein; TM0604, single stranded DNA-binding
           protein, structural genomics, joint center for
           structural genomics, JCSG; 2.30A {Thermotoga maritima}
          Length = 153

 Score =  106 bits (266), Expect = 2e-24
 Identities = 38/157 (24%), Positives = 60/157 (38%), Gaps = 17/157 (10%)

Query: 3   ASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSE 62
           +  NK+ILIG L  DP+ R+T  G  +    IA     +         +T     IV   
Sbjct: 14  SFFNKIILIGRLVRDPEERYTLSGTPVTTFTIAVDRVPRK--NAPDDAQTTDFFRIVTFG 71

Query: 63  ELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQ 122
            L      YL KG  V +EG ++ R+W+  +G  R + E++   +  +D +      E +
Sbjct: 72  RLAEFARTYLTKGRLVLVEGEMRMRRWETPTGEKRVSPEVVANVVRFMDRKPAETVSETE 131

Query: 123 RSEQHSNNLKENVVGNRYSSPREESVFSDELDDEIPF 159
                               P E+       +DE PF
Sbjct: 132 EE---------------LEIPEEDFSSDTFSEDEPPF 153


>2vw9_A Single-stranded DNA binding protein; DNA replication,
           single-stranded DNA, single-stranded DNA binding
           protein, oligonucleotide/oligosaccharide binding fold,
           OB-fold; 2.30A {Helicobacter pylori}
          Length = 134

 Score = 97.6 bits (242), Expect = 1e-21
 Identities = 36/126 (28%), Positives = 55/126 (43%), Gaps = 2/126 (1%)

Query: 5   LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEEL 64
            NKVI++G L  + ++++   G     I +ATS  +K +      E+  +    +F    
Sbjct: 2   FNKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFKKQ-DGTLGEEVCFIDARLF-GRT 59

Query: 65  CRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQRS 124
             I  QYL KGS V IEG L    W DQ+G       I   S+  +D + D+ Q    + 
Sbjct: 60  AEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKSDNPQANAMQD 119

Query: 125 EQHSNN 130
                N
Sbjct: 120 SIMHEN 125


>1v1q_A Primosomal replication protein N; primosome, DNA replication, DNA
           binding; 2.1A {Escherichia coli} SCOP: b.40.4.3 PDB:
           2ccz_A
          Length = 134

 Score = 87.7 bits (217), Expect = 1e-18
 Identities = 13/110 (11%), Positives = 42/110 (38%), Gaps = 7/110 (6%)

Query: 4   SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEE 63
             N+++L G +   P  + +  G       +      ++     R+   +   ++  S  
Sbjct: 18  MTNRLVLSGTVCRAPLRKVSPSGIPHCQFVLEHRSVQEEA-GFHRQAWCQMPVIV--SGH 74

Query: 64  LCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGR 113
             + +   +  GS++ ++G +   K ++  G ++    +    + ++D  
Sbjct: 75  ENQAITHSITVGSRITVQGFISCHKAKN--GLSKM--VLHAEQIELIDSV 120


>1txy_A Primosomal replication protein N; OB fold, dimer, DNA binding
           protein; 2.00A {Escherichia coli} SCOP: b.40.4.3 PDB:
           1woc_A 2pnh_A
          Length = 104

 Score = 86.9 bits (215), Expect = 2e-18
 Identities = 12/107 (11%), Positives = 39/107 (36%), Gaps = 7/107 (6%)

Query: 5   LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEEL 64
            N+++L G +   P  + +  G       +      ++     R+   +   ++  S   
Sbjct: 2   TNRLVLSGTVCRAPLRKVSPSGIPHCQFVLEHRSVQEEA-GFHRQAWCQMPVIV--SGHE 58

Query: 65  CRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLD 111
            + +   +  GS++ ++G +   K ++          +    + ++D
Sbjct: 59  NQAITHSITVGSRITVQGFISCHKAKNGLS----KMVLHAEQIELID 101


>3k8a_A Putative primosomal replication protein; beta-barrel, OB-fold,
          DNA binding protein; 2.70A {Neisseria gonorrhoeae fa
          1090}
          Length = 103

