Query gi|254780390|ref|YP_003064803.1| nucleoside diphosphate kinase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 140 No_of_seqs 116 out of 2106 Neff 6.2 Searched_HMMs 39220 Date Sun May 29 16:49:06 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780390.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PTZ00093 nucleoside diphosphat 100.0 0 0 370.3 11.6 138 2-139 1-138 (149) 2 smart00562 NDK These are enzym 100.0 0 0 361.0 12.0 135 4-138 1-135 (135) 3 pfam00334 NDK Nucleoside dipho 100.0 0 0 360.0 12.0 135 4-138 1-135 (135) 4 PRK00668 ndk nucleoside diphos 100.0 0 0 353.9 12.1 131 3-133 1-131 (131) 5 cd04413 NDPk_I Nucleoside diph 100.0 0 0 351.9 12.0 130 4-133 1-130 (130) 6 COG0105 Ndk Nucleoside diphosp 100.0 0 0 351.5 10.5 135 2-136 1-135 (135) 7 cd04414 NDPk6 Nucleoside dipho 100.0 0 0 348.3 11.6 131 4-134 1-135 (135) 8 cd04418 NDPk5 Nucleoside dipho 100.0 0 0 346.2 11.1 129 4-134 1-132 (132) 9 cd00595 NDPk Nucleoside diphos 100.0 0 0 343.9 11.3 130 4-133 1-133 (133) 10 cd04412 NDPk7B Nucleoside diph 100.0 0 0 340.2 12.0 130 4-133 1-134 (134) 11 cd04416 NDPk_TX NDP kinase dom 100.0 0 0 339.8 11.8 129 4-133 1-132 (132) 12 cd04415 NDPk7A Nucleoside diph 100.0 0 0 339.6 11.8 128 4-133 1-131 (131) 13 KOG0888 consensus 100.0 0 0 316.3 7.6 137 3-139 5-144 (156) 14 pfam04339 DUF482 Protein of un 83.1 0.54 1.4E-05 27.3 1.2 78 25-110 193-283 (370) 15 KOG2562 consensus 54.8 21 0.00053 18.0 4.7 75 19-97 308-412 (493) 16 TIGR01458 HAD-SF-IIA-hyp3 HAD- 40.4 35 0.0009 16.7 4.5 75 20-95 52-139 (258) 17 cd06355 PBP1_FmdD_like Peripla 35.9 40 0.001 16.3 3.0 71 5-87 134-206 (348) 18 COG3885 Uncharacterized conser 35.8 42 0.0011 16.2 3.5 53 5-57 40-97 (261) 19 TIGR03407 urea_ABC_UrtA urea A 28.4 48 0.0012 15.9 2.4 73 5-89 135-212 (359) 20 PRK13054 lipid kinase; Reviewe 27.4 58 0.0015 15.4 3.1 105 1-109 1-127 (299) 21 pfam07576 BRAP2 BRCA1-associat 27.2 45 0.0011 16.1 2.1 53 5-59 14-79 (110) 22 PRK09371 gas vesicle synthesis 25.8 53 0.0013 15.6 2.2 29 1-37 1-29 (72) 23 pfam09554 RE_HaeII HaeII restr 25.7 23 0.00059 17.7 0.4 95 24-138 221-326 (338) 24 COG2846 Regulator of cell morp 25.4 18 0.00045 18.4 -0.3 64 67-135 149-216 (221) 25 COG2247 LytB Putative cell wal 21.4 76 0.0019 14.7 2.6 15 22-36 91-105 (337) 26 TIGR02287 PaaY phenylacetic ac 20.1 31 0.0008 17.0 0.1 10 101-110 39-48 (193) No 1 >PTZ00093 nucleoside diphosphate kinase; Provisional Probab=100.00 E-value=0 Score=370.32 Aligned_cols=138 Identities=43% Similarity=0.784 Sum_probs=136.1 Q ss_pred CCCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCC Q ss_conf 63102304552377189879999999725558921001126999999998885147421001221001115771111640 Q gi|254780390|r 2 VIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEE 81 (140) Q Consensus 2 ~~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~n 81 (140) +.||||+||||||++++++|+|+++|+++||+|+++|++++|+++|++||++|+|||||++|++||+||||+||+|+|+| T Consensus 1 ~tErTl~iIKPDav~~~l~g~Ii~~i~~~Gf~I~~~k~~~lt~e~a~~fY~~h~gkpff~~Lv~~mtSGPvvalvleg~n 80 (149) T PTZ00093 1 SSERTFIMVKPDGVQRGLVGEIIKRFEKKGYKLVALKFLQPTTEQAEEHYKEHKSKPFFPGLVSYISSGPVVCMVWEGKN 80 (149) T ss_pred CCCEEEEEECCCHHHCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCC T ss_conf 97048999891154048879999999987998999874258999999999997188328889998678987999962788 Q ss_pred HHHHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHHHCC Q ss_conf 1789996618899777689970001011522100440699899999998726856506 Q gi|254780390|r 82 AISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARNEII 139 (140) Q Consensus 82 aV~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ei~ 139 (140) ||+.||+|||||||.+|+|+||||+||.+.++|+||||||+|+|+|||+|||+++||+ T Consensus 81 aI~~~R~l~GpT~p~~a~p~tIR~~fg~~~~~N~vH~SDs~e~A~rEi~~fF~~~ei~ 138 (149) T PTZ00093 81 VVKSGRVLLGATNPADSAPGTIRGDFGVDVGRNVIHGSDSVESANREIALWFKPEELV 138 (149) T ss_pred HHHHHHHHHCCCCCCCCCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHCCCCCCEE T ss_conf 8999999858999676899882888566657618578999999999999718924313 No 2 >smart00562 NDK These are enzymes that catalyze nonsubstrate specific conversions of nucleoside diphosphates to nucleoside triphosphates. These enzymes play important roles in bacterial growth, signal transduction and pathogenicity. Probab=100.00 E-value=0 Score=361.00 Aligned_cols=135 Identities=48% Similarity=0.829 Sum_probs=133.7 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||++++++|+|+++|+++||+|+++|++++|+++|++||++|++||||++|++||+||||+||+|+|+||| T Consensus 1 E~Tl~iIKPdav~~~~~g~Ii~~i~~~Gf~I~~~k~~~lt~~~a~~fY~~~~~kpff~~Lv~~m~sGp~~alvl~g~naV 80 (135) T smart00562 1 ERTLAIIKPDAVQRGLIGEIISRFERKGFKIVAMKMLQLTEELAEEFYAEHKGKPFFNDLVEFMTSGPVVAMVLEGEDAV 80 (135) T ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 90699989326524788999999998699883413024899999999998844654275766434798799998569999 Q ss_pred HHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHHHC Q ss_conf 8999661889977768997000101152210044069989999999872685650 Q gi|254780390|r 84 SKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARNEI 138 (140) Q Consensus 84 ~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ei 138 (140) ++||+|||||||++|+|+||||+||.+.