Query gi|254780478|ref|YP_003064891.1| hypothetical protein CLIBASIA_01815 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 161
No_of_seqs 116 out of 644
Neff 6.7
Searched_HMMs 39220
Date Tue May 31 14:48:06 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780478.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5389 Uncharacterized protei 100.0 4.6E-32 1.2E-36 217.8 13.1 153 2-158 26-178 (181)
2 PRK00111 hypothetical protein; 99.7 1E-16 2.6E-21 123.5 7.2 94 2-112 65-159 (178)
3 pfam05258 DUF721 Protein of un 99.7 2.2E-16 5.5E-21 121.5 8.6 87 3-105 1-88 (88)
4 PRK03195 hypothetical protein; 99.6 3.5E-16 8.8E-21 120.2 7.0 88 7-111 75-167 (187)
5 COG5512 Zn-ribbon-containing, 98.2 1.8E-06 4.6E-11 60.5 5.1 89 7-111 78-175 (194)
6 COG4701 Uncharacterized protei 96.7 0.054 1.4E-06 32.9 11.6 99 16-131 26-132 (162)
7 PRK08770 DNA polymerase III su 91.0 0.85 2.2E-05 25.6 6.0 110 28-159 539-657 (663)
8 PRK08691 DNA polymerase III su 78.3 6 0.00015 20.4 5.6 114 28-159 573-696 (704)
9 PRK05648 DNA polymerase III su 76.0 6.9 0.00018 20.0 5.4 110 28-159 576-694 (705)
10 PRK12323 DNA polymerase III su 75.3 5.5 0.00014 20.6 4.4 108 28-159 600-715 (721)
11 COG5055 RAD52 Recombination DN 70.3 9.5 0.00024 19.2 6.1 20 141-160 139-158 (375)
12 cd01569 PBEF_like pre-B-cell c 55.6 13 0.00034 18.2 3.1 44 65-109 284-333 (407)
13 PRK06872 DNA polymerase III su 54.1 19 0.00048 17.3 6.0 111 28-159 573-692 (696)
14 PRK12785 fliL flagellar basal 52.3 17 0.00044 17.6 3.2 39 67-105 93-132 (167)
15 KOG1924 consensus 52.2 20 0.00051 17.2 3.6 101 28-160 629-734 (1102)
16 PRK09198 putative nicotinate p 47.4 24 0.00061 16.7 3.6 43 64-109 285-335 (462)
17 KOG0148 consensus 47.2 16 0.00042 17.7 2.5 83 63-153 4-88 (321)
18 PRK06654 fliL flagellar basal 44.5 26 0.00067 16.4 3.3 41 64-104 95-142 (177)
19 PRK08233 hypothetical protein; 42.1 29 0.00074 16.2 6.7 62 7-87 112-175 (182)
20 PRK07718 fliL flagellar basal 42.1 29 0.00074 16.2 3.2 35 67-101 68-103 (142)
21 TIGR02915 PEP_resp_reg putativ 40.7 17 0.00043 17.6 1.7 41 62-106 234-281 (451)
22 COG1580 FliL Flagellar basal b 37.7 33 0.00083 15.9 2.8 37 68-104 85-122 (159)
23 TIGR00235 udk uridine kinase; 37.4 16 0.0004 17.8 1.1 54 17-87 162-215 (220)
24 pfam03748 FliL Flagellar basal 36.8 35 0.00089 15.7 3.5 38 67-104 71-109 (145)
25 KOG1118 consensus 31.6 42 0.0011 15.1 3.5 73 77-154 116-188 (366)
26 PRK06674 DNA polymerase III su 30.3 45 0.0011 15.0 5.9 110 22-156 434-559 (563)
27 PRK08455 fliL flagellar basal 29.8 46 0.0012 15.0 3.2 39 67-105 106-145 (180)
28 TIGR01621 RluA-like pseudourid 29.3 19 0.00049 17.3 0.5 82 64-159 54-163 (222)
29 TIGR01118 lacA galactose-6-pho 27.5 13 0.00034 18.3 -0.6 48 14-73 89-136 (141)
30 KOG0739 consensus 23.9 57 0.0015 14.4 2.1 27 53-79 256-283 (439)
31 TIGR02812 fadR_gamma fatty aci 21.5 65 0.0017 14.0 2.9 23 130-153 34-56 (275)
32 TIGR00607 rad52 recombination 21.2 62 0.0016 14.1 1.8 19 142-160 114-132 (164)
33 PRK05480 uridine kinase; Provi 20.2 69 0.0018 13.9 6.5 29 18-46 150-178 (209)
No 1
>COG5389 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.98 E-value=4.6e-32 Score=217.80 Aligned_cols=153 Identities=43% Similarity=0.789 Sum_probs=144.7
Q ss_pred CCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHH
Q ss_conf 11898899999999984054688999626663108999431112133055444443334567883799993590699999
Q gi|254780478|r 2 IHFSQVIDDLLDPFLRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFLM 81 (161)
Q Consensus 2 ~~ls~ll~~~i~~~~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el~ 81 (161)
++++++-..++.|.++||......++..|.+|||+.+|++|+|++|.||++.. +.+.++.|+|+|.|+++.|+.+|
T Consensus 26 vp~a~~a~g~ldpvL~kRaGin~allqsW~eIaG~~la~~trPerI~wpRr~~----~eg~~~pgvL~iaceG~~Al~lq 101 (181)
T COG5389 26 VPIADVANGILDPVLRKRAGINTALLQSWEEIAGDTLADRTRPERIIWPRRGR----EEGPFQPGVLVIACEGAAALFLQ 101 (181)
T ss_pred CCHHHHHCCCCCHHHHHHCCCCHHHHHHHHHHHCHHHHHCCCCCEECCCCCCC----CCCCCCCCEEEEEECCHHHHHHH
T ss_conf 88566532534688898728678999879987351555247840011465576----55887874489972557887766
Q ss_pred HHHHHHHHHHHHHHCHHHHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 98999999999862731000257785577844435545566798467999999860399989999999998886332
Q gi|254780478|r 82 HDQSKIIRNVNIFFGFCAIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGC 158 (161)
Q Consensus 82 ~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~ 158 (161)
|.+.+||.|||.||||.+|.+|+|+|+++......++...+++...+...+++.++.++|+.||+||+|||++||+.
T Consensus 102 H~~geii~RvngflGf~aigriRIvQkPv~~~~~r~~~r~~pL~~a~ek~l~~~~egied~aLrqAl~rLG~~vL~~ 178 (181)
T COG5389 102 HETGEIIARVNGFLGFGAIGRIRIVQKPVKAPAKRPSTRPPPLDAAEEKRLDDMMEGIEDDALRQALERLGRAVLSE 178 (181)
T ss_pred HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC
T ss_conf 22168999988660633001577721688776557787899988799987999870274379999999983887401
No 2
>PRK00111 hypothetical protein; Provisional
Probab=99.68 E-value=1e-16 Score=123.45 Aligned_cols=94 Identities=22% Similarity=0.261 Sum_probs=77.0
Q ss_pred CCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECC-CHHHHH
Q ss_conf 1189889999999998405468899962666310899943111213305544444333456788379999359-069999
Q gi|254780478|r 2 IHFSQVIDDLLDPFLRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEG-SHALFL 80 (161)
Q Consensus 2 ~~ls~ll~~~i~~~~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~-~~a~el 80 (161)
.+|+.++.+.+..-.-....+...++.+|++|||+++|.||+|+.|. +|+|+|.|++ +||.||
T Consensus 65 ~~lGa~~~rlI~~RGW~~~vA~G~V~~~W~~IVG~eIA~H~~P~s~~----------------DG~L~V~~dSTAWATQL 128 (178)
T PRK00111 65 ESLGSVLNKEIQRRGWGKDIAGGWVTSNWEELVGAKIAQHTRVEMIK----------------DKKLFITCDSTAWATNL 128 (178)
T ss_pred CCHHHHHHHHHHHCCCCCCCCCEEHHCCCHHHHCHHHHCCCCEEEEE----------------CCEEEEEECCHHHHHHH
T ss_conf 76789999999975986564411031362366595665347315751----------------88799996888999999
Q ss_pred HHHHHHHHHHHHHHHCHHHHHEEEEEECCCCC
Q ss_conf 99899999999986273100025778557784
Q gi|254780478|r 81 MHDQSKIIRNVNIFFGFCAIKRIRFLQRSMSI 112 (161)
Q Consensus 81 ~~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~~ 112 (161)
.|++++|+.+||..+|...|++|++ +|+...
