Query gi|254780454|ref|YP_003064867.1| DNA polymerase III subunit beta [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 385
No_of_seqs 121 out of 2231
Neff 8.0
Searched_HMMs 39220
Date Sun May 29 19:14:26 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780454.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05643 DNA polymerase III su 100.0 0 0 640.5 41.4 364 1-385 1-365 (365)
2 cd00140 beta_clamp Beta clamp 100.0 0 0 626.1 40.3 364 1-384 1-365 (365)
3 PRK07761 DNA polymerase III su 100.0 0 0 623.0 40.9 368 1-385 1-374 (376)
4 PRK06673 DNA polymerase III su 100.0 0 0 603.4 38.0 362 1-384 1-374 (376)
5 smart00480 POL3Bc DNA polymera 100.0 0 0 583.8 35.3 344 17-381 1-345 (345)
6 COG0592 DnaN DNA polymerase sl 100.0 0 0 498.7 33.8 363 1-385 1-364 (364)
7 TIGR00663 dnan DNA polymerase 100.0 0 0 427.9 31.9 377 1-385 1-406 (406)
8 pfam02768 DNA_pol3_beta_3 DNA 100.0 1.3E-31 3.4E-36 210.8 15.5 121 250-384 1-121 (121)
9 pfam02767 DNA_pol3_beta_2 DNA 100.0 2E-31 5E-36 209.7 8.4 116 131-248 1-116 (116)
10 pfam00712 DNA_pol3_beta DNA po 100.0 4.5E-29 1.2E-33 195.4 15.5 119 1-122 1-120 (120)
11 cd00140 beta_clamp Beta clamp 99.6 3.6E-14 9.1E-19 105.0 17.6 211 2-225 126-342 (365)
12 PRK05643 DNA polymerase III su 99.6 4.6E-14 1.2E-18 104.3 18.0 199 130-337 3-207 (365)
13 PRK07761 DNA polymerase III su 99.6 2.1E-13 5.4E-18 100.3 17.1 209 129-352 2-218 (376)
14 smart00480 POL3Bc DNA polymera 99.6 1.4E-12 3.6E-17 95.3 19.9 218 2-232 110-334 (345)
15 PRK06673 DNA polymerase III su 99.5 3.3E-12 8.3E-17 93.1 17.9 142 3-148 134-279 (376)
16 COG0592 DnaN DNA polymerase sl 99.3 8.7E-10 2.2E-14 78.4 18.8 215 129-352 2-227 (364)
17 PRK01115 DNA polymerase slidin 99.3 4.6E-09 1.2E-13 74.0 20.3 225 130-382 4-240 (245)
18 cd00577 PCNA Proliferating Cel 99.0 3.3E-07 8.4E-12 62.7 20.5 205 157-383 20-246 (248)
19 PTZ00113 proliferating cell nu 99.0 1.4E-06 3.6E-11 58.9 21.3 207 133-363 8-243 (277)
20 pfam00712 DNA_pol3_beta DNA po 98.9 1.8E-09 4.7E-14 76.4 6.3 117 129-249 2-119 (120)
21 pfam02767 DNA_pol3_beta_2 DNA 98.8 8.2E-08 2.1E-12 66.4 11.6 113 4-120 1-116 (116)
22 PRK01115 DNA polymerase slidin 98.7 4.6E-06 1.2E-10 55.8 17.0 201 2-227 3-219 (245)
23 TIGR00663 dnan DNA polymerase 98.4 2.7E-05 7E-10 51.1 14.8 208 130-338 3-232 (406)
24 PTZ00113 proliferating cell nu 98.4 6.3E-05 1.6E-09 48.9 16.2 212 1-234 2-245 (277)
25 cd00577 PCNA Proliferating Cel 98.2 0.00038 9.8E-09 44.1 17.0 202 6-227 5-225 (248)
26 pfam02768 DNA_pol3_beta_3 DNA 98.1 0.00021 5.3E-09 45.7 13.0 95 2-103 11-107 (121)
27 pfam02747 PCNA_C Proliferating 98.1 0.00052 1.3E-08 43.3 14.6 113 253-382 2-127 (128)
28 KOG1636 consensus 97.6 0.006 1.5E-07 36.9 14.5 193 156-364 22-242 (260)
29 pfam04139 Rad9 Rad9. Rad9 is r 96.5 0.062 1.6E-06 30.7 18.7 110 196-364 131-240 (252)
30 KOG1636 consensus 96.1 0.098 2.5E-06 29.5 12.3 206 8-232 10-239 (260)
