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)