T Consensus 129 RlL~~~LL~~I~~~lG~~vV~~I~V-~GP~aP 159 (178)
T PRK00111 129 RMMQRQILQVIAEKVGPNIITELRI-FGPQAP 159 (178)
T ss_pred HHHHHHHHHHHHHHCCCCCEEEEEE-ECCCCC
T ss_conf 9999999999998838984689999-898999
No 3
>pfam05258 DUF721 Protein of unknown function (DUF721). This family contains several actinomycete proteins of unknown function.
Probab=99.67 E-value=2.2e-16 Score=121.46 Aligned_cols=87 Identities=30% Similarity=0.488 Sum_probs=79.3
Q ss_pred CHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECC-CHHHHHH
Q ss_conf 189889999999998405468899962666310899943111213305544444333456788379999359-0699999
Q gi|254780478|r 3 HFSQVIDDLLDPFLRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEG-SHALFLM 81 (161)
Q Consensus 3 ~ls~ll~~~i~~~~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~-~~a~el~ 81 (161)
+++++++.++.+....++....++..+|++|||+.+|.+|+|.+++ +|+|+|.|++ +|++||+
T Consensus 1 ~l~~~l~~~~~~~~~~~~~~~~~l~~~W~~ivG~~ia~~~~~~~i~----------------~g~L~v~v~s~~~~~eL~ 64 (88)
T pfam05258 1 SLGDLLGELLKSRGLKKALALARLLQAWPEIVGPELAGHTRPVNIR----------------DGTLVVEVDSAAWATELR 64 (88)
T ss_pred CHHHHHHHHHHHCCCHHCCHHHHHHHHHHHHHCHHHHHHHHHHEEE----------------CCEEEEEECCHHHHHHHH
T ss_conf 9899999999972823013688999884798799999753241166----------------899999958278999999
Q ss_pred HHHHHHHHHHHHHHCHHHHHEEEE
Q ss_conf 989999999998627310002577
Q gi|254780478|r 82 HDQSKIIRNVNIFFGFCAIKRIRF 105 (161)
Q Consensus 82 ~~~~~Ii~riN~~~G~~aI~~I~~ 105 (161)
|++++|++++|.++|+..|++|+|
T Consensus 65 ~~~~~Il~~ln~~~g~~~v~~I~~ 88 (88)
T pfam05258 65 YQKPELLERLNERLGEEAVRRIRF 88 (88)
T ss_pred HHHHHHHHHHHHHCCCCCEEEEEC
T ss_conf 989999999998859674204179
No 4
>PRK03195 hypothetical protein; Provisional
Probab=99.65 E-value=3.5e-16 Score=120.19 Aligned_cols=88 Identities=18% Similarity=0.334 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHCH----HHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECC-CHHHHHH
Q ss_conf 899999999984054----68899962666310899943111213305544444333456788379999359-0699999
Q gi|254780478|r 7 VIDDLLDPFLRRRAG----ISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEG-SHALFLM 81 (161)
Q Consensus 7 ll~~~i~~~~~krg~----~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~-~~a~el~ 81 (161)
.+..++..+++.||+ ....++.+|++|||+++|.||+|+.|. +|+|+|.|++ +||+||+
T Consensus 75 ~lg~~l~~li~~RGW~~~vA~G~V~~rW~~iVG~~IA~H~~P~s~~----------------dg~L~V~~dStAWATQLR 138 (187)
T PRK03195 75 PLGKAARDLAKKRGWSARVAEGTVLGQWSAVVGEQIAEHATPTALN----------------DGVLSVSAESTAWATQLR 138 (187)
T ss_pred HHHHHHHHHHHHCCCCCCCCEECHHCCCHHHHCHHHHHCCCEEEEE----------------CCEEEEEECCHHHHHHHH
T ss_conf 7999999999976986565502052142476685556027604753----------------896899967879999999
Q ss_pred HHHHHHHHHHHHHHCHHHHHEEEEEECCCC
Q ss_conf 989999999998627310002577855778
Q gi|254780478|r 82 HDQSKIIRNVNIFFGFCAIKRIRFLQRSMS 111 (161)
Q Consensus 82 ~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~ 111 (161)
|++++|+.+||..+|..+|++|++ +++..
T Consensus 139 ll~~qLl~ri~~~lG~gvV~~i~V-~GP~a 167 (187)
T PRK03195 139 MMQSQLLAKIAAAVGNGVVTSLKI-TGPAA 167 (187)
T ss_pred HHHHHHHHHHHHHCCCCCEEEEEE-ECCCC
T ss_conf 989999999998758884689999-79899
No 5
>COG5512 Zn-ribbon-containing, possibly RNA-binding protein and truncated derivatives [General function prediction only]
Probab=98.24 E-value=1.8e-06 Score=60.49 Aligned_cols=89 Identities=21% Similarity=0.309 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHHCH----HHHHHHHHHHHHHH----HHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECC-CHH
Q ss_conf 899999999984054----68899962666310----899943111213305544444333456788379999359-069
Q gi|254780478|r 7 VIDDLLDPFLRRRAG----ISMSLVSAWSEIVG----SNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEG-SHA 77 (161)
Q Consensus 7 ll~~~i~~~~~krg~----~~~~l~~~W~~IVG----~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~-~~a 77 (161)
++...+...+.+++. ......++|.++|| +.+|.|++|..++ +++|.|.++. .||
T Consensus 78 ~lrq~l~~~~~kq~~~~~v~~~~~~~~W~~~vg~~p~~~iA~htr~~~~~----------------d~Vlsv~~d~~~Wa 141 (194)
T COG5512 78 LLRQVLLELLNKQGWSPLVALGFVLSQWREEVGWRPCPVIAEHTRPEPLR----------------DGVLSVTCDLTAWA 141 (194)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC----------------CCEEEEECCHHHHH
T ss_conf 89999999987441336676401255577752778886335778777556----------------76478845167899
Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHEEEEEECCCC
Q ss_conf 9999989999999998627310002577855778
Q gi|254780478|r 78 LFLMHDQSKIIRNVNIFFGFCAIKRIRFLQRSMS 111 (161)
Q Consensus 78 ~el~~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~ 111 (161)
.+|++++++++..++.-.|.+.++.+++.-....