31 pfam00705 PCNA_N Proliferating 93.9 0.46 1.2E-05 25.5 12.1 61 33-93 26-94 (127)
32 TIGR00590 pcna proliferating c 89.1 1.5 4E-05 22.3 13.1 196 151-362 17-243 (269)
33 pfam02144 Rad1 Repair protein 86.9 2.1 5.4E-05 21.4 12.1 90 255-352 138-240 (250)
34 TIGR01882 peptidase-T peptidas 62.7 7.1 0.00018 18.3 2.7 140 52-208 60-209 (413)
35 PTZ00152 actin depolymerizing 55.0 4.5 0.00012 19.4 0.6 41 129-179 75-115 (122)
36 pfam10262 Rdx Rdx family. This 53.7 11 0.00027 17.2 2.4 47 207-253 23-70 (76)
37 pfam05169 consensus 47.7 16 0.00041 16.1 2.5 49 204-252 25-74 (96)
38 KOG0967 consensus 44.3 21 0.00054 15.4 3.5 58 198-255 348-411 (714)
39 pfam09606 Med15 ARC105 or Med1 44.3 21 0.00054 15.4 3.4 71 200-275 640-721 (768)
40 cd03248 ABCC_TAP TAP, the Tran 32.7 32 0.00082 14.2 3.5 36 142-178 15-50 (226)
41 pfam12227 DUF3603 Protein of u 31.2 34 0.00087 14.1 2.6 14 171-184 50-63 (214)
42 TIGR00010 TIGR00010 hydrolase, 29.2 37 0.00095 13.9 2.7 92 259-366 133-234 (269)
43 COG2022 ThiG Uncharacterized e 27.3 36 0.00093 13.9 1.6 12 322-333 166-177 (262)
44 pfam02979 NHase_alpha Nitrile 25.4 37 0.00094 13.9 1.4 22 253-274 159-180 (189)
45 TIGR02204 MsbA_rel ABC transpo 23.8 47 0.0012 13.3 1.8 34 141-175 340-373 (576)
46 pfam02102 Peptidase_M35 Deuter 21.7 51 0.0013 13.0 4.2 106 1-126 1-107 (352)
47 cd03249 ABC_MTABC3_MDL1_MDL2 M 21.5 52 0.0013 13.0 3.4 26 142-167 4-29 (238)
48 KOG0848 consensus 21.1 24 0.00062 15.0 -0.3 24 246-269 206-232 (317)
49 PRK13650 cbiO cobalt transport 20.6 54 0.0014 12.9 3.3 12 28-39 18-29 (276)
No 1
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=0 Score=640.55 Aligned_cols=364 Identities=40% Similarity=0.679 Sum_probs=343.8
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEE-EECCCCEEEEEHHHHHHHHH
Q ss_conf 95898599999999987502037888610133899998997999996782899999977-75268079994998778874
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPA-SVDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~-~i~~~G~~~v~a~~l~~iik 79 (385)
|||+|+|++|.++|+++++++++|+++|||+|++|++.+++|+++|||+++++++++++ +++++|+++|||+.|.+++|
T Consensus 1 Mk~~i~k~~L~~~l~~v~~~i~~k~~~piL~~ill~~~~~~l~l~atd~e~~i~~~i~~~~i~~~G~~~v~ak~l~~ivk 80 (365)
T PRK05643 1 MKFTIERNALLKALQLVQRAVERRNTIPILSNILIEADEGGLSLTGTDLEIGIETKIPAAEVEEEGAITVPAKKFLDIVR 80 (365)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEECCEECCCEEEEEEHHHHHHHHH
T ss_conf 98999899999999998755288986288768799998999999998885599999974144455499997799898996
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEE
Q ss_conf 07777730477733675089998678202430366211432123324304505611355420220230024556521011
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNG 159 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~G 159 (385)
+||++. +.+..+ ++++.|++|+++|+|+++|+++||.+|+.+....++++++.|+++|++|.||+|+|++||+|+|
