Query gi|254780128|ref|YP_003064541.1| VRR-NUC domain-containing protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 103 No_of_seqs 109 out of 449 Neff 6.0 Searched_HMMs 13730 Date Sun May 22 11:09:01 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780128.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d1ob8a_ c.52.1.18 (A:) Hollida 97.5 0.00067 4.9E-08 42.8 10.1 67 12-79 2-73 (124) 2 d1hh1a_ c.52.1.18 (A:) Archaea 97.0 0.0017 1.2E-07 40.3 7.9 73 13-86 2-83 (132) 3 d1gefa_ c.52.1.18 (A:) Archaea 96.1 0.0076 5.5E-07 36.4 6.2 74 10-87 4-81 (120) 4 d1rzna_ c.52.1.28 (A:) Recombi 94.4 0.19 1.3E-05 28.0 11.2 74 11-85 3-104 (165) 5 d1y1oa_ c.52.1.28 (A:) Recombi 94.0 0.23 1.6E-05 27.5 10.8 75 11-86 4-106 (168) 6 d1vsra_ c.52.1.15 (A:) Very sh 88.8 0.87 6.3E-05 24.0 8.0 70 14-86 2-93 (134) 7 d1kl7a_ c.79.1.1 (A:) Threonin 66.2 3.1 0.00023 20.6 3.7 41 60-100 184-225 (511) 8 d1xmxa_ c.52.1.26 (A:) Hypothe 60.2 5.6 0.00041 19.0 4.2 22 41-63 294-315 (385) 9 d1t0fa2 c.52.1.16 (A:7-168) Tn 49.5 8.1 0.00059 18.1 3.5 48 40-87 106-159 (162) 10 d1t47a1 d.32.1.3 (A:16-178) 4- 46.8 10 0.00075 17.5 7.4 88 12-100 16-104 (163) 11 d1zj8a2 d.58.36.1 (A:10-161) S 42.3 9.5 0.00069 17.7 3.0 51 51-101 83-144 (152) 12 d1zj8a1 d.58.36.1 (A:327-406) 31.1 18 0.0013 15.9 6.8 54 47-101 11-75 (80) 13 d2akja1 d.58.36.1 (A:346-430) 30.3 19 0.0014 15.9 3.2 29 49-77 16-44 (85) 14 d1vb3a1 c.79.1.1 (A:1-428) Thr 28.3 16 0.0012 16.3 2.3 38 60-100 158-198 (428) 15 d1dcea2 b.7.4.1 (A:242-350) Ra 24.4 9.9 0.00072 17.6 0.6 43 25-68 13-57 (109) 16 d1y88a2 c.52.1.30 (A:3-127) Hy 22.3 27 0.0019 15.0 7.8 71 14-85 4-84 (125) 17 d1loua_ d.58.14.1 (A:) Ribosom 22.0 26 0.0019 15.0 2.4 58 9-69 14-77 (97) 18 d1aopa1 d.58.36.1 (A:81-145) S 21.9 13 0.00096 16.8 0.9 47 55-101 2-60 (65) 19 d1p90a_ c.55.5.2 (A:) NafY cor 21.9 23 0.0017 15.3 2.1 66 37-102 23-111 (123) 20 d2akja2 d.58.36.1 (A:22-174) F 20.2 22 0.0016 15.5 1.7 51 51-101 83-145 (153) 21 d1b04a_ d.142.2.2 (A:) Adenyla 20.2 29 0.0021 14.7 5.3 48 53-100 218-269 (312) 22 d1rkqa_ c.108.1.10 (A:) Hypoth 20.1 29 0.0021 14.7 5.0 22 7-30 20-41 (271) No 1 >d1ob8a_ c.52.1.18 (A:) Holliday-junction resolvase SSO1176 {Sulfolobus solfataricus [TaxId: 2287]} Probab=97.49 E-value=0.00067 Score=42.77 Aligned_cols=67 Identities=16% Similarity=0.125 Sum_probs=53.7 Q ss_pred HHHHHHHHHHHHHCCCEEEEEECCC--CCCCCEEEEECCCCCEEEEEEECCCCC---CCHHHHHHHHHHHHCC Q ss_conf 9999999999997898999981188--898743999906982999999768988---6889999999999789 Q gi|254780128|r 12 KDVEKRLVTGAKKLDCWVRKASFVG--RRGCPDRLIITPNGGLWWIEVKKPTGR---LSHQQMSEIEELRRRG 79 (103) Q Consensus 12 ~~ie~~l~~~lk~~G~~~~K~~~~g--~~GvPDli~~~~~g~~~fIEvK~~~gk---ls~~Q~~~~~~l~~~G 79 (103) +..|+.+++.+...|+.+.+..+.| ..+.||++.. ++++++-||+|+.++. ++..|...+..+.+.. T Consensus 2 ~~~ERelv~~l~~~gf~vvR~~gSGs~~~~~pDllA~-~~~~~~~IEvKst~~~kiyi~~eqie~L~~f~~~f 73 (124) T d1ob8a_ 2 KNAERELVSILRGEGFNAVRIPTSNSSPNPLPDIFAT-KGNTLLSIECKSTWENKVKVKEHQVRKLLDFLSMF 73 (124) T ss_dssp HHHHHHHHHHHHHTTCEEEECCC-----CCSCSEEEE-ETTEEEEEEEEEESSSEEEECHHHHHHHHHHHHTS T ss_pred CHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCEEEE-CCCEEEEEEEEECCCCEEEECHHHHHHHHHHHHHC T ss_conf 5699999999986994399923578988889878985-79869999998535985998799999999999971 No 2 >d1hh1a_ c.52.1.18 (A:) Archaeal Holliday junction resolvase Hjc {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Probab=97.01 E-value=0.0017 Score=40.33 Aligned_cols=73 Identities=26% Similarity=0.358 Sum_probs=54.8 Q ss_pred HHHHHHHHHHHHCCCEEEEEECCC---CCCCCEEEEECCCCCEEEEEEECCCC-----CCCHHHHHHHHHH-HHCCCEEE Q ss_conf 999999999997898999981188---89874399990698299999976898-----8688999999999-97898899 Q gi|254780128|r 13 DVEKRLVTGAKKLDCWVRKASFVG---RRGCPDRLIITPNGGLWWIEVKKPTG-----RLSHQQMSEIEEL-RRRGQRVK 83 (103) Q Consensus 13 ~ie~~l~~~lk~~G~~~~K~~~~g---~~GvPDli~~~~~g~~~fIEvK~~~g-----kls~~Q~~~~~~l-~~~G~~~~ 83 (103) ..|+.++..+...|+.|.+..+.| ..=.||++... ++.++-||||+..+ .++..|..-+..+ +..|.... T Consensus 2 ~~ERel~~~l~~~gFavvRapgSGs~~~~~~pDlvA~~-~~~~~~IEvKst~~~~~~iyi~~eqve~L~~f~~~fG~~p~ 80 (132) T d1hh1a_ 2 AVERNIVSRLRDKGFAVVRAPASGSKRKDPIPDIIALK-NGVIILIEMKSRKDIEGKIYVRREQAEGIIEFARKSGGSLF 80 (132) T ss_dssp HHHHHHHHHHHHTTCEEEECCC-------CCCSEEEEE-TTEEEEEEECCEECTTSCEEECHHHHHHHHHHHHHHTCEEE T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCEEECC-CCEEEEEEEEEECCCCCCEEECHHHHHHHHHHHHHCCCEEE T ss_conf 78999999998589449994567888778998689526-98799999986157764389879999999999997599599 Q ss_pred EEC Q ss_conf 985 Q gi|254780128|r 84 VLV 86 (103) Q Consensus 84 Vv~ 86 (103) ++. T Consensus 81 iav 83 (132) T d1hh1a_ 81 LGV 83 (132) T ss_dssp EEE T ss_pred EEE T ss_conf 999 No 3 >d1gefa_ c.52.1.18 (A:) Archaeal Holliday junction resolvase Hjc {Archaeon Pyrococcus furiosus [TaxId: 2261]} Probab=96.07 E-value=0.0076 Score=36.39 Aligned_cols=74 Identities=20% Similarity=0.178 Sum_probs=51.1 Q ss_pred CHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECCCCCEEEEEEECCCCC---CCHHHHHHHHHH-HHCCCEEEEE Q ss_conf 999999999999997898999981188898743999906982999999768988---688999999999-9789889998 Q gi|254780128|r 10 TEKDVEKRLVTGAKKLDCWVRKASFVGRRGCPDRLIITPNGGLWWIEVKKPTGR---LSHQQMSEIEEL-RRRGQRVKVL 85 (103) Q Consensus 10 ~E~~ie~~l~~~lk~~G~~~~K~~~~g~~GvPDli~~~~~g~~~fIEvK~~~gk---ls~~Q~~~~~~l-~~~G~~~~Vv 85 (103) +=+..|+.+++.+..+|+.+...- .+|-||++... ++..+-||||+.... .+++|....-.. +..|....|+ T Consensus 4 KG~~~ERel~~~l~~~G~~~~R~~---~sg~~D~~a~~-~~~~~~IEvK~~~~~~~~~~~~~~eql~~~a~~~g~~P~la 79 (120) T d1gefa_ 4 KGAQAERELIKLLEKHGFAVVRSA---GSKKVDLVAGN-GKKYLCIEVKVTKKDHLYVGKRDMGRLIEFSRRFGGIPVLA 79 (120) T ss_dssp HHHHHHHHHHHHHHHTTCEEEEBG---GGSSCSEEEEC-SSCEEEEEEEEESSSCEEECHHHHHHHHHHHHHHTCEEEEE T ss_pred CHHHHHHHHHHHHHHCCCCEEECC---CCCCCCCCCCC-CCCEEEEECCCCCCCCEEECHHHHHHHHHHHHHCCCCEEEE T ss_conf 343999999999986797699987---87788721378-88369998377104652429999999999998579936999 Q ss_pred CC Q ss_conf 59 Q gi|254780128|r 86 VS 87 (103) Q Consensus 86 ~s 87 (103) .- T Consensus 80 ~K 81 (120) T d1gefa_ 80 VK 81 (120) T ss_dssp EE T ss_pred EE T ss_conf 99 No 4 >d1rzna_ c.52.1.28 (A:) Recombination protein U (RecU)/PBP related factor A (PrfA) {Bacillus subtilis [TaxId: 1423]} Probab=94.44 E-value=0.19 Score=28.01 Aligned_cols=74 Identities=14% Similarity=0.109 Sum_probs=56.8 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECC---------------------CCCCCCEEEEECCCCCEEEEEEECCCC------- Q ss_conf 9999999999999789899998118---------------------889874399990698299999976898------- Q gi|254780128|r 11 EKDVEKRLVTGAKKLDCWVRKASFV---------------------GRRGCPDRLIITPNGGLWWIEVKKPTG------- 62 (103) Q Consensus 11 E~~ie~~l~~~lk~~G~~~~K~~~~---------------------g~~GvPDli~~~~~g~~~fIEvK~~~g------- 62 (103) |..