T Consensus 142 t~L~~r~~~Ll~~i~e~~g~~~~~~~k~~~~~~~ 175 (194)
T COG5512 142 TTLRRRQAQLLACIAERVGNNPGESLKIGGPRAP 175 (194)
T ss_pred HHHHHHHHHHHHCHHHHCCCCCCCEEEECCCCCC
T ss_conf 9999989987423075539984320044266765
No 6
>COG4701 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=96.74 E-value=0.054 Score=32.95 Aligned_cols=99 Identities=12% Similarity=0.215 Sum_probs=72.4
Q ss_pred HHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCC-HHHHHHHHHHHHHHHHHHH
Q ss_conf 984054688999626663108999431112133055444443334567883799993590-6999999899999999986
Q gi|254780478|r 16 LRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGS-HALFLMHDQSKIIRNVNIF 94 (161)
Q Consensus 16 ~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~-~a~el~~~~~~Ii~riN~~ 94 (161)
.-++|.+.-.|=.+-.+|.-.++-.+|+--.+. +|+|++.+-++ |.+-+-|.+..|+.+|-.
T Consensus 26 IqkkalAil~iNr~lq~ilPqqlqg~~RvaN~r----------------q~~LvLEtANAsvrm~llyeQ~~lL~~lrq- 88 (162)
T COG4701 26 IQKKALAILLINRQLQDILPQQLQGQVRVANVR----------------QGNLVLETANASVRMKLLYEQLHLLTQLRQ- 88 (162)
T ss_pred HHHHHHHHHHHHHHHHHHCHHHHCCCEEEEEEC----------------CCEEEEECCHHHHHHHHHHHHHHHHHHHHH-
T ss_conf 999989999999999986748640414563202----------------762666313099999998855999999986-
Q ss_pred HCHHHHHEEEEEECCC-------CCCCCCCCCCCCCCCHHHHHH
Q ss_conf 2731000257785577-------844435545566798467999
Q gi|254780478|r 95 FGFCAIKRIRFLQRSM-------SIVNQAPSVSIPALEKDDCEK 131 (161)
Q Consensus 95 ~G~~aI~~I~~~q~~~-------~~~~~~~~~~~~~l~~~~~~~ 131 (161)
-||.-+..|.|+-.+- ........++.+++++...+-
T Consensus 89 q~fP~l~sieirINP~l~~~~~~~s~da~~~~~~~~~s~~~~h~ 132 (162)
T COG4701 89 QGFPHLISIEIRINPELYRQSKITSEDARAANPRPPLSEHAAHV 132 (162)
T ss_pred CCCCCCEEEEEEECHHHHHCCCCCCHHHHHCCCCCCCCHHHHHH
T ss_conf 23875235899988778734566535466479999987477899
No 7
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=90.97 E-value=0.85 Score=25.60 Aligned_cols=110 Identities=15% Similarity=0.127 Sum_probs=68.0
Q ss_pred HHHHHHHH--------HHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHH-HHHHHHHHHHHHHHHHHHCHH
Q ss_conf 62666310--------899943111213305544444333456788379999359069-999998999999999862731
Q gi|254780478|r 28 SAWSEIVG--------SNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHA-LFLMHDQSKIIRNVNIFFGFC 98 (161)
Q Consensus 28 ~~W~~IVG--------~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a-~el~~~~~~Ii~riN~~~G~~ 98 (161)
.+|..+|- .++|.+|..+... ++.|.+.++.+.. +.=.-....|-+.++.+||..
T Consensus 539 ~~W~~lV~qL~L~GlarqLAlNs~Lvs~~----------------d~~L~L~L~~~~~hL~ne~~~erL~qALse~lG~~ 602 (663)
T PRK08770 539 EQWLELVTRSGLNGPSRQLAANAAFIGHR----------------DGVLRLALAPGFEYLNSERSIANLAQALAPVLGNA 602 (663)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHEEE----------------CCEEEEEECHHHHHHCCHHHHHHHHHHHHHHHCCC
T ss_conf 26999998669817999999834454236----------------89899997888787569999999999999997899
Q ss_pred HHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 0002577855778444355455667984679999998603999899999999988863320
Q gi|254780478|r 99 AIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 99 aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~~ 159 (161)
| +|.|..+..... .+.........+.+...+..+ -.||.++.-+++||..|.--|
T Consensus 603 -V-~L~Ievg~~~~e--TPa~r~~r~~aErqqqAeqaL--qnDP~VQ~L~q~FgAqL~~eS 657 (663)
T PRK08770 603 -P-RIVIETGSADVE--TLHERANRQKGERQSAAETAF--MNDPTVQLLIQQQGARVVPDS 657 (663)
T ss_pred -E-EEEEEECCCCCC--CHHHHHHHHHHHHHHHHHHHH--HCCHHHHHHHHHHCCEECCCC
T ss_conf -7-999987998886--999999999999999999999--629899999997299987787
No 8
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=78.30 E-value=6 Score=20.40 Aligned_cols=114 Identities=15% Similarity=0.171 Sum_probs=60.7
Q ss_pred HHHHHHH---------HHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHH-HHHHHHHHHHHHHHHCH
Q ss_conf 6266631---------0899943111213305544444333456788379999359069999-99899999999986273
Q gi|254780478|r 28 SAWSEIV---------GSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFL-MHDQSKIIRNVNIFFGF 97 (161)
Q Consensus 28 ~~W~~IV---------G~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el-~~~~~~Ii~riN~~~G~ 97 (161)
.+|..+| ...+|.+|.-..+. ..++.|.+.+.++...-. .-.+..+-+-++.+||.
T Consensus 573 ~~W~~lv~~L~~~lg~~~~lA~~~~l~~~~--------------~d~~~l~L~l~~~~~hL~~~~~~~~L~~ALs~~~g~ 638 (704)
T PRK08691 573 ENWAAIVRHFARKLGAAQMPAQHSAWTEYH--------------PDTGLMVLAMTAEARATADKKRLDKIRDTLAQAYGL 638 (704)
T ss_pred CHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--------------CCCCEEEEEECHHHHHHCCHHHHHHHHHHHHHHHCC
T ss_conf 019999987212220999999999887604--------------778869996278977537999999999999998689
Q ss_pred HHHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 10002577855778444355455667984679999998603999899999999988863320
Q gi|254780478|r 98 CAIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 98 ~aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~~ 159 (161)
.. ++.+..+.-......+.........+......+.+ ..|+..+.=.++||..+.--|
T Consensus 639 ~v--~l~i~~~~~~~~~~TP~~~~~~~~~er~~~A~~~l--~~Dp~VQ~L~~~F~A~lde~S 696 (704)
T PRK08691 639 QL--TLQTQDWRDEAGRETPAMQDKRVQAEDRQKAQALL--EADPAAQKILQAFGAQWQPES 696 (704)
T ss_pred CE--EEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHH--HHCHHHHHHHHHHCCEECCCC
T ss_conf 86--99999657886553999999999999999999999--719899999998299875670
No 9
>PRK05648 DNA polymerase III subunits gamma and tau; Reviewed
Probab=76.00 E-value=6.9 Score=20.00 Aligned_cols=110 Identities=14% Similarity=0.255 Sum_probs=64.1
Q ss_pred HHHHHHHH--------HHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHH-HHHHHHHHHHHHHHHHHHCHH
Q ss_conf 62666310--------899943111213305544444333456788379999359069-999998999999999862731
Q gi|254780478|r 28 SAWSEIVG--------SNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHA-LFLMHDQSKIIRNVNIFFGFC 98 (161)
Q Consensus 28 ~~W~~IVG--------~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a-~el~~~~~~Ii~riN~~~G~~ 98 (161)
.+|..+|- .++|.+|..+... ++.+++.++++.. +.=.-.+..|-+-++.+||..