++|+||||||+++|+||++||||++|+ T Consensus 81 ~~~R~l~Gpt~p~~a~p~siR~~fg~~~~~N~vHgSds~e~A~~Ei~~fF~~~e~ 135 (135) T smart00562 81 KTWRTLMGPTDPREAAPGTIRGDFGLDIGRNAVHGSDSPESAEREIALFFPESEI 135 (135) T ss_pred HHHHHHHCCCCHHHCCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHCCCCCCC T ss_conf 9999987889933448873578746775545957889999999999854991009 No 3 >pfam00334 NDK Nucleoside diphosphate kinase. Probab=100.00 E-value=0 Score=359.99 Aligned_cols=135 Identities=50% Similarity=0.824 Sum_probs=133.6 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||++++++|+||++|+++||+|+++|++++|+++|++||++|+|||||++|++||+||||+||+|+|+||| T Consensus 1 E~Tl~iIKPdav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~~~a~~fY~~~~~k~ff~~lv~~mtSGpv~alvl~g~naV 80 (135) T pfam00334 1 ERTLVIIKPDAVQRGLIGEIISRFEKKGFKIVALKMLQLTREQAEEHYAEHKGKPFFPGLVEFMTSGPVVAMVLEGENAV 80 (135) T ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 90699989505512788999999998699999864134899999999999843642077887652798699999659989 Q ss_pred HHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHHHC Q ss_conf 8999661889977768997000101152210044069989999999872685650 Q gi|254780390|r 84 SKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARNEI 138 (140) Q Consensus 84 ~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ei 138 (140) .+||+|+|||||.+|+|+||||+||.+.++|++|||||+++|+||++||||++|+ T Consensus 81 ~~~R~l~Gptdp~~A~P~siR~~fg~~~~~N~vHgSds~e~A~~Ei~~fF~~~e~ 135 (135) T pfam00334 81 AVVRELMGATNPAEAAPGTIRGDFAVSIGRNAVHGSDSPESAEREIALFFPEEEI 135 (135) T ss_pred HHHHHHCCCCCHHHCCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHCCCCCCC T ss_conf 9999871899810168742678856775654857789999999999963992009 No 4 >PRK00668 ndk nucleoside diphosphate kinase; Validated Probab=100.00 E-value=0 Score=353.85 Aligned_cols=131 Identities=59% Similarity=0.960 Sum_probs=130.2 Q ss_pred CCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCH Q ss_conf 31023045523771898799999997255589210011269999999988851474210012210011157711116401 Q gi|254780390|r 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEA 82 (140) Q Consensus 3 ~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~na 82 (140) ||+||+||||||++++++|+|+++|+++||+|+++|++++|+++|++||++|++||||++|++||+||||+||+|+|+|| T Consensus 1 ~E~Tl~iIKPdav~~~~~g~Ii~~i~~~Gf~I~~~k~~~lt~e~a~~~Y~~~~~k~ff~~lv~~m~sgpv~al~l~g~na 80 (131) T PRK00668 1 IERTFSIIKPDAVKRNLIGEILARFERAGLKIVAAKMVHLSREEAEGFYAEHKGKPFFGELVEFMTSGPVVVQVLEGENA 80 (131) T ss_pred CCEEEEEECCHHHCCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCEEEEEEECCCH T ss_conf 94359998950440488899999999879989884302599999999999983487537677753579879999856998 Q ss_pred HHHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 789996618899777689970001011522100440699899999998726 Q gi|254780390|r 83 ISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 83 V~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) |++||+|+|||||++|+|+||||+||.+.++|+||||||+++|+||++||| T Consensus 81 V~~~R~liGptdp~~A~p~siR~~yg~~~~~N~vHgSds~e~A~rEi~~fF 131 (131) T PRK00668 81 IARNRDLMGATNPAEAAPGTIRGDFALSIGENSVHGSDSPESAAREIAYFF 131 (131) T ss_pred HHHHHHHHCCCCHHHCCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 999999877898212588545677467656408678899999999998539 No 5 >cd04413 NDPk_I Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside triphosphate (NTP) donor onto a nucleoside diphosphate (NDP) acceptor through a phosphohistidine intermediate. The mammalian nm23/NDP kinase gene family can be divided into two distinct groups. The group I genes encode proteins that generally have highly homologous counterparts in other organisms and possess the classic enzymatic activity of a kinase. This group includes vertebrate NDP kinases A-D (Nm23- H1 to -H4), and its counterparts in bacteria, archea and other eukaryotes. NDP kinases exist in two different quaternary structures; all known eukaryotic enzymes are hexamers, while some bacterial enzymes are tetramers, as in Myxococcus. They possess the NDP kinase active site motif (NXXH[G/A]SD) and the nine residues that Probab=100.00 E-value=0 Score=351.87 Aligned_cols=130 Identities=49% Similarity=0.843 Sum_probs=129.3 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||++++++|+|+++|+++||+|+++|++++|+++|++||.+|++||||++|++||+||||+||+|+|+||| T Consensus 1 E~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~~~a~~fY~~~~~kpff~~lv~~m~sGpv~a~~l~g~naV 80 (130) T cd04413 1 ERTLVIIKPDGVQRGLIGEIISRFERKGLKIVALKMLQLTEELAEEHYAEHKGKPFFPELVEFMTSGPVVAMVLEGENAV 80 (130) T ss_pred CCEEEEECCHHHCCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 90699989405403778999999998699880301056999999999988539715475766643798799998659989 Q ss_pred HHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 89996618899777689970001011522100440699899999998726 Q gi|254780390|r 84 SKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 84 ~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) ++||++||||||++|+|+||||+||.+.