|......+..+.-+.+.|.-.| ..+.-||...++ .|+++..|.|...+ T Consensus 3 E~~In~tn~~Y~~~~~A~I~K~PtPi~~vkv~~~~r~~~~I~~Ayf~~kSt~DY~Gvy-kG~~I~FEAKeT~nktsFpl~ 81 (165) T d1rzna_ 3 EDDLNETNKYYLTNQIAVIHKKPTPVQIVNVHYPKRSAAVIKEAYFKQSSTTDYNGIY-KGRYIDFEAKETKNKTSFPLQ 81 (165) T ss_dssp HHHHHHHHHHHHHTTSCEEEECCCCEEC---------------CEECCCSSCSEEEEE-TTEEEEEEEEECCCSSEEEGG T ss_pred HHHHHHHHHHHHHCCEEEEEEECCCEEEEEECCCCCCCCEEEEEEECCCCCCCCEEEE-CCEEEEEECCCCCCCCCCCHH T ss_conf 8999999999997798999970788389962577666534444796357888702477-789999983354676722334 Q ss_pred CCCHHHHHHHHHHHHCCCEEEEE Q ss_conf 86889999999999789889998 Q gi|254780128|r 63 RLSHQQMSEIEELRRRGQRVKVL 85 (103) Q Consensus 63 kls~~Q~~~~~~l~~~G~~~~Vv 85 (103) ...++|...++.+.++|+.++++ T Consensus 82 ni~~HQi~~L~~~~~~gGI~F~i 104 (165) T d1rzna_ 82 NFHDHQIEHMKQVKAQDGICFVI 104 (165) T ss_dssp GSCHHHHHHHHHHHHTTCEEEEE T ss_pred HCCHHHHHHHHHHHHCCCEEEEE T ss_conf 37799999999999789989999 No 5 >d1y1oa_ c.52.1.28 (A:) Recombination protein U (RecU)/PBP related factor A (PrfA) {Bacillus stearothermophilus [TaxId: 1422]} Probab=94.03 E-value=0.23 Score=27.48 Aligned_cols=75 Identities=13% Similarity=0.124 Sum_probs=57.4 Q ss_pred HHHHHHHHHHHHHHCCCEEEE---------EECCC------------CCCCCEEEEECCCCCEEEEEEECCC-C------ Q ss_conf 999999999999978989999---------81188------------8987439999069829999997689-8------ Q gi|254780128|r 11 EKDVEKRLVTGAKKLDCWVRK---------ASFVG------------RRGCPDRLIITPNGGLWWIEVKKPT-G------ 62 (103) Q Consensus 11 E~~ie~~l~~~lk~~G~~~~K---------~~~~g------------~~GvPDli~~~~~g~~~fIEvK~~~-g------ 62 (103) |..|......+..+.-+.+.| +..+. .+.-||.+.++ .|+++..|.|... . T Consensus 4 E~~In~tn~~Y~~~~~A~I~K~ptPi~~vkvd~~~r~~a~i~~ayf~~kSt~DY~Gvy-~G~~I~FEAKeT~~ktsFpl~ 82 (168) T d1y1oa_ 4 EDDLNATNEYYRERGIAVIHKKPTPVQIVRVDYPKRSAAVITEAYFRQASTTDYNGVY-RGKYIDFEAKETKNKTAFPLK 82 (168) T ss_dssp HHHHHHHHHHHHHTTSCEEEECCCCEEEEEEECCSSSCCEEEEEEECCCSSCSEEEEE-TTEEEEEEEEEECCSSEEEGG T ss_pred HHHHHHHHHHHHHCCEEEEEEECCCEEEEEECCCCCCCCEEEEEEECCCCCCCEEEEE-CCEEEEEEEEECCCCCEECHH T ss_conf 9999999999997797999970798389961577665644677796467988755675-565899996303688704533 Q ss_pred CCCHHHHHHHHHHHHCCCEEEEEC Q ss_conf 868899999999997898899985 Q gi|254780128|r 63 RLSHQQMSEIEELRRRGQRVKVLV 86 (103) Q Consensus 63 kls~~Q~~~~~~l~~~G~~~~Vv~ 86 (103) ..+++|...++.+.++|+.++++= T Consensus 83 ni~~HQi~~L~~~~~~gGI~F~iI 106 (168) T d1y1oa_ 83 NFHAHQIRHMEQVVAHGGICFAIL 106 (168) T ss_dssp GSCHHHHHHHHHHHHTTCEEEEEE T ss_pred HCCHHHHHHHHHHHHCCCEEEEEE T ss_conf 077999999999997899799999 No 6 >d1vsra_ c.52.1.15 (A:) Very short patch repair (VSR) endonuclease {Escherichia coli [TaxId: 562]} Probab=88.81 E-value=0.87 Score=23.95 Aligned_cols=70 Identities=17% Similarity=0.151 Sum_probs=44.5 Q ss_pred HHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECCCCCEEEEEE--------ECCCCCCCHHHH--------------HH Q ss_conf 99999999997898999981188898743999906982999999--------768988688999--------------99 Q gi|254780128|r 14 VEKRLVTGAKKLDCWVRKASFVGRRGCPDRLIITPNGGLWWIEV--------KKPTGRLSHQQM--------------SE 71 (103) Q Consensus 14 ie~~l~~~lk~~G~~~~K~~~~g~~GvPDli~~~~~g~~~fIEv--------K~~~gkls~~Q~--------------~~ 71 (103) ||..