T Consensus 576 ~~Wa~lV~qL~L~GLvrQLAlNS~L~~~~----------------gd~l~L~L~~~q~hL~ne~~~erL~eALSe~lG~~ 639 (705)
T PRK05648 576 AEWLELFPQLGVSGMTGSIAANCTLIAAD----------------GDHWLLHLDPGQSALFNATQQRRLNDALNQYLGRT 639 (705)
T ss_pred CHHHHHHHHCCCCHHHHHHHHCCEEEEEE----------------CCEEEEEECHHHHHHCCHHHHHHHHHHHHHHHCCC
T ss_conf 53999998769808999999620301378----------------99999998889786579999999999999986899
Q ss_pred HHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 0002577855778444355455667984679999998603999899999999988863320
Q gi|254780478|r 99 AIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 99 aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~~ 159 (161)
. +|.|..+... ...+.........+......+.+. .||.++.-+.+||..|.--|
T Consensus 640 V--~L~Ievge~~--~eTPae~r~ri~qErqqqAeqaL~--nDP~VQ~L~q~FgAeLde~S 694 (705)
T PRK05648 640 L--KLEIELIKPE--QETPAQAAARRRAERQRAAEASIH--ADPLIQQMIQQFGAVVREDT 694 (705)
T ss_pred E--EEEEEECCCC--CCCHHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHCCCEECCCC
T ss_conf 7--9999879977--779999999999999999999997--09899999998199986786
No 10
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.33 E-value=5.5 Score=20.60 Aligned_cols=108 Identities=14% Similarity=0.150 Sum_probs=60.2
Q ss_pred HHHHHHHH--------HHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHCHHH
Q ss_conf 62666310--------8999431112133055444443334567883799993590699999989999999998627310
Q gi|254780478|r 28 SAWSEIVG--------SNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFLMHDQSKIIRNVNIFFGFCA 99 (161)
Q Consensus 28 ~~W~~IVG--------~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el~~~~~~Ii~riN~~~G~~a 99 (161)
.+|..+|. .++|.+|..+.. .+++|++++...+... .-.+..|-+-++.+||...
T Consensus 600 ~~W~~lv~~L~l~gl~~qLA~ns~l~~~----------------~~~~l~Lr~~~~~L~~-~~~~~~L~~ALs~~~G~~v 662 (721)
T PRK12323 600 GDWPELAARLPLTGLAQQLARQSELAGV----------------VGDTVHLRVPVAALAE-SEVRERLQTVLCEHFGQPV 662 (721)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHHCC----------------CCCEEEEECCHHHHCC-HHHHHHHHHHHHHHHCCCE
T ss_conf 5599999866980699999971155413----------------5998898077467589-9999999999999868986
Q ss_pred HHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 002577855778444355455667984679999998603999899999999988863320
Q gi|254780478|r 100 IKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 100 I~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~~ 159 (161)
++.|..+.... .+.........+......+.+. .|+.++.-+++||..|.--|
T Consensus 663 --~l~Ie~g~~~~---Tpa~~~~~~~~er~~~A~~aL~--~Dp~Vq~L~~~FgAel~~~S 715 (721)
T PRK12323 663 --RVECEVGAVDG---TAAAVDAIERAERQRAAEDAIA--ADPFVQALVRDFGGQVVPGS 715 (721)
T ss_pred --EEEEEECCCCC---CHHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHCCEECCCC
T ss_conf --89998699888---9899999999999999999996--09999999998299985586
No 11
>COG5055 RAD52 Recombination DNA repair protein (RAD52 pathway) [DNA replication, recombination, and repair]
Probab=70.28 E-value=9.5 Score=19.16 Aligned_cols=20 Identities=45% Similarity=0.845 Sum_probs=17.7
Q ss_pred CHHHHHHHHHHHHHHHHHHC
Q ss_conf 98999999999888633202
Q gi|254780478|r 141 DEQLKRALIRFGHAVVGCSY 160 (161)
Q Consensus 141 d~eLr~AL~rLg~~vl~~~~ 160 (161)
-..|+.||+.||..+.-|-|
T Consensus 139 tDALKRALr~Fgnslgnc~y 158 (375)
T COG5055 139 TDALKRALRNFGNSLGNCLY 158 (375)
T ss_pred HHHHHHHHHHHHHHHHHHHH
T ss_conf 79999999987766655532
No 12
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=55.62 E-value=13 Score=18.21 Aligned_cols=44 Identities=20% Similarity=0.422 Sum_probs=22.2
Q ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHH-----HHHHCHHHHH-EEEEEECC
Q ss_conf 837999935906999999899999999-----9862731000-25778557
Q gi|254780478|r 65 SGTLIIACEGSHALFLMHDQSKIIRNV-----NIFFGFCAIK-RIRFLQRS 109 (161)
Q Consensus 65 ~g~L~i~v~~~~a~el~~~~~~Ii~ri-----N~~~G~~aI~-~I~~~q~~ 109 (161)
+|+|+|+-||+--.++-....+++..+ |+- ||++.. .|+++||.
T Consensus 284 ~g~lViRPDSGDp~~ii~~~l~~L~~~FG~t~N~K-GYKvL~~~vriIqGD 333 (407)
T cd01569 284 GGTLVIRPDSGDPVDIICGVLEILGEIFGGTVNSK-GYKVLNPHVRIIQGD 333 (407)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHHHHCCEECCC-CEEECCCCEEEEECC
T ss_conf 98299947999837889989999999848721577-516147742378548
No 13
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.09 E-value=19 Score=17.34 Aligned_cols=111 Identities=16% Similarity=0.116 Sum_probs=63.2
Q ss_pred HHHHHHH--------HHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHH-HHHHHHHHHHHHHHHHHHCHH
Q ss_conf 6266631--------0899943111213305544444333456788379999359069-999998999999999862731
Q gi|254780478|r 28 SAWSEIV--------GSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHA-LFLMHDQSKIIRNVNIFFGFC 98 (161)
Q Consensus 28 ~~W~~IV--------G~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a-~el~~~~~~Ii~riN~~~G~~ 98 (161)
..|..++ =.++|.+|..+... ++.+.+.++.... +-=.-....|-+-++.+||-.