++|+||||||+++|+||++||| T Consensus 81 ~~~R~l~Gptdp~~A~p~siR~~fg~~~~~NavHgSDs~e~A~~Ei~~fF 130 (130) T cd04413 81 KTVRKLMGATNPADAAPGTIRGDFALSIGRNIVHGSDSVESAEREIALWF 130 (130) T ss_pred HHHHHHHCCCCHHHCCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 99998828999555697314677378756479478899999999998649 No 6 >COG0105 Ndk Nucleoside diphosphate kinase [Nucleotide transport and metabolism] Probab=100.00 E-value=0 Score=351.55 Aligned_cols=135 Identities=50% Similarity=0.810 Sum_probs=133.0 Q ss_pred CCCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCC Q ss_conf 63102304552377189879999999725558921001126999999998885147421001221001115771111640 Q gi|254780390|r 2 VIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEE 81 (140) Q Consensus 2 ~~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~n 81 (140) +|||||+|||||+|+|+++|+|+.+|+++||+|+++|++++++++|++||++|++||||++|++||+|||+++|+|+|+| T Consensus 1 ~~erT~~iiKPDaV~R~LIG~IisrfE~~Glkiva~K~~~~~~e~Ae~~Y~~h~~kpFf~~Lv~fitSgPvv~~VleGe~ 80 (135) T COG0105 1 AMERTLSIIKPDAVKRGLIGEIISRFEKKGLKIVALKMVQLSRELAENHYAEHKGKPFFGELVEFITSGPVVAMVLEGEN 80 (135) T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCCCHHHHHHEECCCEEEEEEECHH T ss_conf 96158998884266542189999999977988876440204799997778987678752877862312658999985276 Q ss_pred HHHHHHHHCCCCCHHHCCCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHH Q ss_conf 1789996618899777689970001011522100440699899999998726856 Q gi|254780390|r 82 AISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARN 136 (140) Q Consensus 82 aV~~~R~l~Gptdp~~a~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ 136 (140) ||+.||+++|+|||.+|+|||||++|+.+..+|+||||||+|+|+|||+|||++. T Consensus 81 ai~~~R~l~GaTnp~~A~pGTIRgdfa~~~~~N~vHgSDs~esA~rEIa~~F~~~ 135 (135) T COG0105 81 AISVVRKLMGATNPANAAPGTIRGDFALSVGENVVHGSDSPESAEREIALFFSKS 135 (135) T ss_pred HHHHHHHHHCCCCCCCCCCCEEEEEHHCCCCCCEEECCCCHHHHHHHHHHCCCCC T ss_conf 9999999977998121799827623201467665773399788867765106799 No 7 >cd04414 NDPk6 Nucleoside diphosphate kinase 6 (NDP kinase 6, NDPk6, NM23-H6; NME6; Inhibitor of p53-induced apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding NDPk6 is expressed mainly in mitochondria, but also found at a lower level in most tissues. NDPk6 has all nine residues considered crucial for enzyme structure and activity, and has been found to have NDP kinase activity. It may play a role in cell growth and cell cycle progression. The nm23-H6 gene locus has been implicated in a variety of malignant tumors. Probab=100.00 E-value=0 Score=348.30 Aligned_cols=131 Identities=36% Similarity=0.519 Sum_probs=126.3 Q ss_pred CEEEEEECCHHHHCCCHH-HHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCH Q ss_conf 102304552377189879-9999997255589210011269999999988851474210012210011157711116401 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIG-SIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEA 82 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g-~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~na 82 (140) |+||+||||||+++++++ .|+++|+++||+|+++|++++|+++|++||++|+|||||++|++||+||||+||+|+|+|| T Consensus 1 q~Tl~iIKPDav~~~l~~~~I~~~i~~~Gf~I~~~k~~~ls~e~a~~~Y~~~~gk~ff~~Lv~~mtsGPv~a~vl~g~na 80 (135) T cd04414 1 QLTLALIKPDAVAHPLALEAVRQLILSNGFTIVRKKELRWTTEDAERFYAEHKGKFFYDRLVSFMTSGPSWALILAHENA 80 (135) T ss_pred CEEEEEECHHHHHCCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCCH T ss_conf 94899989148656983589999999879989752522389999999999975987588999996779879999836769 Q ss_pred HHHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCC Q ss_conf 7899966188997776---899700010115221004406998999999987268 Q gi|254780390|r 83 ISKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFA 134 (140) Q Consensus 83 V~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~ 134 (140) |++||+++|||||.+| +|+||||+||++.++|++|||||+|+|+|||+|||| T Consensus 81 V~~~R~l~Gptdp~~a~~~~P~tIR~~fg~~~~~N~vHgSds~e~A~rEi~~fFP 135 (135) T cd04414 81 IKTWRALMGPTKVFRARASAPDSIRGLYGLTDTRNATHGSDSPASAQREIALFFP 135 (135) T ss_pred HHHHHHHHCCCCCCHHHHHCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHCCC T ss_conf 9999997189995413450899719984787766084388999999999984198 No 8 >cd04418 NDPk5 Nucleoside diphosphate kinase homolog 5 (NDP kinase homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is almost exclusively found in testis, especially in the flagella of spermatids and spermatozoa, in association with axoneme microtubules, and may play a role in spermatogenesis by increasing the ability of late-stage spermatids to eliminate reactive oxygen species. It belongs to the nm23 Group II genes and appears to differ from the other human NDPks in that it lacks two important catalytic site residues, and thus does not appear to possess NDP kinase activity. NDPk5 confers protection from cell death by Bax and alters the cellular levels of several antioxidant enzymes, including glutathione peroxidase 5 (Gpx5). Probab=100.00 E-value=0 Score=346.17 Aligned_cols=129 Identities=37% Similarity=0.580 Sum_probs=126.4 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||+++ .|+|+++|+++||+|+++|++++|+++|++||++|+|||||++|++||+||||+||+|+|+||| T Consensus 1 ErTl~iIKPDav~~--~g~Il~~i~~~Gf~I~~~k~~~lt~~~a~~~Y~~~~gk~ff~~Lv~~mtSGPvvalvl~g~~aV 78 (132) T cd04418 1 ERTLAIIKPDAVHK--AEEIEDIILESGFTIVQKRKLQLSPEQCSDFYAEHYGKMFFPHLVAYMSSGPIVAMVLARHNAI 78 (132) T ss_pred CCEEEEECCCHHCC--CCHHHHHHHHCCCEEEEHHHHCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 92799989205335--0399999998699990021205999999999999879874787743014788799997166799 Q ss_pred HHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCC Q ss_conf 899966188997776---899700010115221004406998999999987268 Q gi|254780390|r 84 SKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFA 134 (140) Q Consensus 84 ~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~ 134 (140) +.