+.+.|.+.|.+ |+...+.-+|-|| |++.+-.-++||-= +. ...|..+.. .. T Consensus 2 ~E~~lr~~L~~~G~R-yR~~~k~lpG~PD-iv~~~~k~aIfvdGcFWH~h~c~~-~~~Pktn~efW~~Ki~~N~~RD~~~ 78 (134) T d1vsra_ 2 IEKRLASLLTGQGLA-FRVQDASLPGRPD-FVVDEYRCVIFTHGCFWHHHHCYL-FKVPATRTEFWLEKIGKNVERDRRD 78 (134) T ss_dssp CCHHHHHHHHHTTCC-CEESCTTSTTCCS-EEEGGGTEEEEEECTTTTTCSSTT-CCCCSSSHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHCCCE-EEECCCCCCCCCC-EEECCCCEEEEECCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 789999999978986-8864888999988-963376389997174036899655-6899855799999999888879999 Q ss_pred HHHHHHCCCEEEEEC Q ss_conf 999997898899985 Q gi|254780128|r 72 IEELRRRGQRVKVLV 86 (103) Q Consensus 72 ~~~l~~~G~~~~Vv~ 86 (103) .+.|.++|+.|.+++ T Consensus 79 ~~~L~~~GW~vl~iW 93 (134) T d1vsra_ 79 ISRLQELGWRVLIVW 93 (134) T ss_dssp HHHHHHTTCEEEEEE T ss_pred HHHHHHCCCEEEEEE T ss_conf 999998889899996 No 7 >d1kl7a_ c.79.1.1 (A:) Threonine synthase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Probab=66.16 E-value=3.1 Score=20.61 Aligned_cols=41 Identities=15% Similarity=0.306 Sum_probs=32.5 Q ss_pred CCCCCCHHHHHHHHHHHHCCCEEEEE-CCHHHHHHHHHHHHH Q ss_conf 89886889999999999789889998-598999999999986 Q gi|254780128|r 60 PTGRLSHQQMSEIEELRRRGQRVKVL-VSMEEVDNFLEELAC 100 (103) Q Consensus 60 ~~gkls~~Q~~~~~~l~~~G~~~~Vv-~s~edv~~~l~~l~~ 100 (103) |.|+.|+-|+..+.-..+.+..+.-| =++||++.++.++-. T Consensus 184 P~~~vS~iQ~~Qmtt~~~~Nv~~i~v~G~fDDcq~~vk~~f~ 225 (511) T d1kl7a_ 184 PTGRISPIQEEQMTTVPDENVQTLSVTGTFDNCQDIVKAIFG 225 (511) T ss_dssp ETTSSCHHHHHHHHHCCCTTEEEEEESSCHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHH T ss_conf 688886678998740377659999843676778899999973 No 8 >d1xmxa_ c.52.1.26 (A:) Hypothetical protein VC1899 {Vibrio cholerae [TaxId: 666]} Probab=60.24 E-value=5.6 Score=19.03 Aligned_cols=22 Identities=32% Similarity=0.226 Sum_probs=16.5 Q ss_pred CEEEEECCCCCEEEEEEECCCCC Q ss_conf 43999906982999999768988 Q gi|254780128|r 41 PDRLIITPNGGLWWIEVKKPTGR 63 (103) Q Consensus 41 PDli~~~~~g~~~fIEvK~~~gk 63 (103) =|++++ .+++.++||||+.+-+ T Consensus 294 lDv~~~-~~~~l~~IECKt~~~~ 315 (385) T d1xmxa_ 294 LDVATV-VNNKLHIIECKTKGMR 315 (385) T ss_dssp EEEEEE-ETTEEEEEEEESSCCC T ss_pred EEEEEE-ECCEEEEEEECCCCCC T ss_conf 689999-7999999995688877 No 9 >d1t0fa2 c.52.1.16 (A:7-168) TnsA endonuclease, N-terminal domain {Escherichia coli [TaxId: 562]} Probab=49.51 E-value=8.1 Score=18.10 Aligned_cols=48 Identities=15% Similarity=0.132 Sum_probs=31.6 Q ss_pred CCEEEEECCCCC--EEEEEEECCCCC--CCHHHHHHH--HHHHHCCCEEEEECC Q ss_conf 743999906982--999999768988--688999999--999978988999859 Q gi|254780128|r 40 CPDRLIITPNGG--LWWIEVKKPTGR--LSHQQMSEI--EELRRRGQRVKVLVS 87 (103) Q Consensus 40 vPDli~~~~~g~--~~fIEvK~~~gk--ls~~Q~~~~--~~l~~~G~~~~Vv~s 87 (103) .||+++.+.||. .+.+|||-...- .+-.++..+ ...+..|....