T Consensus 81 ~lp~~~-i~l~~~---~~~l~I~~~~~~f~l~~~~~~dfP~~~~~~~~~~~~i~~~~l~~~i~~v~~a~s~de~r~~L~G 156 (365)
T PRK05643 81 KLPDSE-ITLELE---GNRLTIKSGRSRFNLQTLPAEDFPELPEIEEEVSFSLPQKTLKRLIKKTQFAISTQETRYYLNG 156 (365)
T ss_pred HCCCCC-EEEEEC---CCEEEEEECCEEEEEECCCHHHCCCCCCCCCCCEEEECHHHHHHHHHHHHEECCCCCCCCEEEE
T ss_conf 389984-599974---9989999787799997689799889866788717999799999999745400045567201325
Q ss_pred EEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEE
Q ss_conf 66776178734899985341576666435787533100000100012222102776464331334553010025069998
Q gi|254780454|r 160 IFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239 (385)
Q Consensus 160 v~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 239 (385)
|||+++++ +|++|||||||||+++.+.+.. ...+++|||+|++.++.|++.+.+++|+++++++++.|.+++.+++|
T Consensus 157 v~~~~~~~--~l~~vATDg~RLa~~~~~~~~~-~~~~~~iiP~K~l~el~kll~~~~~~v~i~~~~~~i~f~~~~~~~~s 233 (365)
T PRK05643 157 VLLEIKGN--ELRAVATDGHRLAVRSLELEGT-EEMFSVIIPRKTLLELQKLLDDSDEPVEIFLDENQIRFTVGNVTFTS 233 (365)
T ss_pred EEEEEECC--EEEEEEECCCEEEEEECCCCCC-CCCCEEEEEHHHHHHHHHHHCCCCCCEEEEECCCEEEEEECCEEEEE
T ss_conf 99999699--9999996433124676135677-76504898879999999871789873899984887999989999999
Q ss_pred EECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCC
Q ss_conf 51266553221013555661799848998888988741012355530256517659999807873268999998962884
Q gi|254780454|r 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECP 319 (385)
Q Consensus 240 rLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~ 319 (385)
|||+|+||||+++||++++++++++|++|++||+|++++++++++.|+|+++++++++++.++|.|+++|+++++|+|++
T Consensus 234 rLi~g~yPdy~~viP~~~~~~~~i~r~~l~~al~Rv~i~~~~~~~~v~l~~~~~~l~is~~~~e~g~~~e~i~~~~~Ge~ 313 (365)
T PRK05643 234 KLLDGKFPDYSRVIPKEFDKELTVDREELIQALERAALLSNEKNRGVKLSLSPGQLKISANSPEQGEAKEELEVEYSGEE 313 (365)
T ss_pred EECCCCCCCHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCEEEEEEECCEEEEEECCCCCEEEEEEEEEEEECCC
T ss_conf 84377999735518988983799628999999998835513788539999979989999848876069999998970886
Q ss_pred EEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEEC
Q ss_conf 399963889988987357533466338999658987589943776544455566763799832129
Q gi|254780454|r 320 MDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385 (385)
Q Consensus 320 ~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvri 385 (385)
++|+||++||+|+|+++++ ++|+|+++++.+|++|+|.++ ++|+||||||||
T Consensus 314 ~~i~fN~~yL~d~L~~~~~-----e~V~l~~~~~~~p~~i~~~~~---------~~~~~liMP~ri 365 (365)
T PRK05643 314 LEIGFNVKYLLDVLKALKS-----EEVRLSFNDSNSPFLITPPED---------DSFLYVVMPVRL 365 (365)
T ss_pred EEEEECHHHHHHHHHCCCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEEEEEC
T ss_conf 7999979999999853899-----879999858999789986899---------964899961329
No 2
>cd00140 beta_clamp Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.