T Consensus 573 D~W~~li~qL~L~GlvrQLA~NSvl~~~~----------------gd~l~L~L~~~q~hL~nd~~~erL~~ALse~lG~~ 636 (696)
T PRK06872 573 DEWTKIVERLGLTGLSKQLALNSVLLSKT----------------GDEIKLGLRSAKSHLDNDRSIKSLAQALSKLQGKD 636 (696)
T ss_pred CCHHHHHHHCCCCHHHHHHHHHHHHHEEC----------------CCEEEEEECHHHHHHCCHHHHHHHHHHHHHHHCCC
T ss_conf 73999998769827999999843111122----------------99889987789887669999999999999987899
Q ss_pred HHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 0002577855778444355455667984679999998603999899999999988863320
Q gi|254780478|r 99 AIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 99 aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl~~~ 159 (161)
. ++.|..|.... ...+......+..+......+.+ -.||..+.-+++||..|.--|
T Consensus 637 V--~L~IevGd~~~-~eTPae~r~ri~qEr~~qA~~sL--~~DP~VQ~L~q~FgAqLde~S 692 (696)
T PRK06872 637 I--RLTISLGDDAN-LKTPLEYRRQIYQALREKAKKAL--QKDEKLQLLLQEFDAELDLSS 692 (696)
T ss_pred E--EEEEEECCCCC-CCCHHHHHHHHHHHHHHHHHHHH--HCCHHHHHHHHHCCCEECCCC
T ss_conf 5--89999899877-77999999999999999999999--739899999997098885787
No 14
>PRK12785 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=52.28 E-value=17 Score=17.58 Aligned_cols=39 Identities=0% Similarity=-0.006 Sum_probs=29.4
Q ss_pred EEEEEECCC-HHHHHHHHHHHHHHHHHHHHCHHHHHEEEE
Q ss_conf 799993590-699999989999999998627310002577
Q gi|254780478|r 67 TLIIACEGS-HALFLMHDQSKIIRNVNIFFGFCAIKRIRF 105 (161)
Q Consensus 67 ~L~i~v~~~-~a~el~~~~~~Ii~riN~~~G~~aI~~I~~ 105 (161)
.+.+.+.++ .+.++....+.|.+.++.+|.-....++.=
T Consensus 93 ~i~Lev~~~~~~~~~~~~~P~IrD~i~~~L~~~~~~dL~~ 132 (167)
T PRK12785 93 KVVLEVKDEKQVEQIKPLMPRVTDLFQTYLRELRSSDLNG 132 (167)
T ss_pred EEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHC
T ss_conf 9999988887899998753679999999997189989709
No 15
>KOG1924 consensus
Probab=52.24 E-value=20 Score=17.17 Aligned_cols=101 Identities=13% Similarity=0.204 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHCHH-HHHEEEEE
Q ss_conf 62666310899943111213305544444333456788379999359069999998999999999862731-00025778
Q gi|254780478|r 28 SAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFLMHDQSKIIRNVNIFFGFC-AIKRIRFL 106 (161)
Q Consensus 28 ~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el~~~~~~Ii~riN~~~G~~-aI~~I~~~ 106 (161)
.+|..||-.+++..|.=++.+ |=++..+.+..++-.-|--. .+.+=..
T Consensus 629 ~nW~kI~p~d~s~~cFWvkv~------------------------------Edk~en~dlfakL~~~Fatq~k~~k~~e- 677 (1102)
T KOG1924 629 FNWSKIVPRDLSENCFWVKVN------------------------------EDKLENDDLFAKLALKFATQPKVKKEQE- 677 (1102)
T ss_pred CCCCCCCCCCCCCCCEEEECC------------------------------HHHCCCHHHHHHHHHHHHCCCCCCCCCC-
T ss_conf 771126802057000356313------------------------------6530266799999887503653333321-
Q ss_pred ECCCCCC--CCCCCCCCCCCCHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 5577844--4355455667984679999998603--9998999999999888633202
Q gi|254780478|r 107 QRSMSIV--NQAPSVSIPALEKDDCEKIDKMTEG--IKDEQLKRALIRFGHAVVGCSY 160 (161)
Q Consensus 107 q~~~~~~--~~~~~~~~~~l~~~~~~~l~~~l~~--I~d~eLr~AL~rLg~~vl~~~~ 160 (161)
+..... ..++......++.+...++.=.+.. +..+++|.++.+.-..||.-+.
T Consensus 678 -~~eekkt~~kKk~kel~ilDsKtaQnLsIflgS~rmpyeeik~~ILevne~vLse~~ 734 (1102)
T KOG1924 678 -GGEEKKTGTKKKVKELRILDSKTAQNLSIFLGSFRMPYEEIKNVILEVNEDVLSESM 734 (1102)
T ss_pred -CCCCCCCHHHHHHHHHEECCHHHHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHH
T ss_conf -220044301434212123166878778988851348799997898520488878999
No 16
>PRK09198 putative nicotinate phosphoribosyltransferase; Provisional
Probab=47.43 E-value=24 Score=16.69 Aligned_cols=43 Identities=12% Similarity=0.331 Sum_probs=25.4
Q ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHC-------HHHHH-EEEEEECC
Q ss_conf 883799993590699999989999999998627-------31000-25778557
Q gi|254780478|r 64 VSGTLIIACEGSHALFLMHDQSKIIRNVNIFFG-------FCAIK-RIRFLQRS 109 (161)
Q Consensus 64 ~~g~L~i~v~~~~a~el~~~~~~Ii~riN~~~G-------~~aI~-~I~~~q~~ 109 (161)
.+|+|+|+-||+--.++-... ++.+...|| |++.. .|+++||.
T Consensus 285 r~g~lViRPDSGDpv~iv~~~---l~~L~~~FG~t~N~KGYKVL~~~vrvIqGD 335 (462)
T PRK09198 285 RGAKLVIRPDSGDPVDIICGA---LELLDDIFGSTVNSKGYKVLNKHVGLIQGD 335 (462)
T ss_pred CCCEEEEECCCCCHHHHHHHH---HHHHHHHHCCCCCCCCEEECCCCEEEEECC
T ss_conf 698289807999837779999---999999849710577526047642168558
No 17
>KOG0148 consensus
Probab=47.21 E-value=16 Score=17.71 Aligned_cols=83 Identities=18% Similarity=0.246 Sum_probs=39.0
Q ss_pred CCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHCHHHHHEEEEEECCCCC--CCCCCCCCCCCCCHHHHHHHHHHHHCCC
Q ss_conf 78837999935906999999899999999986273100025778557784--4435545566798467999999860399
Q gi|254780478|r 63 DVSGTLIIACEGSHALFLMHDQSKIIRNVNIFFGFCAIKRIRFLQRSMSI--VNQAPSVSIPALEKDDCEKIDKMTEGIK 140 (161)
Q Consensus 63 ~~~g~L~i~v~~~~a~el~~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~~--~~~~~~~~~~~l~~~~~~~l~~~l~~I~ 140 (161)
....||+|.--.+...| +-|+.-.|. .|- |++-+++-..+.. ........++.++..-.-.+......|+
T Consensus 4 ~~prtlyvgnld~~vte-----~~i~~lf~q-ig~--v~~~k~i~~e~~v~wa~~p~nQsk~t~~~hfhvfvgdls~eI~ 75 (321)
T KOG0148 4 DEPRTLYVGNLDSTVTE-----DFIATLFNQ-IGS--VTKTKVIFDELKVNWATAPGNQSKPTSNQHFHVFVGDLSPEID 75 (321)
T ss_pred CCCCEEEEECCCHHHHH-----HHHHHHHHH-HCC--CCCCEEEHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCCHHCC
T ss_conf 88726786056704689-----999999976-055--2100030533311012376557887500124588000330104
Q ss_pred CHHHHHHHHHHHH
Q ss_conf 9899999999988
Q gi|254780478|r 141 DEQLKRALIRFGH 153 (161)
Q Consensus 141 d~eLr~AL~rLg~ 153 (161)
+++||+|+..||+
T Consensus 76 ~e~lr~aF~pFGe 88 (321)
T KOG0148 76 NEKLREAFAPFGE 88 (321)
T ss_pred HHHHHHHHCCCCC
T ss_conf 5789987345355
No 18
>PRK06654 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=44.55 E-value=26 Score=16.42 Aligned_cols=41 Identities=10% Similarity=0.098 Sum_probs=31.2
Q ss_pred CCCEEEEEE-------CCCHHHHHHHHHHHHHHHHHHHHCHHHHHEEE
Q ss_conf 883799993-------59069999998999999999862731000257
Q gi|254780478|r 64 VSGTLIIAC-------EGSHALFLMHDQSKIIRNVNIFFGFCAIKRIR 104 (161)