|+-. T Consensus 106 TtDFLV~~~dG~~~~~a~eVKp~~~l~~~r~~eKleier~yw~~~Gi~~~ivTE 159 (162) T d1t0fa2 106 STDFLVDCKDGPFEQFAIQVKPAAALQDERTLEKLELERRYWQQKQIPWFIFTD 159 (162) T ss_dssp EEEEEEEESSSSCSEEEEEECCGGGGGCHHHHHHHHHHHHHHHHHTCCEEEECG T ss_pred ECCEEEEEECCCEEEEEEEECCHHHHCCHHHHHHHHHHHHHHHHCCCCEEEECC T ss_conf 225899981897889999965568842977999999999999984994899736 No 10 >d1t47a1 d.32.1.3 (A:16-178) 4-hydroxyphenylpyruvate dioxygenase, HppD {Streptomyces avermitilis [TaxId: 33903]} Probab=46.81 E-value=10 Score=17.46 Aligned_cols=88 Identities=6% Similarity=-0.068 Sum_probs=51.0 Q ss_pred HHHHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECCCCCEEEEEEECCCCCCCHHHHHHHHHHHHCC-CEEEEECCHHH Q ss_conf 99999999999978989999811888987439999069829999997689886889999999999789-88999859899 Q gi|254780128|r 12 KDVEKRLVTGAKKLDCWVRKASFVGRRGCPDRLIITPNGGLWWIEVKKPTGRLSHQQMSEIEELRRRG-QRVKVLVSMEE 90 (103) Q Consensus 12 ~~ie~~l~~~lk~~G~~~~K~~~~g~~GvPDli~~~~~g~~~fIEvK~~~gkls~~Q~~~~~~l~~~G-~~~~Vv~s~ed 90 (103) +++++.+..+.+.+|............+.-........|.. .+++-.+.+..++.-..+...+...| +...++-.++| T Consensus 16 ~D~~~a~~fY~~~lGf~~v~~~~~~~~~~~~~~~~l~~~~~-~i~l~~~~~~~~~~~~~~~~~~~~~g~G~~hiaf~VdD 94 (163) T d1t47a1 16 GNAKQAAHYYSTAFGMQLVAYSGPENGSRETASYVLTNGSA-RFVLTSVIKPATPWGHFLADHVAEHGDGVVDLAIEVPD 94 (163) T ss_dssp SCHHHHHHHHHHTSCCEEEEEESGGGTCCSEEEEEEEETTE-EEEEEEESSCCSHHHHHHHHHHHHHCSEEEEEEEECSC T ss_pred CCHHHHHHHHHHHHCCEEEEEECCCCCCEEEEEEEEECCCE-EEEEECCCCCCCCCCCCCCHHHHCCCCCEEEEEEEECC T ss_conf 89999999999975995996641335652599999716988-89990367887743333220234079845999996087 Q ss_pred HHHHHHHHHH Q ss_conf 9999999986 Q gi|254780128|r 91 VDNFLEELAC 100 (103) Q Consensus 91 v~~~l~~l~~ 100 (103) +++.++.+.+ T Consensus 95 id~a~~~l~~ 104 (163) T d1t47a1 95 ARAAHAYAIE 104 (163) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999998 No 11 >d1zj8a2 d.58.36.1 (A:10-161) Sulfite reductase NirA {Mycobacterium tuberculosis [TaxId: 1773]} Probab=42.26 E-value=9.5 Score=17.66 Aligned_cols=51 Identities=14% Similarity=0.261 Sum_probs=36.9 Q ss_pred CEEEEEEECCCCCCCHHHHHHHHHHHH-CC-CEEEEE---------CCHHHHHHHHHHHHHH Q ss_conf 299999976898868899999999997-89-889998---------5989999999999863 Q gi|254780128|r 51 GLWWIEVKKPTGRLSHQQMSEIEELRR-RG-QRVKVL---------VSMEEVDNFLEELACT 101 (103) Q Consensus 51 ~~~fIEvK~~~gkls~~Q~~~~~~l~~-~G-~~~~Vv---------~s~edv~~~l~~l~~t 101 (103) .++++=++.|+|.++++|...+..+.+ .| ....+. =..+++.+++++|.+. T Consensus 83 ~~fmvRvr~p~G~lt~~Ql~~la~ia~~yg~g~i~iTtRQ~iql~gI~~~~l~~i~~~L~~~ 144 (152) T d1zj8a2 83 KYFMMRVRCDGGALSAAALRTLGQISTEFARDTADISDRQNVQYHWIEVENVPEIWRRLDDV 144 (152) T ss_dssp EEEEEEEBCGGGEECHHHHHHHHHHHHHHSTTEEEECTTSCEEEEEECGGGHHHHHHHHHTT T ss_pred CEEEEEEECCCCEECHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHHC T ss_conf 66999982589772699999999999984899701568732784698888999999999984 No 12 >d1zj8a1 d.58.36.1 (A:327-406) Sulfite reductase NirA {Mycobacterium tuberculosis [TaxId: 1773]} Probab=31.07 E-value=18 Score=15.94 Aligned_cols=54 Identities=20% Similarity=0.349 Sum_probs=38.4 Q ss_pred CCCCCEEEEEEECCCCCCCHHHHHHHHHHHH-CCC-EEEE-------E--CCHHHHHHHHHHHHHH Q ss_conf 0698299999976898868899999999997-898-8999-------8--5989999999999863 Q gi|254780128|r 47 TPNGGLWWIEVKKPTGRLSHQQMSEIEELRR-RGQ-RVKV-------L--VSMEEVDNFLEELACT 101 (103) Q Consensus 47 ~~~g~~~fIEvK~~~gkls~~Q~~~~~~l~~-~G~-~~~V-------v--~s~edv~~~l~~l~~t 101 (103) -+||. ++|=++.|.|++++.|...+..+.+ .|. ...+ + =..+++.+++++|.