Probab=100.00 E-value=0 Score=626.11 Aligned_cols=364 Identities=41% Similarity=0.673 Sum_probs=345.9
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEE-ECCCCEEEEEHHHHHHHHH
Q ss_conf 958985999999999875020378886101338999989979999967828999999777-5268079994998778874
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS-VDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~-i~~~G~~~v~a~~l~~iik 79 (385)
|||+|+|++|.++|+++++++++|++.|+|+|+||++++++|+++|||++++++++++++ ++++|+++|||+.|.+++|
T Consensus 1 Mk~~i~k~~L~~~l~~v~~~i~~~~~~piL~~ili~~~~~~l~l~atd~e~~i~~~i~~~~v~~~G~~~v~ak~l~~ivk 80 (365)
T cd00140 1 MKFTINREALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEEVEEEGSVTVPAKKLLDIVR 80 (365)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEECCEECCCEEEEEEHHHHHHHHH
T ss_conf 98999899999999999866188986288758899998999999998886699999967265456299998899999986
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEE
Q ss_conf 07777730477733675089998678202430366211432123324304505611355420220230024556521011
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNG 159 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~G 159 (385)
+||++ .+.+..++ +++.|++|+++|+|+++|+++||.+|+.++..+++++++.|+++|++|.||+|+|++||+|+|
T Consensus 81 ~lp~~-~i~l~~~~---~~l~I~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~v~~a~s~d~~r~~L~G 156 (365)
T cd00140 81 KLPDE-EVTLETEE---NRLTIKSGKSRFSLNTLPAEEFPELPEIENGSSFTIPASELKELIKKTAFAVSTDETRPILNG 156 (365)
T ss_pred HCCCC-CEEEEEEC---CEEEEEECCEEEEEECCCHHHCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEE
T ss_conf 38886-33899979---999999898499984589688889876688718998599999999755645465566313689
Q ss_pred EEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEE
Q ss_conf 66776178734899985341576666435787533100000100012222102776464331334553010025069998
Q gi|254780454|r 160 IFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239 (385)
Q Consensus 160 v~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 239 (385)
|||+++++ +|++|||||||||+++.+++.....+++++||+|++.+|.|++.+.+++|+++++++++.|.+++.+++|
T Consensus 157 v~~~~~~~--~l~~vATDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 234 (365)
T cd00140 157 VLLEIEDN--KLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNELLKLLEDDDEEVEISISENQILFKLGNTTFTS 234 (365)
T ss_pred EEEEEECC--EEEEEEECCCEEEEEEECCCCCCCCCEEEEEEHHHHHHHHHHHCCCCCCEEEEECCCEEEEEECCEEEEE
T ss_conf 99999799--8999996414104698425777776516998699999999862568872899985877999989999999
Q ss_pred EECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCC
Q ss_conf 51266553221013555661799848998888988741012355530256517659999807873268999998962884
Q gi|254780454|r 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECP 319 (385)
Q Consensus 240 rLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~ 319 (385)
|||+|+||||+++||++++++++++|++|++||+|++++++++++.|.|+++++++++++.++|.|+++|+++++|+|++
T Consensus 235 rlieg~yP~y~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~v~l~~~~~~l~iss~~~e~g~~~e~i~~~~~G~~ 314 (365)
T cd00140 235 RLIEGEFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSNEKNRGVKLEISEGQLKLSANNPEIGEAEEELEVEYEGEE 314 (365)
T ss_pred EECCCCCCCHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEEEECCCCCEEEEEEEEEEECCCC
T ss_conf 86177999756508998984899638999999987713503788439999649979999868886069999998850886
Q ss_pred EEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 39996388998898735753346633899965898758994377654445556676379983212