||+|||||||.+| .|+||||+||++.++|+||||||+|+|+|||+|||| T Consensus 79 ~~~R~l~Gpt~p~~A~~~~P~siR~~fg~~~~~N~vH~Sds~e~A~~Ei~~fFP 132 (132) T cd04418 79 SYWKELLGPTNSLKAKETHPDSLRAIYGTDDLRNAVHGSDSFSSAEREIRFMFP 132 (132) T ss_pred HHHHHHHCCCCCHHHHHHCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHCCC T ss_conf 999998688992555663799859983899776795888999999999973097 No 9 >cd00595 NDPk Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are vital for DNA/RNA synthesis, cell division, macromolecular metabolism and growth. The enzymes generate NTPs or their deoxy derivatives by terminal (gamma) phosphotransfer from an NTP such as ATP or GTP to any nucleoside diphosphate (NDP) or its deoxy derivative. The sequence of NDPk has been highly conserved through evolution. There is a single histidine residue conserved in all known NDK isozymes, which is involved in the catalytic mechanism. The first confirmed metastasis suppressor gene was the NDP kinase protein encoded by the nm23 gene. Unicellular organisms generally possess only one gene encoding NDP kinase, while most multicellular organisms possess not only an ortholog that provides most of the NDP kinase enzymatic a Probab=100.00 E-value=0 Score=343.86 Aligned_cols=130 Identities=45% Similarity=0.806 Sum_probs=128.3 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||++++++|+|+++|+++||+|+++|++++|+++|++||.+|+|||||++|++||+||||++|+|+|+||| T Consensus 1 ErTl~iIKPdav~~~~~g~Ii~~i~~~Gf~I~~~k~~~lt~~~a~~~Y~~~~~k~ff~~lv~~mtsGpv~~lvl~g~naV 80 (133) T cd00595 1 ERTLALIKPDAVAEGLLGEIIMRIEDAGFEIVAMKELHLTEEQAEEFYVEHKGRPFFPDLVQFMSSGPVVAMILEKDNAV 80 (133) T ss_pred CCEEEEECCCHHCCCCHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHHCCCHHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 91799989315405889999999998799899875022889999999999846341778999963798499998427699 Q ss_pred HHHHHHCCCCCHHHCC---CCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 8999661889977768---9970001011522100440699899999998726 Q gi|254780390|r 84 SKNREVMGDTDPKKAL---KGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 84 ~~~R~l~Gptdp~~a~---p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) ++||+|+|||||.+|. |+||||+||++.++|++|||||+++|+||++||| T Consensus 81 ~~~R~l~Gpt~p~~A~~~~P~siR~~yg~~~~~N~vHgSds~e~A~~Ei~~fF 133 (133) T cd00595 81 GEWREMLGPTNPEIARHLAPGSLRADFGTDVLRNAVHGSDSVESAAREIAFFF 133 (133) T ss_pred HHHHHHHCCCCHHHHHHHCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 99998738998278887589865777367777608447899999999998529 No 10 >cd04412 NDPk7B Nucleoside diphosphate kinase 7 domain B (NDPk7B): The nm23-H7 class of nucleoside diphosphate kinase (NDPk7) consists of an N-terminal DM10 domain and two functional catalytic NDPk modules, NDPk7A and NDPk7B. The function of the DM10 domain, which also occurs in multiple copies in other proteins, is unknown. NDPk7 is predominantly expressed in testes, although appreciable amount are also found in liver, heart, brain, ovary, small intestine and spleen. The nm23-H7 gene is located in or near the hereditary prostrate cancer susceptibility locus. Nm23-H7 may be involved in the development of colon and gastric carcinoma, the latter possibly in a type-specific manner. Probab=100.00 E-value=0 Score=340.20 Aligned_cols=130 Identities=32% Similarity=0.539 Sum_probs=127.6 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCC-CCCCCHHHHHCCCCCEEEEECCCCCH Q ss_conf 10230455237718987999999972555892100112699999999888514-74210012210011157711116401 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKD-RPFFPELVQAMISGPVFLQVLKGEEA 82 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~-k~ff~~lv~~m~sGpv~alvl~g~na 82 (140) +.||+|||||||+++++|+|+++|+++||+|+++|++++|+++|++||++|++ +|||++|++||+||||+||+|+|+|| T Consensus 1 n~Tl~iIKPdav~~~~~g~Il~~i~~~Gf~I~~~k~~~lt~~~a~~fY~~~~~~~pff~~lv~~mtsGPvval~L~g~na 80 (134) T cd04412 1 NCTVCIIKPHAVSHGLLGEILQQILDEGFEITALQMFNLTRANAEEFLEVYKGVVPELPAMVDELTSGPCIALEIAGENA 80 (134) T ss_pred CCEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCCH T ss_conf 92799989035514889999999998699997614167999999999999706543177899997169878998607459 Q ss_pred HHHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 7899966188997776---89970001011522100440699899999998726 Q gi|254780390|r 83 ISKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 83 V~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) |++||+|||||||.+| +|+||||+||++.