+. T Consensus 11 q~dG~-~~vri~~p~G~it~~ql~~la~ia~~yg~g~i~lTtrq~l~l~~i~~~~~~~v~~~L~~~ 75 (80) T d1zj8a1 11 LKNGL-NAVGVAPIAGRVSGTILTAVADLMARAGSDRIRFTPYQKLVILDIPDALLDDLIAGLDAL 75 (80) T ss_dssp CTTSS-EEEEEBCBTTEEEHHHHHHHHHHHHHHTCCCEEECTTSCEEEEEECHHHHHHHHHHHHHT T ss_pred ECCCC-EEEEEECCCCEECHHHHHHHHHHHHHHCCCEEEECCCCCEEECCCCHHHHHHHHHHHHHC T ss_conf 05970-999994668599999999999999973999498879875897589989999999999986 No 13 >d2akja1 d.58.36.1 (A:346-430) Ferredoxin--nitrite reductase, NIR {Spinach (Spinacia oleracea) [TaxId: 3562]} Probab=30.35 E-value=19 Score=15.87 Aligned_cols=29 Identities=28% Similarity=0.590 Sum_probs=25.2 Q ss_pred CCCEEEEEEECCCCCCCHHHHHHHHHHHH Q ss_conf 98299999976898868899999999997 Q gi|254780128|r 49 NGGLWWIEVKKPTGRLSHQQMSEIEELRR 77 (103) Q Consensus 49 ~g~~~fIEvK~~~gkls~~Q~~~~~~l~~ 77 (103) +...++|=++.|.|++++.|...+..+.+ T Consensus 16 ~~g~~~vri~~p~G~lt~~ql~~la~ia~ 44 (85) T d2akja1 16 QQGLSFVGLHIPVGRLQADEMEELARIAD 44 (85) T ss_dssp STTEEEEEECCGGGEECHHHHHHHHHHHH T ss_pred CCCEEEEEEECCCCEECHHHHHHHHHHHH T ss_conf 79869999976895929999999999999 No 14 >d1vb3a1 c.79.1.1 (A:1-428) Threonine synthase {Escherichia coli [TaxId: 562]} Probab=28.32 E-value=16 Score=16.28 Aligned_cols=38 Identities=13% Similarity=0.186 Sum_probs=27.1 Q ss_pred CCCCCCHHHHHHHHHHHHCCCEEEE---ECCHHHHHHHHHHHHH Q ss_conf 8988688999999999978988999---8598999999999986 Q gi|254780128|r 60 PTGRLSHQQMSEIEELRRRGQRVKV---LVSMEEVDNFLEELAC 100 (103) Q Consensus 60 ~~gkls~~Q~~~~~~l~~~G~~~~V---v~s~edv~~~l~~l~~ 100 (103) |.|+.|+.|+..+.. .|..+.| =-++||++.++.++-. T Consensus 158 P~g~vS~~Q~~Qmtt---~g~nv~vi~V~G~fDDcq~lvk~~f~ 198 (428) T d1vb3a1 158 PRGKISPLQEKLFCT---LGGNIETVAIDGDFDACQALVKQAFD 198 (428) T ss_dssp ETTCSCHHHHHHHHS---CCTTEEEEEEESCHHHHHHHHHHGGG T ss_pred CCCCCCHHHHHHHHH---CCCCCEEEECCCCHHHHHHHHHHHHH T ss_conf 688875899988764---46771378427875478999988764 No 15 >d1dcea2 b.7.4.1 (A:242-350) Rab geranylgeranyltransferase alpha-subunit, insert domain {Rat (Rattus norvegicus) [TaxId: 10116]} Probab=24.42 E-value=9.9 Score=17.55 Aligned_cols=43 Identities=16% Similarity=0.105 Sum_probs=32.4 Q ss_pred CCCEEEEEECCC--CCCCCEEEEECCCCCEEEEEEECCCCCCCHHH Q ss_conf 898999981188--89874399990698299999976898868899 Q gi|254780128|r 25 LDCWVRKASFVG--RRGCPDRLIITPNGGLWWIEVKKPTGRLSHQQ 68 (103) Q Consensus 25 ~G~~~~K~~~~g--~~GvPDli~~~~~g~~~fIEvK~~~gkls~~Q 68 (103) .++...-|..|- .+|.-+|+++. ||...++|-.+|.|+.++.| T Consensus 13 e~~l~v~FSrpv~v~~~~~~L~L~~-Dg~p~~veWRtp~gr~r~s~ 57 (109) T d1dcea2 13 EACLSVCFSRPLTVGSRMGTLLLMV-DEAPLSVEWRTPDGRNRPSH 57 (109) T ss_dssp TTEEEEEEEEEECTTBTTBCEEEEE-SSSEECCCCBCTTSSCCSEE T ss_pred CCEEEEEECCCEECCCCCCEEEEEE-CCCCEEEEEECCCCCCCCCC T ss_conf 6748999625134066655179996-79827999768998667583 No 16 >d1y88a2 c.52.1.30 (A:3-127) Hypothetical protein AF1548, N-terminal domain {Archaeoglobus fulgidus [TaxId: 2234]} Probab=22.29 E-value=27 Score=14.96 Aligned_cols=71 Identities=10% Similarity=-0.002 Sum_probs=40.6 Q ss_pred HHHHHHHHH-HHCCCEEEE---EECCCCCCCCEEEEECCCCCEEEEEEECCCC--CCCHHHHHHHH----HHHHCCCEEE Q ss_conf 999999999-978989999---8118889874399990698299999976898--86889999999----9997898899 Q gi|254780128|r 14 VEKRLVTGA-KKLDCWVRK---ASFVGRRGCPDRLIITPNGGLWWIEVKKPTG--RLSHQQMSEIE----ELRRRGQRVK 83 (103) Q Consensus 14 ie~~l~~~l-k~~G~~~~K---~~~~g~~GvPDli~~~~~g~~~fIEvK~~~g--kls~~Q~~~~~----~l~~~G~~~~ 83 (103) .+.+++..+ ++.|+.+-. +...+..+=-|+++. +++..+.||||.-.. .....|..... .+...