Q gi|254780454|r 320 MDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMR 384 (385)
Q Consensus 320 ~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvr 384 (385)
++|+||++||+|+|+++++ ++|+|++.++.+|++|++.++ ++|+|||||||
T Consensus 315 ~~i~fN~~yL~d~L~~~~~-----~~v~l~~~~~~~p~~i~~~~~---------~~~~~liMP~r 365 (365)
T cd00140 315 LEIGFNPKYLLDALKAIDS-----EEVRLSFTDSNSPVLITPEDD---------DNFLYLIMPVR 365 (365)
T ss_pred EEEEECHHHHHHHHHCCCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEEECC
T ss_conf 7999989999999851899-----879999868999789984899---------96689998139
No 3
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=0 Score=622.98 Aligned_cols=368 Identities=26% Similarity=0.438 Sum_probs=335.1
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEECCCCEEEEEHHHHHHHHHC
Q ss_conf 95898599999999987502037888610133899998997999996782899999977752680799949987788740
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVCGSITVSAHLLYDIVRK 80 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~~~G~~~v~a~~l~~iik~ 80 (385)
|||+|+|++|.++|+++++++++|+++|||+|+||++.+++|+++|||+++++++++++++.++|+++|||+.|.+++|+
T Consensus 1 Mkf~i~k~~L~~~L~~v~~~v~~k~~~piL~~vliea~~~~l~l~atd~ei~i~~~i~~~i~e~G~~~vpak~l~~ivk~ 80 (376)
T PRK07761 1 MKFRVERDDLADAVAWVARSLPARPPVPVLAGVLLEADDEGLTLSGFDYEVSARVRVSAEVDEPGRVLVSGRLLADITRA 80 (376)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEEEEECCCEEEEEEHHHHHHHHHH
T ss_conf 97999999999999999866178987288778899998999999997782799999976871571899977999999974
Q ss_pred CCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEEE
Q ss_conf 77777304777336750899986782024303662114321233243045056113554202202300245565210116
Q gi|254780454|r 81 LQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGI 160 (385)
Q Consensus 81 L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv 160 (385)
||++. |.+..+ ++++.|++|+++|+|+++|++|||.+|+.+.. ..+++++.|+++|++|.||+|+|++||+|+||
T Consensus 81 lp~~~-I~l~~e---~~~l~I~~g~~~f~l~~~~~~dfP~~~~~~~~-~~~i~~~~l~~~i~~t~fa~s~~e~r~~L~Gv 155 (376)
T PRK07761 81 LPNKP-VEFSVD---GSRVTLTCGSARFTLPTMPVEDYPTLPQLPEE-TGTVPAELFAEAVSQVAVAAGRDDTLPMLTGI 155 (376)
T ss_pred CCCCC-EEEEEC---CCEEEEEECCEEEEEECCCHHHCCCCCCCCCC-CEEECHHHHHHHHHHEEEEECCCCCHHHHCCE
T ss_conf 77763-279971---99999998977999634686878666788763-15898999999984375873174784773738
Q ss_pred EEEECCCCCEEEEEEECCEEEEEEEEECCCCC-CCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCC-----CCCEEEECCE
Q ss_conf 67761787348999853415766664357875-33100000100012222102776464331334-----5530100250
Q gi|254780454|r 161 FFHINEEDLKLCAVATDGHRLAVAEVDIVAQI-AKMPSIIVPRKAVGEILRILSSKDSSVKVSLS-----ESRIHLNIES 234 (385)
Q Consensus 161 ~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~-~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~-----~~~i~~~~~~ 234 (385)
||+++++ +|.+|||||||||+++.+..... +...++|||+|+|.|+.|++.+ ++++++.++ ++++.|.+++
T Consensus 156 ~~~~~~~--~l~~vATDghRLa~~~~~~~~~~~~~~~~~iIP~k~l~el~k~l~~-~~~v~l~~~~~~~~~~~i~f~~~~ 232 (376)
T PRK07761 156 RLEIEGE--TVVLAATDRFRLAVRELTWSPGSPDIDAAALVPAKTLAEAAKALTL-GSEVRLALGTGDSVEGLLGFEGDG 232 (376)
T ss_pred EEEEECC--EEEEEEECCCCEEEEEECCCCCCCCCCCCEEECHHHHHHHHHHCCC-CCCEEEEEECCCCCCEEEEEEECC
T ss_conf 9998499--8999997532101366324666777654357108999999975388-984899996686641279999899
Q ss_pred EEEEEEECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEE
Q ss_conf 69998512665532210135556617998489988889887410123555302565176599998078732689999989
Q gi|254780454|r 235 LSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVY 314 (385)
Q Consensus 235 ~~~~srLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~ 314 (385)
++++||||+|+||||+++||++++.++.++|++|+++|+|++++++ +++.++|+|+++.+++++.++|.|++.|+|+|+
T Consensus 233 ~~~~srLieg~fPdy~~viP~~~~~~~~v~r~~l~~al~Rvsl~s~-~~~~v~l~~~~~~l~lss~~~e~g~a~E~i~~~ 311 (376)
T PRK07761 233 RRTTTRLLDGEFPKVRQLFPTEHTAVATVEVAELIEAIKRVALVAE-RNAPVRMEFSDGTVTLSAGGDDVAQAEEDLDAA 311 (376)
T ss_pred EEEEEEECCCCCCCHHHHCCCCCCEEEEEECHHHHHHHHHHHHHHC-CCCCEEEEECCCCEEEEECCCCCCEEEEEEEEE
T ss_conf 9999980377898525117899980899840888889877521214-897279998599159996698764278999879
Q ss_pred ECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEEC
Q ss_conf 62884399963889988987357533466338999658987589943776544455566763799832129
Q gi|254780454|r 315 YNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385 (385)
Q Consensus 315 ~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvri 385 (385)
|+|++++|+||++||+|+|+++++ ++|+|+|+++.+|++|+|.+++. ...+++|+||||||||
T Consensus 312 ~~Ge~~~I~FN~~yL~d~L~~i~~-----e~V~l~~~~~~~p~~i~p~~~~~---~~~~~~~~yviMP~rl 374 (376)
T PRK07761 312 LTGEPLTIAFNPTYLLDGLSALHS-----ERVRFGFTTPSKPALLTPAPEDD---PAPDTDYRYLLMPVRL 374 (376)
T ss_pred EECCCEEEEECHHHHHHHHHCCCC-----CEEEEEECCCCCCEEEECCCCCC---CCCCCCEEEEEECEEC
T ss_conf 708867999989999999850899-----87999987899988998077655---5666660699954143
No 4
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=0 Score=603.36 Aligned_cols=362 Identities=25% Similarity=0.454 Sum_probs=330.8
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEECC--------CCEEEEEHH
Q ss_conf 958985999999999875020378886101338999989979999967828999999777526--------807999499
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDV--------CGSITVSAH 72 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~~--------~G~~~v~a~ 72 (385)
|||+|+|++|+++|+++++++++|+++|+|+|++|++++++|+++|||++++++..+++.+++ +|+++||||
T Consensus 1 Mkf~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~ei~i~~~i~~~v~~~~~~~i~~~G~~~v~ak 80 (376)
T PRK06673 1 MEFIVNHKHFTQALSEVSKAISTKAIIPILSGIKITADQSGITLIASNSNIFIEKFIPSAIDDEQITTILQAGTIVVPAK 80 (376)
T ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEEEEEEECCCEEECCCCEEEEEHH
T ss_conf 97999899999999998736177986478739899998996999997786399999876773022101025817999879
Q ss_pred HHHHHHHCCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCC
Q ss_conf 87788740777773047773367508999867820243036621143212332430450561135542022023002455
Q gi|254780454|r 73 LLYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEE 152 (385)
Q Consensus 73 ~l~~iik~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~ 152 (385)
.|.+++|+||++. +.. ..+ +..+.|++|+++|+|+++|+++||.+|..+....+++++..|+++|++|.||+|+|+
T Consensus 81 ~l~eivk~lp~~~-~~~-~~~--~~~l~i~~~~~~f~l~~~~~~dfP~~p~~~~~~~~~i~~~~l~~~i~kt~fA~s~de 156 (376)
T PRK06673 81 YFIEIIKKMPSDI-VIK-SKN--EQTITIQSGEITLNLNGFPANEFPNVPQIDDHTEIQIETKQLIDAFKQTVFAVAKNE 156 (376)
T ss_pred HHHHHHHHCCCCC-EEE-ECC--CCEEEEEECCEEEECCCCCHHHCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHCCCC
T ss_conf 9999997489865-599-727--988999978789982687968854566667773599859999999997673553656
Q ss_pred CCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEEC
Q ss_conf 65210116677617873489998534157666643578753310000010001222210277646433133455301002