 Score = 83.4 bits (206), Expect = 2e-17
 Identities = 12/93 (12%), Positives = 30/93 (32%), Gaps = 5/93 (5%)

Query: 1  MVASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVF 60
           +   N V L   +     +R+T  G  +++I +      ++    ++          + 
Sbjct: 3  HMGFTNLVSLAALIEKAFPIRYTPAGIPVLDIILKHESWQEEN--GQQCLVQLEIPARIL 60

Query: 61 SEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQS 93
            +         R+G    +EG L  +  +   
Sbjct: 61 GRQAEEW---QYRQGDCATVEGFLAQKSRRSLM 90


>3en2_A Probable primosomal replication protein N; PRIB RSR213C NESG
          X-RAY Q8XZT7 Q8XZT7_ralso, structural genomics, PSI-2;
          2.30A {Ralstonia solanacearum}
          Length = 101

 Score = 79.6 bits (196), Expect = 3e-16
 Identities = 14/91 (15%), Positives = 34/91 (37%), Gaps = 4/91 (4%)

Query: 4  SLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEE 63
          ++N++ L+  L     +R+T  G  IVN  ++ S    +      R+       +   + 
Sbjct: 1  AINRLQLVATLVEREVMRYTPAGVPIVNCLLSYSGQAMEA--QAARQVEFSIEALGAGKM 58

Query: 64 LCRIVEQYLRKGSKVYIEGSLQTRKWQDQSG 94
             +    +  G+ +   G L  +    ++ 
Sbjct: 59 ASVL--DRIAPGTVLECVGFLARKHRSSKAL 87


>3fhw_A Primosomal replication protein N; PRIB BPR162 X-RAY NESG,
          structural genomics, PSI-2, protein structure
          initiative; 1.90A {Bordetella parapertussis} PDB:
          3dm4_A 3klw_A
          Length = 115

 Score = 75.4 bits (185), Expect = 6e-15
 Identities = 12/90 (13%), Positives = 30/90 (33%), Gaps = 4/90 (4%)

Query: 5  LNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEEL 64
          +N + L   +     +RHT  G   + + +       +      R      S +    +L
Sbjct: 1  MNTLELSARVLECGAMRHTPAGLPALELLLVHESEVVEA--GHPRRVELTISAVALG-DL 57

Query: 65 CRIVEQYLRKGSKVYIEGSLQTRKWQDQSG 94
            ++      G+++ ++G L   +      
Sbjct: 58 ALLL-ADTPLGTEMQVQGFLAPARKDSVKV 86


>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 = 41.1 bits (96), Expect = 1e-04
 Identities = 41/221 (18%), Positives = 67/221 (30%), Gaps = 101/221 (45%)

Query: 10  LIG------------NLGADP-DVR--------HTQDGRKIVNIRIATSDSWK------- 41
           LIG             LG  P ++R        H+Q G  +  + IA +DSW+       
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ-G-LVTAVAIAETDSWESFFVSVR 297

Query: 42  ----------------------------DRVTNERREKTEWHSVIVFS-EELCRIVEQ-- 70
                                       D + N     +   S+   + E++   V +  
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357

Query: 71  -YLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGEEQ--RSEQH 127
            +L  G +V I  SL          N         +++V + G   SL G     R  + 
Sbjct: 358 SHLPAGKQVEI--SLV---------NGA-------KNLV-VSGPPQSLYGLNLTLRKAKA 398

Query: 128 SNNLKEN---------VVGNRY---SSPREESVF-SDELDD 155
            + L ++            NR+   +SP     F S  L  
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPVASP-----FHSHLLVP 434



 Score = 28.0 bits (62), Expect = 0.97
 Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 39/102 (38%)

Query: 18  PDVRHTQDGRKIVNIRIATSDSWKDR----VTNERREKTEW---------HSVIVF---- 60
           P V  T DG    ++R   S S  +R    +    R   +W         H ++ F    
Sbjct: 458 P-VYDTFDGS---DLR-VLSGSISERIVDCII---RLPVKWETTTQFKATH-ILDFGPGG 508