|+... T Consensus 4 ~~~~lva~ll~~~Gy~v~~~v~v~g~~~d~gvDiia~-~~~~~~~VQcK~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 82 (125) T d1y88a2 4 FQGHMVARLLEEHGFETKTNVIVQGNCVEQEIDVVAE-RDGERYMIECKFHNIPVYTGLKEAMYTYARFLDVEKHGFTQP 82 (125) T ss_dssp HHHHHHHHHHHTTTCEEEEEEEEECSSSEEEEEEEEE-ETTEEEEEEECCCSSSCEECHHHHHHHHHHHHHHGGGTCSEE T ss_pred HHHHHHHHHHHHCCCCEECCEEEEECCCCCEEEEEEE-CCCCEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEE T ss_conf 6999999999986996504679945145602899997-399089999998326778884568888876511332289869 Q ss_pred EE Q ss_conf 98 Q gi|254780128|r 84 VL 85 (103) Q Consensus 84 Vv 85 (103) ++ T Consensus 83 ii 84 (125) T d1y88a2 83 WI 84 (125) T ss_dssp EE T ss_pred EE T ss_conf 99 No 17 >d1loua_ d.58.14.1 (A:) Ribosomal protein S6 {Thermus thermophilus [TaxId: 274]} Probab=21.98 E-value=26 Score=15.02 Aligned_cols=58 Identities=16% Similarity=0.249 Sum_probs=36.5 Q ss_pred CCHHHHH---HHHHHHHHHCCCEEEEEECCCCCCCCEEEEECC---CCCEEEEEEECCCCCCCHHHH Q ss_conf 8999999---999999997898999981188898743999906---982999999768988688999 Q gi|254780128|r 9 QTEKDVE---KRLVTGAKKLDCWVRKASFVGRRGCPDRLIITP---NGGLWWIEVKKPTGRLSHQQM 69 (103) Q Consensus 9 ~~E~~ie---~~l~~~lk~~G~~~~K~~~~g~~GvPDli~~~~---~g~~~fIEvK~~~gkls~~Q~ 69 (103) .+|..++ .++.+.+++.||.+.+...-|. =+|-.... .|.++++.+.+++..+....+ T Consensus 14 l~~~~~~~~~~~~~~~i~~~gg~i~~~e~~G~---r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~ 77 (97) T d1loua_ 14 LDQSQLALEKEIIQRAAENYGARVEKVEELGL---RRLAYPIAKDPQGYFLWYQVEMPEDRVNDLAR 77 (97) T ss_dssp CCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEE---EEEEEEETTEEEEEEEEEEEEECGGGHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHHCCCEEEEEEEEEE---EECCCCCCCCCEEEEEEEEEEECHHHHHHHHH T ss_conf 99899999999999999868988999850077---82420246466369999999968999999999 No 18 >d1aopa1 d.58.36.1 (A:81-145) Sulfite reductase, domains 1 and 3 {Escherichia coli [TaxId: 562]} Probab=21.91 E-value=13 Score=16.81 Aligned_cols=47 Identities=13% Similarity=0.301 Sum_probs=33.3 Q ss_pred EEEECCCCCCCHHHHHHHHHHH-HCC--CEEEEE---------CCHHHHHHHHHHHHHH Q ss_conf 9997689886889999999999-789--889998---------5989999999999863 Q gi|254780128|r 55 IEVKKPTGRLSHQQMSEIEELR-RRG--QRVKVL---------VSMEEVDNFLEELACT 101 (103) Q Consensus 55 IEvK~~~gkls~~Q~~~~~~l~-~~G--~~~~Vv---------~s~edv~~~l~~l~~t 101 (103) |=+|.|+|.++++|...+..+. +.| ....+. =..+++.+++++|.+. T Consensus 2 iRiriPgG~it~~ql~~la~ia~kyg~~g~i~~TtRQ~iql~~v~~~~l~~v~~~L~~~ 60 (65) T d1aopa1 2 LRCRLPGGVITTKQWQAIDKFAGENTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSV 60 (65) T ss_dssp EECCCGGGEEEHHHHHHHHHHHHHHBSSCCEEECTTSCEEECCBC-----CHHHHHHHT T ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCEEEECCCCHHHHHHHHHHHHHC T ss_conf 78821897859999999999999966798365637315986798988999999999984 No 19 >d1p90a_ c.55.5.2 (A:) NafY core domain {Azotobacter vinelandii [TaxId: 354]} Probab=21.87 E-value=23 Score=15.31 Aligned_cols=66 Identities=9% Similarity=0.024 Sum_probs=34.1 Q ss_pred CCCCCEEEEECC--CCCEEEEEEEC-CC--CCC--CHHH----------------HHHHHHHHHCCCEEEEECCHHHHHH Q ss_conf 898743999906--98299999976-89--886--8899----------------9999999978988999859899999 Q gi|254780128|r 37 RRGCPDRLIITP--NGGLWWIEVKK-PT--GRL--SHQQ----------------MSEIEELRRRGQRVKVLVSMEEVDN 93 (103) Q Consensus 37 ~~GvPDli~~~~--~g~~~fIEvK~-~~--gkl--s~~Q----------------~~~~~~l~~~G~~~~Vv~s~edv~~ 93 (103) +-|-...+.++. ++.+-++|.-. +. +.. .+.| ..-..+|++.|..++.+..-+.