++|+||||||+++|+||++||| T Consensus 81 V~~~R~l~Gpt~p~~A~~~~P~siR~~yG~~~~~N~vHgSds~esA~rEi~~fF 134 (134) T cd04412 81 VKTFREFCGPFDPEIAKQLRPNTLRARYGKDKVQNAVHCTDLPEDGPLELKFFF 134 (134) T ss_pred HHHHHHHHCCCCHHHHHHHCCCCHHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 999999857998577666389965887577755518457899999999998529 No 11 >cd04416 NDPk_TX NDP kinase domain of thioredoxin domain-containing proteins (TXNDC3 and TXNDC6): Txl-2 (TXNDC6) and Sptrx-2 (TXNDC3) are fusion proteins of Group II N-terminal thioredoxin domains followed by one or three NDP kinase domains, respectively. Sptrx-2, which has a tissue specific distribution in human testis, has been considered as a member of the nm23 family (nm23-H8) and exhibits a high homology with sea urchin IC1 (intermediate chain-1) protein, a component of the sperm axonemal outer dynein arm complex. Txl-2 is mainly represented in close association with microtubules within tissues with cilia and flagella such as seminiferous epithelium (spermatids) and lung airway epithelium, suggesting possible role in control of microtubule stability and maintenance. Probab=100.00 E-value=0 Score=339.79 Aligned_cols=129 Identities=36% Similarity=0.622 Sum_probs=126.6 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) |+||+||||||++++ +|+|+++|+++||.|+++|++++|+++|++||++|+++|||++|++|||||||+||+|+|+||| T Consensus 1 E~Tl~iIKPDav~~~-~~~Ii~~i~~~Gf~I~~~k~~~lt~e~a~~fY~~h~~k~ff~~lv~~mtsGp~~~lvl~g~naV 79 (132) T cd04416 1 EYTLALIKPDAVAEK-KDEILEKIKEAGFEILAQKEMVLTEEQAREFYKEHEEEDYFEDLVEFMTSGPSLILVLSKENAV 79 (132) T ss_pred CEEEEEECCHHHHHC-HHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCEEEEEEECCCHH T ss_conf 928999890677618-7899999998799899987335899999999898648731888998870598499998368878 Q ss_pred HHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 899966188997776---89970001011522100440699899999998726 Q gi|254780390|r 84 SKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 84 ~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) ++||+|+|||||.+| .|+||||+||++.++|+||||||+++|+|||+||| T Consensus 80 ~~~R~l~Gptdp~~A~~~~P~siR~~fg~~~~~N~vH~SDs~e~A~rEi~~fF 132 (132) T cd04416 80 EEWRELMGPTDPEEAKEEKPDSLRAQFARDHLSNAVHGSSSAEEAEKEIDFFF 132 (132) T ss_pred HHHHHHHCCCCHHHHHHCCCCCCHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 99998748998578733699987888568867569588999999999998649 No 12 >cd04415 NDPk7A Nucleoside diphosphate kinase 7 domain A (NDPk7A): The nm23-H7 class of nucleoside diphosphate kinase (NDPk7) consists of an N-terminal DM10 domain and two functional catalytic NDPk modules, NDPk7A and NDPk7B. The function of the DM10 domain, which also occurs in multiple copies in other proteins, is unknown. NDPk7 is predominantly expressed in testes, although appreciable amount are also found in liver, heart, brain, ovary, small intestine and spleen. The nm23-H7 gene is located in or near the hereditary prostrate cancer susceptibility locus. Nm23-H7 may be involved in the development of colon and gastric carcinoma, the latter possibly in a type-specific manner. Probab=100.00 E-value=0 Score=339.58 Aligned_cols=128 Identities=42% Similarity=0.728 Sum_probs=126.0 Q ss_pred CEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCHH Q ss_conf 10230455237718987999999972555892100112699999999888514742100122100111577111164017 Q gi|254780390|r 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAI 83 (140) Q Consensus 4 e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~naV 83 (140) ||||+||||||+++ +|+|+++|+++||.|+++|++++|+++|++||++|+|||||+.|++||+||||+||+|+|+||| T Consensus 1 ErTl~iIKPda~~~--~g~Ii~~i~~~Gf~I~~~k~~~lt~~~a~~~Y~~~~~k~ff~~lv~~mtsGpvvalvl~g~naV 78 (131) T cd04415 1 EKTLALIKPDAYSK--IGKIIQIIEDAGFTITKAKMTKLSRKEAQDFYAEHQSKPFYNELVQFMTSGPIVAMELVGDDAI 78 (131) T ss_pred CCEEEEECCHHHHH--HHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEEECCCHH T ss_conf 91799989127754--9999999998799898877562899999999999669985488997814787799998277589 Q ss_pred HHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHC Q ss_conf 899966188997776---89970001011522100440699899999998726 Q gi|254780390|r 84 SKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWF 133 (140) Q Consensus 84 ~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF 133 (140) ++||+|+|||||.+| .|+||||+||.+.++|+||||||+|+|+|||+||| T Consensus 79 ~~~R~l~Gpt~p~~Ak~~~P~siR~~fg~~~~~N~vHgSds~e~A~~Ei~~fF 131 (131) T cd04415 79 SEWRKLLGPTNSSVARSDAPNSIRALFGTDGTRNAAHGSDSVASAARELEFFF 131 (131) T ss_pred HHHHHHHCCCCHHHHCCCCCCCCHHHHCCCCCCCCEECCCCHHHHHHHHHHHC T ss_conf 99998758898345231489987799669987558688999999999998559 No 13 >KOG0888 consensus Probab=100.00 E-value=0 Score=316.32 Aligned_cols=137 Identities=45% Similarity=0.789 Sum_probs=134.8 Q ss_pred CCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCCCH Q ss_conf 31023045523771898799999997255589210011269999999988851474210012210011157711116401 Q gi|254780390|r 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEA 82 (140) Q Consensus 3 ~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~na 82 (140) +|+||++||||+|+++++++|+.+|+++||+|+++|+++++++.+++||.+|+++|||+.||.||+|||++||+|+|.|| T Consensus 5 ~e~tfi~iKpd~v~~~li~~ii~r~~~~gF~i~~~k~~~~s~~~~e~~Y~~~~~k~Ff~~Lv~~m~SGPv~amv~~g~~~ 84 (156) T KOG0888 5 LERTFILIKPDGVQRGLIGEIIKRFEDKGFKIVALKLVQLSKELLEEHYSDLKSKPFFPGLVEYMSSGPVVAMVLEGDNV 84 (156) T ss_pred HHHHHHEECCCHHHHHHHHHHHHHHHHCCCCHHHHEEECCCHHHHHHHHHHHCCCCCHHHHHHHHHCCCCEEHHHCCCCH T ss_conf 55566305723544203379999998717506552002179999999999863786389999998338610041217779 Q ss_pred HHHHHHHCCCCCHHHC---CCCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHHHCC Q ss_conf 7899966188997776---89970001011522100440699899999998726856506 Q gi|254780390|r 83 ISKNREVMGDTDPKKA---LKGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARNEII 139 (140) Q Consensus 83 V~~~R~l~Gptdp~~a---~p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ei~ 139 (140) |+.