Q Consensus 64 ~~g~L~i~v-------~~~~a~el~~~~~~Ii~riN~~~G~~aI~~I~ 104 (161)
..++.++.+ +.+...||.-..-++.+.+|.||+-+...++|
T Consensus 95 ~~at~Vv~~aLGY~~n~k~l~~EL~~R~v~lkD~i~~yfs~kT~~ELr 142 (177)
T PRK06654 95 PPKTFVVKLALGYAENNVNILQELGRQKVRLKDIIREYFSQRTGQEIK 142 (177)
T ss_pred CCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 872189998742467887799999764858999999998451099875
No 19
>PRK08233 hypothetical protein; Provisional
Probab=42.11 E-value=29 Score=16.19 Aligned_cols=62 Identities=6% Similarity=0.090 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHH--HHHHH
Q ss_conf 8999999999840546889996266631089994311121330554444433345678837999935906999--99989
Q gi|254780478|r 7 VIDDLLDPFLRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALF--LMHDQ 84 (161)
Q Consensus 7 ll~~~i~~~~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~e--l~~~~ 84 (161)
+..++.+..-.++|-....++.+|..-|=|.+..+++|.+-. +-++| ++..|.+ ++|.+
T Consensus 112 l~RRi~RDi~Er~gr~i~svl~qY~~~VrPm~~~fvePsk~~-----------------ADiII--d~~~aid~i~~~i~ 172 (182)
T PRK08233 112 MARRILRDFKEDTGNEIHNDLKHYLNYARPLYLEALDTVKPN-----------------ADIVL--DGALSVEEIINQIE 172 (182)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCHHHHC-----------------CCEEE--ECCCCHHHHHHHHH
T ss_conf 999888887776188789999999998788999985700321-----------------96898--58607999999999
Q ss_pred HHH
Q ss_conf 999
Q gi|254780478|r 85 SKI 87 (161)
Q Consensus 85 ~~I 87 (161)
..+
T Consensus 173 ~~l 175 (182)
T PRK08233 173 EEL 175 (182)
T ss_pred HHH
T ss_conf 999
No 20
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=42.08 E-value=29 Score=16.18 Aligned_cols=35 Identities=6% Similarity=-0.070 Sum_probs=18.4
Q ss_pred EEEEEECCC-HHHHHHHHHHHHHHHHHHHHCHHHHH
Q ss_conf 799993590-69999998999999999862731000
Q gi|254780478|r 67 TLIIACEGS-HALFLMHDQSKIIRNVNIFFGFCAIK 101 (161)
Q Consensus 67 ~L~i~v~~~-~a~el~~~~~~Ii~riN~~~G~~aI~ 101 (161)
+..+.+++. ...|++...++|-+.|-..+......
T Consensus 68 ~i~le~~~~~~~~El~~r~pqIrD~Ii~~Ls~kt~~ 103 (142)
T PRK07718 68 SFKIETDSKKAKEELEKRDFQVKDIIISELAEMNAE 103 (142)
T ss_pred EEEEEECCHHHHHHHHHCCHHHHHHHHHHHHCCCHH
T ss_conf 999998898899776651425699999999749997
No 21
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator; InterPro: IPR014264 Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see Q06065 from SWISSPROT). These proteins have a Fis family DNA binding sequence, a response regulator receiver domain, and sigma-54 interaction domain. They are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria, where members of IPR014265 from INTERPRO and IPR014266 from INTERPRO also occur..
Probab=40.69 E-value=17 Score=17.62 Aligned_cols=41 Identities=24% Similarity=0.247 Sum_probs=29.8
Q ss_pred CCCCCEEEEEECC--CHHHH---HHHHHHHHHHHHHHHHCHH--HHHEEEEE
Q ss_conf 6788379999359--06999---9998999999999862731--00025778
Q gi|254780478|r 62 SDVSGTLIIACEG--SHALF---LMHDQSKIIRNVNIFFGFC--AIKRIRFL 106 (161)
Q Consensus 62 ~~~~g~L~i~v~~--~~a~e---l~~~~~~Ii~riN~~~G~~--aI~~I~~~ 106 (161)
..++|||++--=| |+.+| |.++|..+|||| |.+ ---++|++
T Consensus 234 ~A~~GTLFLDEIGDLP~~LQAKLLRFLQErVIER~----GGR~eIPVDVRvv 281 (451)
T TIGR02915 234 YAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERL----GGREEIPVDVRVV 281 (451)
T ss_pred EECCCCCCCCCHHCCCHHHHHHHHHHHHHHHHHCC----CCCCCCCCCEEEE
T ss_conf 50688301111220676689999987546663105----8872456142675
No 22
>COG1580 FliL Flagellar basal body-associated protein [Cell motility and secretion]
Probab=37.71 E-value=33 Score=15.86 Aligned_cols=37 Identities=5% Similarity=0.095 Sum_probs=26.9
Q ss_pred EEEEECC-CHHHHHHHHHHHHHHHHHHHHCHHHHHEEE
Q ss_conf 9999359-069999998999999999862731000257
Q gi|254780478|r 68 LIIACEG-SHALFLMHDQSKIIRNVNIFFGFCAIKRIR 104 (161)
Q Consensus 68 L~i~v~~-~~a~el~~~~~~Ii~riN~~~G~~aI~~I~ 104 (161)
+.+.+.+ +...|+++..++|.+++=..|.-.....++
T Consensus 85 i~l~~~n~~~~~el~~~~p~vrd~li~lfsskt~~eL~ 122 (159)
T COG1580 85 ITLEVANKALLEELEEKKPEVRDALLMLFSSKTAAELS 122 (159)
T ss_pred EEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHC
T ss_conf 98860888899999975689999999999717898836
No 23
>TIGR00235 udk uridine kinase; InterPro: IPR000764 Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP A cDNA for uridine kinase from mouse brain was found which encodes a protein of 277 amino acids. A truncated form of the cDNA was expressed in Escherichia coli, and shown to display uridine kinase activity and to readily form a tetramer, the most active form of the wild-type enzyme. Sequence analysis has identified three ATP-binding site consensus motifs. The predicted secondary structure, and sequence comparison with kinases of known structure, is consistent with uridine kinase having the alpha/beta core nucleotide-binding fold common to many kinases .; GO: 0005524 ATP binding, 0016773 phosphotransferase activity alcohol group as acceptor.
Probab=37.43 E-value=16 Score=17.84 Aligned_cols=54 Identities=20% Similarity=0.243 Sum_probs=37.6
Q ss_pred HHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH
Q ss_conf 84054688999626663108999431112133055444443334567883799993590699999989999
Q gi|254780478|r 17 RRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFLMHDQSKI 87 (161)
Q Consensus 17 ~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el~~~~~~I 87 (161)
.+||-....++.+|.++|-|.+....+|.|=. +=|+|=-.+....-+..+...|
T Consensus 162 ~~RGR~~dSvI~Qy~~~V~Pm~~~FvEP~K~~-----------------AD~IiP~g~~n~~A~~~l~~~I 215 (220)
T TIGR00235 162 EERGRSLDSVIDQYRKTVRPMYLQFVEPTKQY-----------------ADLIIPEGGKNEVAINVLKTKI 215 (220)
T ss_pred HHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCC-----------------CCEEECCCCCCHHHHHHHHHHH
T ss_conf 54289788999999985346210145501014-----------------6676258988168899999999
No 24
>pfam03748 FliL Flagellar basal body-associated protein FliL. This FliL protein controls the rotational direction of the flagella during chemotaxis. FliL is a cytoplasmic membrane protein associated with the basal body.