Query: 61  SEELC----RIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRY 98
           +  L     R  +     G +V + G+L      D + ++ Y
Sbjct: 509 ASGLGVLTHRNKDG---TGVRVIVAGTL------DINPDDDY 541


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 32.2 bits (72), Expect = 0.049
 Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 7/72 (9%)

Query: 87  RKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQGE-EQRSEQHSNNLKENVVGNRYSSPRE 145
           RKW+++    +   E+   S VM    R+  + + E+ +++ S  +++N + NR +    
Sbjct: 88  RKWREE--QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA---- 141

Query: 146 ESVFSDELDDEI 157
           +  F  + D +I
Sbjct: 142 DKAFYQQPDADI 153


>1pn2_A Peroxisomal hydratase-dehydrogenase-epimerase; hot-DOG fold,
           hydratase 2 motif, lyase; 1.95A {Candida tropicalis}
           SCOP: d.38.1.4 d.38.1.4 PDB: 1pn4_A*
          Length = 280

 Score = 30.0 bits (67), Expect = 0.22
 Identities = 9/65 (13%), Positives = 25/65 (38%)

Query: 59  VFSEELCRIVEQYLRKGSKVYIEGSLQTRKWQDQSGNNRYTTEIIMRSMVMLDGRRDSLQ 118
              ++     E   R    V+   +L+   W++      + T ++ R  + ++     L 
Sbjct: 215 ALIDKFGMFNEIKARFTGIVFPGETLRVLAWKESDDTIVFQTHVVDRGTIAINNAAIKLV 274

Query: 119 GEEQR 123
           G++ +
Sbjct: 275 GDKAK 279


>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 = 27.1 bits (59), Expect = 1.7
 Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 8/83 (9%)

Query: 16   ADPDVRHTQDGRKIVNIRIATSDSWKDRVTNERREKTEWHSVIVFSEELCRIVEQYLRKG 75
            A P++      R++V  R A    W   V NE  E  +  +  + SE+     E  L + 
Sbjct: 1240 ASPNLNMKYRKRQLVT-REAQIKDW---VENEL-EALKLEAEEIPSEDQN---EFLLERT 1291

Query: 76   SKVYIEGSLQTRKWQDQSGNNRY 98
             +++ E   Q R  Q Q GN+ Y
Sbjct: 1292 REIHNEAESQLRAAQQQWGNDFY 1314


>3mz2_A Glycerophosphoryl diester phosphodiesterase; structural genomics,
          joint center for structural genomics; HET: MSE PE4;
          1.55A {Parabacteroides distasonis}
          Length = 292

 Score = 25.5 bits (55), Expect = 5.1
 Identities = 7/45 (15%), Positives = 16/45 (35%), Gaps = 5/45 (11%)

Query: 2  VASLNKVILIGNLGADPDVRHTQDGRKIVNIRIATSDSWKDRVTN 46
          + +    +       + D R T+D   ++       D   +R +N
Sbjct: 50 METFENTLSYTPATFEIDPRLTKDSVIVLF-----HDDTLERTSN 89


>1nv8_A HEMK protein; class I adoMet-dependent methyltransferase; HET: SAM
           MEQ; 2.20A {Thermotoga maritima} SCOP: c.66.1.30 PDB:
           1nv9_A* 1vq1_A* 1sg9_A*
          Length = 284

 Score = 25.3 bits (55), Expect = 5.7
 Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 11/50 (22%)

Query: 62  EELCRIVEQYLRKGSKVYIE-GSLQTRK----------WQDQSGNNRYTT 100
           +       +Y   G  V +E G  Q  +           +D +G  R+  
Sbjct: 229 DFYREFFGRYDTSGKIVLMEIGEDQVEELKKIVSDTVFLKDSAGKYRFLL 278


  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
   0.314    0.131    0.371 

Gapped
Lambda     K      H
   0.267   0.0511    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,354,748
Number of extensions: 57481
Number of successful extensions: 185
Number of sequences better than 10.0: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 30
Length of query: 159
Length of database: 5,693,230
Length adjustment: 85
Effective length of query: 74
Effective length of database: 3,632,490
Effective search space: 268804260
Effective search space used: 268804260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.7 bits)