||.++|||||..| .|+|||++||.+.+||++|||||.++|+|||++|||++|++ T Consensus 85 V~~~r~llG~t~~~~a~~~~pgsir~~f~~~~~rn~~HgSDs~~sA~rEi~~~F~~~e~~ 144 (156) T KOG0888 85 VQYWRALLGPTNPAAARAAAPGSIRGDFGVDDGRNSIHGSDSVESAEREIKLWFPEFELV 144 (156) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHH T ss_conf 999999838888431223589874300113677775546776777778988626613410 No 14 >pfam04339 DUF482 Protein of unknown function, DUF482. This family contains several proteins of uncharacterized function. Probab=83.10 E-value=0.54 Score=27.30 Aligned_cols=78 Identities=15% Similarity=0.254 Sum_probs=53.6 Q ss_pred HHHHHCCCEEEEHHHCCCCHHHHHHHHHHHC------------CCCCCCHHHHHCCCCCEEEEECCCCCHHHHHHHHCCC Q ss_conf 9997255589210011269999999988851------------4742100122100111577111164017899966188 Q gi|254780390|r 25 KELEDYGLCVVAAKFCWMNRKQAEDFYLIHK------------DRPFFPELVQAMISGPVFLQVLKGEEAISKNREVMGD 92 (140) Q Consensus 25 ~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~------------~k~ff~~lv~~m~sGpv~alvl~g~naV~~~R~l~Gp 92 (140) +++.+.|+.|....=-.++++....||.-|. .+.||..|.+.|....++++.-.+...|.-.-.+. T Consensus 193 ~~v~~~gI~~~~l~G~~I~~~~w~~fy~fY~~Ty~kr~g~~YLn~~FF~~l~~~m~~~i~lv~A~~~~~~IA~al~~~-- 270 (370) T pfam04339 193 RKVAEQGITIRWLTGDEITPEHWDAFYRFYQDTYLRKWGSPYLTRAFFSLLAERMPDRILLVLAERDGRPIAGALNLI-- 270 (370) T ss_pred HHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEEEEC-- T ss_conf 999986977999727889999999999999999998758804349999999986744739999996894589999963-- Q ss_pred CCHHHCCCCCCCHHC-CCC Q ss_conf 997776899700010-115 Q gi|254780390|r 93 TDPKKALKGTIRNKY-GIS 110 (140) Q Consensus 93 tdp~~a~p~tiR~~f-g~~ 110 (140) ..+||-|+| |.. T Consensus 271 ------~~~~LYGRYWG~~ 283 (370) T pfam04339 271 ------GGDTLYGRYWGCL 283 (370) T ss_pred ------CCCEEEEEECCCC T ss_conf ------6876775310534 No 15 >KOG2562 consensus Probab=54.80 E-value=21 Score=18.00 Aligned_cols=75 Identities=27% Similarity=0.307 Sum_probs=51.0 Q ss_pred CHHHHHHHHHH---CCCEEEEHHHCCCCHHHHHHHHHHHCCC---------------------------CCCCHHHHHCC Q ss_conf 87999999972---5558921001126999999998885147---------------------------42100122100 Q gi|254780390|r 19 LIGSIVKELED---YGLCVVAAKFCWMNRKQAEDFYLIHKDR---------------------------PFFPELVQAMI 68 (140) Q Consensus 19 ~~g~Ii~~i~~---~Gf~I~~~k~~~ls~e~a~~fY~~~~~k---------------------------~ff~~lv~~m~ 68 (140) +..-|++||-. .|+.+.. .-+|+-+..-.|--...+| .||.+....|- T Consensus 308 lt~~ivdRIFs~v~r~~~~~~--eGrmdykdFv~FilA~e~k~t~~SleYwFrclDld~~G~Lt~~el~~fyeeq~~rm~ 385 (493) T KOG2562 308 LTERIVDRIFSQVPRGFTVKV--EGRMDYKDFVDFILAEEDKDTPASLEYWFRCLDLDGDGILTLNELRYFYEEQLQRME 385 (493) T ss_pred HHHHHHHHHHHHCCCCCEEEE--CCCCCHHHHHHHHHHHCCCCCCCCHHHHEEEEECCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 056899999754146645630--475669999999998605889603122224661168873549999999999999898 Q ss_pred CCCEEEEECCCCCHHHHHHHHCCCCCHHH Q ss_conf 11157711116401789996618899777 Q gi|254780390|r 69 SGPVFLQVLKGEEAISKNREVMGDTDPKK 97 (140) Q Consensus 69 sGpv~alvl~g~naV~~~R~l~Gptdp~~ 97 (140) ++-.-++.. +|+..+.|+|+||.|+-+ T Consensus 386 ~~~~e~l~f--ed~l~qi~DMvkP~~~~k 412 (493) T KOG2562 386 CMGQEALPF--EDALCQIRDMVKPEDENK 412 (493) T ss_pred HCCCCCCCH--HHHHHHHHHHHCCCCCCC T ss_conf 648876538--999999999748567784 No 16 >TIGR01458 HAD-SF-IIA-hyp3 HAD-superfamily subfamily IIA hydrolase, TIGR01458; InterPro: IPR006355 These sequences are all members of the IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. . Probab=40.42 E-value=35 Score=16.66 Aligned_cols=75 Identities=16% Similarity=0.216 Sum_probs=49.6 Q ss_pred HHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCC---CCHHHHHC----CCCC-EEEEECCCC-----CHHHHH Q ss_conf 7999999972555892100112699999999888514742---10012210----0111-577111164-----017899 Q gi|254780390|r 20 IGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPF---FPELVQAM----ISGP-VFLQVLKGE-----EAISKN 86 (140) Q Consensus 20 ~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~f---f~~lv~~m----~sGp-v~alvl~g~-----naV~~~ 86 (140) -.+++.++++-||.|.-...+ -+-.-|.+...+.+=+|+ -++...++ ||.| ||+|-..+| +-=..+ T Consensus 52 ~~~l~~rLqrLgfdisE~ev~-tpapaa~q~l~e~~lRP~Llv~D~vl~~FdgIdTS~PNcVV~g~a~E~Fsyq~~N~AF 130 (258) T TIGR01458 52 KRDLVERLQRLGFDISEEEVI-TPAPAAAQLLKEKKLRPYLLVDDDVLEEFDGIDTSDPNCVVMGEAEESFSYQRLNRAF 130 (258) T ss_pred HHHHHHHHHHCCCCCCHHHHC-CCHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHH T ss_conf 799999987707732144210-6778999999746899516777685532575667898758982578873488888899 Q ss_pred HHHCCCCCH Q ss_conf 966188997 Q gi|254780390|r 87 REVMGDTDP 95 (140) Q Consensus 87 R~l~Gptdp 95 (140) |-|+--..| T Consensus 131 r~L~d~~kP 139 (258) T TIGR01458 131 RVLLDLEKP 139 (258) T ss_pred HHHHCCCCC T ss_conf 887428896 No 17 >cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems. Probab=35.91 E-value=40 Score=16.32 Aligned_cols=71 Identities=18% Similarity=0.276 Sum_probs=38.5 Q ss_pred EEEEEECCHH-HHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCC-EEEEECCCCCH Q ss_conf 0230455237-718987999999972555892100112699999999888514742100122100111-57711116401 Q gi|254780390|r 5 KTFSMIKPDA-VKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGP-VFLQVLKGEEA 82 (140) Q Consensus 5 ~Tl~iIKPDa-v~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGp-v~alvl~g~na 82 (140) +++++|-+|. .