Probab=36.76 E-value=35 Score=15.67 Aligned_cols=38 Identities=8% Similarity=0.073 Sum_probs=28.0
Q ss_pred EEEEEECCC-HHHHHHHHHHHHHHHHHHHHCHHHHHEEE
Q ss_conf 799993590-69999998999999999862731000257
Q gi|254780478|r 67 TLIIACEGS-HALFLMHDQSKIIRNVNIFFGFCAIKRIR 104 (161)
Q Consensus 67 ~L~i~v~~~-~a~el~~~~~~Ii~riN~~~G~~aI~~I~ 104 (161)
.+.+.+.++ .+-+++...+.|.+.++.+|.-....++.
T Consensus 71 ~i~l~~~~~~~~~~~~~~~p~Ird~ii~~l~~~~~~dl~ 109 (145)
T pfam03748 71 SIALEVRDPKAAEELEKHMPLIRDAILMLLSSKTAEDLS 109 (145)
T ss_pred EEEEEECCHHHHHHHHHCCHHHHHHHHHHHHCCCHHHCC
T ss_conf 999997688789988862633379999998658821214
No 25
>KOG1118 consensus
Probab=31.56 E-value=42 Score=15.15 Aligned_cols=73 Identities=19% Similarity=0.194 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHHHCHHHHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 999999899999999986273100025778557784443554556679846799999986039998999999999888
Q gi|254780478|r 77 ALFLMHDQSKIIRNVNIFFGFCAIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHA 154 (161)
Q Consensus 77 a~el~~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~ 154 (161)
..++-+.++.+-..++.-|=.. .+.....+-. ......++...+.++ .+........++|++||.|+++|...
T Consensus 116 m~~i~evk~sl~~~vkq~Fldp-L~~l~~~elK-~i~hh~KKLEgRRld---yD~kkkk~~K~~dEelrqA~eKfEES 188 (366)
T KOG1118 116 MREIGEVKDSLDDNVKQNFLDP-LQNLQLKELK-DIQHHRKKLEGRRLD---YDYKKKKQGKIKDEELRQALEKFEES 188 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH-HHHHHHHHHHHHHHH---HHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf 9999988999999999888679-9876677888-988999876212257---78888773458709999999998888
No 26
>PRK06674 DNA polymerase III subunits gamma and tau; Validated
Probab=30.32 E-value=45 Score=15.02 Aligned_cols=110 Identities=9% Similarity=0.122 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHH----------HHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHH-----HHH
Q ss_conf 6889996266631089----------9943111213305544444333456788379999359069999998-----999
Q gi|254780478|r 22 ISMSLVSAWSEIVGSN----------IARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACEGSHALFLMHD-----QSK 86 (161)
Q Consensus 22 ~~~~l~~~W~~IVG~~----------~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~~~~a~el~~~-----~~~ 86 (161)
....+...|++|+-.- +-.-++|+... +++++|..+..+.-++-.. ...
T Consensus 434 ~l~~~~~~W~~il~~lk~~~~~~~~all~~~~Pvaa~----------------~~~~vl~F~~~~~~~~~~~~~~~~~~~ 497 (563)
T PRK06674 434 DLEQLKAVWGELLGRLKQQNKVSHAALLENSEPVAAS----------------DDAFVLAFKYEIHCKMASENREAVDTN 497 (563)
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCEEEEC----------------CCCEEEEECCHHHHHHHCCCHHHHHHH
T ss_conf 7999998999999999841568799998079125435----------------992799958488999862557889999
Q ss_pred HHHHHHHHHCHHHHHEEEEEEC-CCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 9999998627310002577855-778444355455667984679999998603999899999999988863
Q gi|254780478|r 87 IIRNVNIFFGFCAIKRIRFLQR-SMSIVNQAPSVSIPALEKDDCEKIDKMTEGIKDEQLKRALIRFGHAVV 156 (161)
Q Consensus 87 Ii~riN~~~G~~aI~~I~~~q~-~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~I~d~eLr~AL~rLg~~vl 156 (161)
+-+.+..++|.. . +|.++.. .-...+........ ... ++.-+.-+||=..+|+.-||..++
T Consensus 498 l~~~l~~~~g~~-~-~iv~v~~~~w~~iR~e~i~~~~-~~~------~~~~~~~edp~V~eA~~lFG~dlV 559 (563)
T PRK06674 498 VEQILFELLSKR-L-NMIAIPKSEWGKIREDFLQREG-GSS------EESPEKEEDPLIEEAKKLVGQELI 559 (563)
T ss_pred HHHHHHHHHCCC-E-EEEEEEHHHHHHHHHHHHHHCC-CCH------HHCCCCCCCHHHHHHHHHCCCCEE
T ss_conf 999999995897-2-7999527878999999998525-551------012554358699999986398615
No 27
>PRK08455 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=29.78 E-value=46 Score=14.96 Aligned_cols=39 Identities=5% Similarity=0.014 Sum_probs=29.0
Q ss_pred EEEEEECCC-HHHHHHHHHHHHHHHHHHHHCHHHHHEEEE
Q ss_conf 799993590-699999989999999998627310002577
Q gi|254780478|r 67 TLIIACEGS-HALFLMHDQSKIIRNVNIFFGFCAIKRIRF 105 (161)
Q Consensus 67 ~L~i~v~~~-~a~el~~~~~~Ii~riN~~~G~~aI~~I~~ 105 (161)
.+.+.+.+. ...++....+.|.+.|+.+|+-.-..++.=
T Consensus 106 ~i~l~~~~~~~~~~~~~~~p~ird~ii~~ls~~~~~~l~~ 145 (180)
T PRK08455 106 SISLELSNELLKPELDKKDPVIRDTIIRILSSKTVEEVST 145 (180)
T ss_pred EEEEEECCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCC
T ss_conf 9999986888899999866999999999996499989509
No 28
>TIGR01621 RluA-like pseudouridine synthase Rlu family protein, TIGR01621; InterPro: IPR006508 These sequences represent a clade within the pseudouridine synthase superfamily. The superfamily includes E. coli proteins: RluA, RluB, RluC, RluD, and RsuA. The sequences in this family are most closely related to RluA ; only Neisseria does not appear to have an RluA homolog. It is presumed that these sequences function as pseudouridine synthases, although perhaps with different specificity..