+++ T Consensus 23 HFG~A~~F~Iyev~~~~~~~ve~~~~~~~~~~~~~~~~~~~~~~~~~vvi~~~iG~~a~~~L~~~GI~vi~~~~~~~ie~ 102 (123) T d1p90a_ 23 HFGSCLRFLVYQVSAKDASLVDIRSTLDVALAEDKNAWRVEQIQDCQVLYVVSIGGPAAAKVVRAGIHPLKKPKGCAAQE 102 (123) T ss_dssp BTTTCSEEEEEEEESSCEEEEEEEECGGGGGCSSHHHHHHHHTTTCSEEEESBCCHHHHHHHHHTTCEEEECTTCEEHHH T ss_pred CCCCCCEEEEEEECCCCEEEEEEECCCCCCCCCCCCHHHHHHHCCCCEEEECCCCHHHHHHHHHCCCEEEEECCCCCHHH T ss_conf 57669889999962993799995414575656541067775307986999877786389999978958999189984999 Q ss_pred HHHHHHHHC Q ss_conf 999998630 Q gi|254780128|r 94 FLEELACTL 102 (103) Q Consensus 94 ~l~~l~~t~ 102 (103) .|++++.+| T Consensus 103 al~~l~~~l 111 (123) T d1p90a_ 103 AIAELQTVM 111 (123) T ss_dssp HHHHHHHHH T ss_pred HHHHHHHHH T ss_conf 999999986 No 20 >d2akja2 d.58.36.1 (A:22-174) Ferredoxin--nitrite reductase, NIR {Spinach (Spinacia oleracea) [TaxId: 3562]} Probab=20.24 E-value=22 Score=15.51 Aligned_cols=51 Identities=20% Similarity=0.391 Sum_probs=37.5 Q ss_pred CEEEEEEECCCCCCCHHHHHHHHHHHHC-C--CEEEEE---------CCHHHHHHHHHHHHHH Q ss_conf 2999999768988688999999999978-9--889998---------5989999999999863 Q gi|254780128|r 51 GLWWIEVKKPTGRLSHQQMSEIEELRRR-G--QRVKVL---------VSMEEVDNFLEELACT 101 (103) Q Consensus 51 ~~~fIEvK~~~gkls~~Q~~~~~~l~~~-G--~~~~Vv---------~s~edv~~~l~~l~~t 101 (103) ..+++=++.|+|.+++.|...+..+.+. | +.+.+. =..+++.+++++|.+. T Consensus 83 g~FMvRlr~pgG~lt~~Ql~~ladiA~~yg~~G~l~lTtRQniql~gI~~~dl~~i~~~L~~~ 145 (153) T d2akja2 83 GRFMMRLKLPNGVTTSEQTRYLASVIKKYGKDGCADVTTRQNWQIRGVVLPDVPEIIKGLESV 145 (153) T ss_dssp TCEEEECCCGGGEEEHHHHHHHHHHHHTTGGGCCEEECTTSCEEEEEECGGGHHHHHHHHHTT T ss_pred CEEEEEEECCCEEECHHHHHHHHHHHHHHCCCCCEEECCCCEEEECCCCHHHHHHHHHHHHHC T ss_conf 768999618981818999999999999978998675679863785688989999999999986 No 21 >d1b04a_ d.142.2.2 (A:) Adenylation domain of NAD+-dependent DNA ligase {Bacillus stearothermophilus [TaxId: 1422]} Probab=20.18 E-value=29 Score=14.70 Aligned_cols=48 Identities=15% Similarity=0.175 Sum_probs=34.9 Q ss_pred EEEEEECCCCCCCHHHHHHHHHHHHCCCEE----EEECCHHHHHHHHHHHHH Q ss_conf 999997689886889999999999789889----998598999999999986 Q gi|254780128|r 53 WWIEVKKPTGRLSHQQMSEIEELRRRGQRV----KVLVSMEEVDNFLEELAC 100 (103) Q Consensus 53 ~fIEvK~~~gkls~~Q~~~~~~l~~~G~~~----~Vv~s~edv~~~l~~l~~ 100 (103) +..++=.+.......|...+..|+..|+.+ .++.+.+++.+++.++.. T Consensus 218 ~~y~~~~~~~~~~~~~~e~l~~L~~~gf~~~~~~~~~~~~~~v~~~~~~~~~ 269 (312) T d1b04a_ 218 FVYGLADAEALGIASHSEALDYLQALGFKVNPERRRCANIDEVIAFVSEWHD 269 (312) T ss_dssp EEEEETTTTTTTCCBHHHHHHHHHHTTCCCCTTCEEESSHHHHHHHHHHHHH T ss_pred EEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHHHHH T ss_conf 0011234545441219999999986376543423897999999999999996 No 22 >d1rkqa_ c.108.1.10 (A:) Hypothetical protein YidA {Escherichia coli [TaxId: 562]} Probab=20.13 E-value=29 Score=14.69 Aligned_cols=22 Identities=14% Similarity=0.031 Sum_probs=11.4 Q ss_pred CCCCHHHHHHHHHHHHHHCCCEEE Q ss_conf 488999999999999997898999 Q gi|254780128|r 7 HYQTEKDVEKRLVTGAKKLDCWVR 30 (103) Q Consensus 7 h~~~E~~ie~~l~~~lk~~G~~~~ 30 (103) +-+++..+ ..++++...|..+. T Consensus 20 ~~i~~~~~--~al~~L~~~gi~v~ 41 (271) T d1rkqa_ 20 HTISPAVK--NAIAAARARGVNVV 41 (271) T ss_dssp SCCCHHHH--HHHHHHHHTTCEEE T ss_pred CCCCHHHH--HHHHHHHHCCCEEE T ss_conf 95199999--99999997899999 Done!