-+.......+.+++.|.+|+........ ..+|-+.|.+-..++| ++.+.+-+.+. T Consensus 134 k~vaii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g------------~~Dfs~~l~ki~~a~pD~v~~~~~g~~~ 201 (348) T cd06355 134 KRFYLVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLG------------HTDFQSIINKIKAAKPDVVVSTVNGDSN 201 (348) T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCC------------CCCHHHHHHHHHHCCCCEEEEECCCCCH T ss_conf 8799991685134899999999999859989999813799------------7567999999997699999994765124 Q ss_pred HHHHH Q ss_conf 78999 Q gi|254780390|r 83 ISKNR 87 (140) Q Consensus 83 V~~~R 87 (140) +.-+| T Consensus 202 ~~~~~ 206 (348) T cd06355 202 VAFFK 206 (348) T ss_pred HHHHH T ss_conf 89999 No 18 >COG3885 Uncharacterized conserved protein [Function unknown] Probab=35.84 E-value=42 Score=16.23 Aligned_cols=53 Identities=21% Similarity=0.230 Sum_probs=37.2 Q ss_pred EEEEEECCHHHH-CCCHHHHHHHHHHC----CCEEEEHHHCCCCHHHHHHHHHHHCCC Q ss_conf 023045523771-89879999999725----558921001126999999998885147 Q gi|254780390|r 5 KTFSMIKPDAVK-RNLIGSIVKELEDY----GLCVVAAKFCWMNRKQAEDFYLIHKDR 57 (140) Q Consensus 5 ~Tl~iIKPDav~-~~~~g~Ii~~i~~~----Gf~I~~~k~~~ls~e~a~~fY~~~~~k 57 (140) -|+++|-|+++. ..+++-|......- +-...-.+...-+++.|...|..-++. T Consensus 40 eT~VvIsPHgi~ldd~iaviys~~l~g~~~~~k~~~i~~ey~~dreLa~~I~~~a~g~ 97 (261) T COG3885 40 ETYVVISPHGIRLDDYIAVIYSEYLSGLPYRTKHHPIRKEYKNDRELADKIYEEAKGQ 97 (261) T ss_pred CEEEEECCCCEEEECHHHHHHHHHHCCCCCCCCCCCCHHHHHCCHHHHHHHHHHHCCC T ss_conf 6189985785256101467768765366456656750143320088999999984367 No 19 >TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane. Probab=28.42 E-value=48 Score=15.89 Aligned_cols=73 Identities=21% Similarity=0.288 Sum_probs=38.2 Q ss_pred EEEEEECCHHH-HCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCC-EEEEECCCCCH Q ss_conf 02304552377-18987999999972555892100112699999999888514742100122100111-57711116401 Q gi|254780390|r 5 KTFSMIKPDAV-KRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGP-VFLQVLKGEEA 82 (140) Q Consensus 5 ~Tl~iIKPDav-~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGp-v~alvl~g~na 82 (140) +++++|-+|-. -+.....+.+.+++.|.+|+......... ..|=+.|.+-..++| ++.+.+-+.++ T Consensus 135 k~vaii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g~------------~Dfs~~l~kik~a~pD~v~~~~~~~~~ 202 (359) T TIGR03407 135 KRFFLLGSDYVFPRTANKIIKAYLKSLGGTVVGEDYTPLGH------------TDFQTIINKIKAFKPDVVFNTLNGDSN 202 (359) T ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCC------------CCHHHHHHHHHHCCCCEEEEECCCCCH T ss_conf 87999945873058999999999997599737788257987------------558999999997699999993746205 Q ss_pred H---HHHHHH Q ss_conf 7---899966 Q gi|254780390|r 83 I---SKNREV 89 (140) Q Consensus 83 V---~~~R~l 89 (140) + +++|++ T Consensus 203 ~~~~kq~~~~ 212 (359) T TIGR03407 203 VAFFKQLKNA 212 (359) T ss_pred HHHHHHHHHH T ss_conf 7999999982 No 20 >PRK13054 lipid kinase; Reviewed Probab=27.38 E-value=58 Score=15.38 Aligned_cols=105 Identities=14% Similarity=0.114 Sum_probs=56.8 Q ss_pred CCCCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCC-----------CCCCHHHHHCC- Q ss_conf 963102304552377189879999999725558921001126999999998885147-----------42100122100- Q gi|254780390|r 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDR-----------PFFPELVQAMI- 68 (140) Q Consensus 1 m~~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k-----------~ff~~lv~~m~- 68 (140) |.|+|.|.|+-|-.=-.....++++.++++|+++.-...-. +-.|+++-.+-... --.++.++-|. T Consensus 1 ~~~~k~lli~N~~~~g~~~~~~~~~~l~~~~~~~~~~~T~~--~gda~~la~~a~~~g~d~vv~~GGDGTv~evvngl~~ 78 (299) T PRK13054 1 MEFPKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWE--KGDAARYVEEALALGVATVIAGGGDGTLNEVATALAQ 78 (299) T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCC--CCHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHH T ss_conf 99856999981700050689999999997698799996489--7459999999987799899998772299999999974 Q ss_pred -CC---CEEEEECCCC-CHHHHHHHHCCCCCHHHCC----C-CCCCHHCCC Q ss_conf -11---1577111164-0178999661889977768----9-970001011 Q gi|254780390|r 69 -SG---PVFLQVLKGE-EAISKNREVMGDTDPKKAL----K-GTIRNKYGI 109 (140) Q Consensus 69 -sG---pv~alvl~g~-naV~~~R~l~Gptdp~~a~----p-~tiR~~fg~ 109 (140) .+ |.++++=.|- |-. .|.+=-|.||++|. . .+.+-+.|. T Consensus 79 ~~~~~~~~LgiiP~GTgNdf--AR~lgip~d~~~a~~~i~~g~~~~iDlg~ 127 (299) T PRK13054 79 LEGDDRPSLGILPLGTANDF--ATAAGIPLEPDKALKLAIEGNAQPIDLAR 127 (299) T ss_pred CCCCCCCEEEEECCCCHHHH--HHHCCCCCCHHHHHHHHHCCCEEEEEEEE T ss_conf 78877863999638756899--99829998999999778469879985999 No 21 >pfam07576 BRAP2 BRCA1-associated protein 2. These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening. These proteins share a region of sequence similarity at their N terminus. They also have pfam02148 at the C terminus. Probab=27.22 E-value=45 Score=16.07 Aligned_cols=53 Identities=11% Similarity=0.175 Sum_probs=29.6 Q ss_pred EEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEHHHC-------------CCCHHHHHHHHHHHCCCCC Q ss_conf 023045523771898799999997255589210011-------------2699999999888514742 Q gi|254780390|r 5 KTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFC-------------WMNRKQAEDFYLIHKDRPF 59 (140) Q Consensus 5 ~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~k~~-------------~ls~e~a~~fY~~~~~k~f 59 (140) .