Probab=29.34 E-value=19 Score=17.28 Aligned_cols=82 Identities=21% Similarity=0.227 Sum_probs=43.5
Q ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHCHHHHHEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHH-HHHHCCC--
Q ss_conf 8837999935906999999899999999986273100025778557784443554556679846799999-9860399--
Q gi|254780478|r 64 VSGTLIIACEGSHALFLMHDQSKIIRNVNIFFGFCAIKRIRFLQRSMSIVNQAPSVSIPALEKDDCEKID-KMTEGIK-- 140 (161)
Q Consensus 64 ~~g~L~i~v~~~~a~el~~~~~~Ii~riN~~~G~~aI~~I~~~q~~~~~~~~~~~~~~~~l~~~~~~~l~-~~l~~I~-- 140 (161)
+.|.|.++-+...|.||+ ..|-.+-|.+--+-- ...+|+++.--..-+.+..+.=. +.+..-+
T Consensus 54 TSGiLllAlNaesAselS-----------~~Fa~~ki~KtYLAl---s~~KPkKKQGlI~GdMeksR~g~WKL~~~~eNp 119 (222)
T TIGR01621 54 TSGILLLALNAESASELS-----------RLFAKKKIKKTYLAL---SDKKPKKKQGLIIGDMEKSRRGAWKLVRSKENP 119 (222)
T ss_pred HHHHHHHHHCHHHHHHHH-----------HHHHCCEEEEEEEEC---CCCCCCCCCCEEECCHHHHHCCCCHHCCCCCCC
T ss_conf 468999860478999998-----------765217066677631---368987444202557124200010002789896
Q ss_pred -------------------------CHHHHHHHHHHHHHHHHHH
Q ss_conf -------------------------9899999999988863320
Q gi|254780478|r 141 -------------------------DEQLKRALIRFGHAVVGCS 159 (161)
Q Consensus 141 -------------------------d~eLr~AL~rLg~~vl~~~ 159 (161)
-=.||=||..||++|||-+
T Consensus 120 AiTrF~S~s~a~~lRLFilkPhTGKTHQlRVAmKSlGSpIlGD~ 163 (222)
T TIGR01621 120 AITRFESVSIAEKLRLFILKPHTGKTHQLRVAMKSLGSPILGDS 163 (222)
T ss_pred EECCEEEEEECCCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf 01112456523888637556899963788788877276300567
No 29
>TIGR01118 lacA galactose-6-phosphate isomerase, LacA subunit; InterPro: IPR004783 Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism . Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacA subunit.; GO: 0016861 intramolecular oxidoreductase activity interconverting aldoses and ketoses, 0005990 lactose catabolic process.
Probab=27.52 E-value=13 Score=18.25 Aligned_cols=48 Identities=17% Similarity=0.180 Sum_probs=36.2
Q ss_pred HHHHHHCHHHHHHHHHHHHHHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf 999840546889996266631089994311121330554444433345678837999935
Q gi|254780478|r 14 PFLRRRAGISMSLVSAWSEIVGSNIARCCRPEKIIWPNRTSIERQDISSDVSGTLIIACE 73 (161)
Q Consensus 14 ~~~~krg~~~~~l~~~W~~IVG~~~A~~~~P~ki~~~~~~~~~~~~~~~~~~g~L~i~v~ 73 (161)
...-.||+..+++++--.+|||+++|+...-.-+. .+..||-.-|+|+
T Consensus 89 s~ymtrGhnn~r~it~G~eivGd~lakn~~k~fv~------------~kydGGrhq~rvd 136 (141)
T TIGR01118 89 SAYMTRGHNNARMITLGAEIVGDELAKNIVKDFVE------------GKYDGGRHQIRVD 136 (141)
T ss_pred CHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHH------------CCCCCCCEEEEEE
T ss_conf 00100466661467633113335788999988750------------2247871246643
No 30
>KOG0739 consensus
Probab=23.89 E-value=57 Score=14.36 Aligned_cols=27 Identities=19% Similarity=0.322 Sum_probs=21.3
Q ss_pred CCCCCCCCCCCCCCEEEEEECC-CHHHH
Q ss_conf 4444333456788379999359-06999
Q gi|254780478|r 53 TSIERQDISSDVSGTLIIACEG-SHALF 79 (161)
Q Consensus 53 ~~~~~~~~~~~~~g~L~i~v~~-~~a~e 79 (161)
.-+.|+.++.+++|+|++.+.+ +|.+.
T Consensus 256 fLVQMqGVG~d~~gvLVLgATNiPw~LD 283 (439)
T KOG0739 256 FLVQMQGVGNDNDGVLVLGATNIPWVLD 283 (439)
T ss_pred HHHHHHCCCCCCCCEEEEECCCCCHHHH
T ss_conf 8876406665888648972378843677
No 31
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR; InterPro: IPR014178 Members of this entry are transcriptional regulators of fatty acid metabolism (FadR), including both biosynthesis and beta-oxidation reactions, which are found exclusively in a subset of Gammaproteobacteria with strictly one copy per genome. Proteins have an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR when expressed in Escherichia coli shows differences in regulatory response and fatty acid binding profiles. All members of this entry are expected to have the same function.; GO: 0000062 acyl-CoA binding, 0003677 DNA binding, 0003700 transcription factor activity, 0019217 regulation of fatty acid metabolic process.
Probab=21.51 E-value=65 Score=14.01 Aligned_cols=23 Identities=13% Similarity=0.398 Sum_probs=13.0
Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 999998603999899999999988
Q gi|254780478|r 130 EKIDKMTEGIKDEQLKRALIRFGH 153 (161)
Q Consensus 130 ~~l~~~l~~I~d~eLr~AL~rLg~ 153 (161)
+.|.+++. |-=--||+.|+||++
T Consensus 34 RELsElIG-VTRTTLREVLQRLAR 56 (275)
T TIGR02812 34 RELSELIG-VTRTTLREVLQRLAR 56 (275)
T ss_pred HHHHHHCC-CCCCHHHHHHHHHHH
T ss_conf 65754237-663037899988764
No 32
>TIGR00607 rad52 recombination protein rad52; InterPro: IPR004585 Rad52 was identified in Saccharomyces cerevisiae as a component of the homologous recombination repair pathway and to play an important role in both meiotic and mitotic recombination. The human protein is highly homologous in both structure and function. In the presence of absence of DNA, Rad52 forms ring-shaped oligomers which bind both single and double stranded DNA, stimulating annealing of complimentary DNA strands and promoting ligation of both cohesive and blunt-end fragments. Rad52 may act as a recombination mediator, optimising catalysis of strand exchange by the Rad51 protein. A C-terminal self-association domain has been identified that mediates formation of higher order oligomers of Rad52 rings. Formation of these oligomers may be important for interaction with more than one DNA molecule . ; GO: 0006281 DNA repair, 0006310 DNA recombination.
Probab=21.22 E-value=62 Score=14.15 Aligned_cols=19 Identities=53% Similarity=0.912 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHC
Q ss_conf 8999999999888633202
Q gi|254780478|r 142 EQLKRALIRFGHAVVGCSY 160 (161)
Q Consensus 142 ~eLr~AL~rLg~~vl~~~~ 160 (161)
+.||-||+.||.+.=-|-|
T Consensus 114 DaLKRaLr~FGnaLGNCly 132 (164)
T TIGR00607 114 DALKRALRNFGNALGNCLY 132 (164)
T ss_pred HHHHHHHHHHHHHHCCHHH
T ss_conf 5788866520012011555
No 33
>PRK05480 uridine kinase; Provisional
Probab=20.25 E-value=69 Score=13.85 Aligned_cols=29 Identities=17% Similarity=0.189 Sum_probs=16.9
Q ss_pred HHCHHHHHHHHHHHHHHHHHHHHHHCEEE
Q ss_conf 40546889996266631089994311121
Q gi|254780478|r 18 RRAGISMSLVSAWSEIVGSNIARCCRPEK 46 (161)
Q Consensus 18 krg~~~~~l~~~W~~IVG~~~A~~~~P~k 46 (161)
.||.....++..|...|-|.+-.++.|.+
T Consensus 150 eRGr~~e~vi~q~~~~v~p~~~~yI~P~k 178 (209)
T PRK05480 150 ERGRSLESVINQYLSTVRPMHLQFIEPSK 178 (209)
T ss_pred HHCCCHHHHHHHHHHHHHHHHHHHCHHHH
T ss_conf 97889999999999976576997684527
Done!