|++|+-+.+.-. ..+++.-+...-=.|...|.+ --+.+.|.+||..+-||+| T Consensus 14 ~~lcil~VPa~~~--~~dll~f~a~~~~~i~h~Riird~~~nrymvLikFr~~~~A~~Fy~~fNGk~F 79 (110) T pfam07576 14 FVLCLAAVPALLN--SDDILFFVAPIQKVIDHIRIRRDGMPNQYMVLIKFRDQEDADTFYEEFNGKQF 79 (110) T ss_pred CEEEEEECCCCCC--HHHHHHHHHHHHHHEEEEEEEECCCCCEEEEEEEECCHHHHHHHHHHHCCCCC T ss_conf 2899981575255--88989874457510059999707998717999998988999999998489806 No 22 >PRK09371 gas vesicle synthesis protein GvpA; Provisional Probab=25.79 E-value=53 Score=15.64 Aligned_cols=29 Identities=34% Similarity=0.571 Sum_probs=19.8 Q ss_pred CCCCEEEEEECCHHHHCCCHHHHHHHHHHCCCEEEEH Q ss_conf 9631023045523771898799999997255589210 Q gi|254780390|r 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAA 37 (140) Q Consensus 1 m~~e~Tl~iIKPDav~~~~~g~Ii~~i~~~Gf~I~~~ 37 (140) |++|++ |+ ..-..+|++++.++|..|-+- T Consensus 1 mav~~s-----~~---sssLadvldriLDKGiVI~~~ 29 (72) T PRK09371 1 MAVEKT-----PD---SSSLAEVIDRILDKGIVVDAW 29 (72) T ss_pred CCCCCC-----CC---CCCHHHHHHHHHCCCEEEEEE T ss_conf 961117-----89---651999999972477599878 No 23 >pfam09554 RE_HaeII HaeII restriction endonuclease. This family includes the HaeII (recognizes and cleaves RGCGC^Y) restriction endonuclease. Probab=25.69 E-value=23 Score=17.72 Aligned_cols=95 Identities=21% Similarity=0.272 Sum_probs=55.3 Q ss_pred HHHHHHCCCEEEEHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHCCCCCEEEEECCCC-CHHHHHHHHCCCCCHHH----- Q ss_conf 999972555892100112699999999888514742100122100111577111164-01789996618899777----- Q gi|254780390|r 24 VKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGE-EAISKNREVMGDTDPKK----- 97 (140) Q Consensus 24 i~~i~~~Gf~I~~~k~~~ls~e~a~~fY~~~~~k~ff~~lv~~m~sGpv~alvl~g~-naV~~~R~l~Gptdp~~----- 97 (140) +++--.-|. .++.|.+.+++++|+ ++|+..+|..++..|=..+ ..|...-+-+|=..--+ T Consensus 221 LDMWANFG~-aiQiKHLSL~e~laE-------------~IVssitaDrIVIVCkdaE~~vI~sLLnQIGWksrIqsIite 286 (338) T pfam09554 221 LDMWANFGS-AVQIKHLSLDEELAE-------------NIVSSITADRIVIVCKSAEEEVIVSLLNQIGWKSRIQSIITE 286 (338) T ss_pred HHHHHCCCH-HHEEEEECCCHHHHH-------------HHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHCCH T ss_conf 667860461-424432033588998-------------888650357389996640489999999874368778776139 Q ss_pred C---C--CCCCCHHCCCCHHHEEEEECCCHHHHHHHHHHHCCHHHC Q ss_conf 6---8--997000101152210044069989999999872685650 Q gi|254780390|r 98 A---L--KGTIRNKYGISIGENSIHGSDSLKTALEEISYWFARNEI 138 (140) Q Consensus 98 a---~--p~tiR~~fg~~~~~N~vH~Sds~e~a~rEi~~fF~~~ei 138 (140) . + .-.|||+|..-. |..--+.-..||..=||+.|. T Consensus 287 ~~Li~WY~KaLrGk~s~~i------g~~ll~~l~eei~~EFPs~e~ 326 (338) T pfam09554 287 DDLIDWYDKALRGKYSELL------GEKLIETLSEEIKNEFPSVEN 326 (338) T ss_pred HHHHHHHHHHHCCCHHHHH------HHHHHHHHHHHHHHHCCCCCC T ss_conf 9999999998713047888------899999999999986887550 No 24 >COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning] Probab=25.40 E-value=18 Score=18.43 Aligned_cols=64 Identities=19% Similarity=0.269 Sum_probs=38.7 Q ss_pred CCCCCEEEEECCCCC---HHHHHHHHCCCCCHHHCCCCCCCHHC-CCCHHHEEEEECCCHHHHHHHHHHHCCH Q ss_conf 001115771111640---17899966188997776899700010-1152210044069989999999872685 Q gi|254780390|r 67 MISGPVFLQVLKGEE---AISKNREVMGDTDPKKALKGTIRNKY-GISIGENSIHGSDSLKTALEEISYWFAR 135 (140) Q Consensus 67 m~sGpv~alvl~g~n---aV~~~R~l~Gptdp~~a~p~tiR~~f-g~~~~~N~vH~Sds~e~a~rEi~~fF~~ 135 (140) ..+||+.+|+-+.+. .+.+.+.+--.-.|-..+=+|.|+.| |.+... -|..+.--.|-++.||. T Consensus 149 ~a~~pI~vm~~EHde~g~~l~~lk~lT~n~tpP~~AC~tWkalY~gl~~~~-----dDl~~HIHLENnvLFpr 216 (221) T COG2846 149 QAAGPISVMESEHDEAGELLEVLKHLTNNYTPPEEACGTWKALYNGLNEFI-----DDLMEHIHLENNVLFPR 216 (221) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHCCCCCH T ss_conf 657547999987898877999999984478898577658999998899999-----99998877651102011 No 25 >COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane] Probab=21.40 E-value=76 Score=14.69 Aligned_cols=15 Identities=20% Similarity=0.330 Sum_probs=7.5 Q ss_pred HHHHHHHHCCCEEEE Q ss_conf 999999725558921 Q gi|254780390|r 22 SIVKELEDYGLCVVA 36 (140) Q Consensus 22 ~Ii~~i~~~Gf~I~~ 36 (140) ..-+.+++-|+.+.+ T Consensus 91 ~yE~~Lks~GitV~R 105 (337) T COG2247 91 NYENALKSLGITVKR 105 (337) T ss_pred HHHHHHHHCCCEEEE T ss_conf 589999857957999 No 26 >TIGR02287 PaaY phenylacetic acid degradation protein PaaY; InterPro: IPR011974 Members of this family are located next to other genes organised into apparent operons for phenylacetic acid degradation . PaaY is located near the end of these gene clusters and often next to PaaX, a transcriptional regulator.. Probab=20.05 E-value=31 Score=16.95 Aligned_cols=10 Identities=20% Similarity=0.597 Sum_probs=7.7 Q ss_pred CCCCHHCCCC Q ss_conf 9700010115 Q gi|254780390|r 101 GTIRNKYGIS 110 (140) Q Consensus 101 ~tiR~~fg~~ 110 (140) -|||||||.= T Consensus 39 ASLRGDFGrI 48 (193) T TIGR02287 39 ASLRGDFGRI 48 (193) T ss_pred CCCCCCCCCE T ss_conf 3135775725 Done!