Q gi|254780454|r 153 IRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNI 232 (385)
Q Consensus 153 ~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~ 232 (385)
+||+|+||+|+++++ ++++|||||||||+++.++... ...++|||+|++.++.|++.+.++.|+++++++++.|.+
T Consensus 157 ~rp~l~Gv~~~~~~~--~l~~vATDg~RLa~~~~~~~~~--~~~~~iiP~k~l~el~kll~~~~e~v~i~~~~~~i~f~~ 232 (376)
T PRK06673 157 SRPVLTGVHIELDHN--KLICAATDSHRLAIRETLISTN--MKANCIVPSATINELLKLMNSNLEFVSIYLSESHIIFTF 232 (376)
T ss_pred CCHHEEEEEEECCCC--EEEEEEECCCEEEEEECCCCCC--CCCCEEECHHHHHHHHHHHCCCCCEEEEEECCCEEEEEE
T ss_conf 714422387723599--8999997584568886035888--774378328999999977405885478972561599998
Q ss_pred CEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCC-CCCCCEEEE-ECCEEEEEECCCCCEEEEEE
Q ss_conf 5069998512665532210135556617998489988889887410123-555302565-17659999807873268999
Q gi|254780454|r 233 ESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSV-RIQAVKLSL-SSDKLCMTVDNPDMGKAIES 310 (385)
Q Consensus 233 ~~~~~~srLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~-~~~~i~l~~-~~~~l~i~~~~~e~g~~~e~ 310 (385)
++.+++||||+|+||||+++||++++++++++|.+|++||+|+++++++ .++.+.|.+ +++.+.+++.+++.|++.|+
T Consensus 233 ~~~~~~srLIeg~fPdy~~viP~~~~~~~~v~r~~ll~al~Rvsi~~~~~~~~~v~l~~~~~~~l~i~s~~~~~G~~~e~ 312 (376)
T PRK06673 233 GTTTLYSRLIEGKYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLASEWANNNVNLEIVNESTIQISSNASQIGKISET 312 (376)
T ss_pred CCEEEEEEECCCCCCCHHHHCCCCCCEEEEEEHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCEEEEEECCCCCCCCEEE
T ss_conf 99899998126678877772899998699998999999999999771146688469998689859999669876661168
Q ss_pred EEEE--ECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 9989--6288439996388998898735753346633899965898758994377654445556676379983212
Q gi|254780454|r 311 MNVY--YNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMR 384 (385)
Q Consensus 311 i~~~--~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvr 384 (385)
+.+. +.|++++|+||++||+|+|+++++ ++|.|+|+++.+|++|++.++ .+|+|||||||
T Consensus 313 ~~~~~~~g~~~~~I~FN~~yLld~L~~i~~-----e~V~l~~~~~~~p~~i~~~~~---------~~~~ylvMPvR 374 (376)
T PRK06673 313 QQIDAIQGEKQLNISFDGRFMLDALRAIKE-----ETVTLSFSGSMRPILIEAGTQ---------SAAIHLISPVR 374 (376)
T ss_pred EEECCCCCCCCEEEEECHHHHHHHHHCCCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEECCC
T ss_conf 885023699868999889999999855899-----979999888999789977998---------84389997031
No 5
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=100.00 E-value=0 Score=583.85 Aligned_cols=344 Identities=36% Similarity=0.595 Sum_probs=323.1
Q ss_pred HHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEEC-CCCEEEEEHHHHHHHHHCCCCCCCEEEEEECCC
Q ss_conf 7502037888610133899998997999996782899999977752-680799949987788740777773047773367
Q gi|254780454|r 17 ACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVD-VCGSITVSAHLLYDIVRKLQDGAQISFFKENEL 95 (385)
Q Consensus 17 v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~-~~G~~~v~a~~l~~iik~L~~~~~i~~~~~~~~ 95 (385)
|+|++++|+++|||+|+||++++++|+++|||+++++++++++++. ++|+++|||++|.+++|+||++ .+.+..++
T Consensus 1 V~~~i~~k~~~PiL~~ili~~~~~~l~l~atD~e~~i~~~i~~~~~~e~G~v~v~ak~l~~ivk~lp~~-~i~~~~~~-- 77 (345)
T smart00480 1 VSRVISNRNTIPILSNILLEAKDDGLTLTATDLEISIKSSISAEVEDEEGSVTVPAKKFLDIVRKLPDK-EITLSVEE-- 77 (345)
T ss_pred CCCCCCCCCCHHHHCCEEEEEECCEEEEEEECCCEEEEEEEEEEEECCCEEEEEEHHHHHHHHHHCCCC-CCEEEEEC--
T ss_conf 964248998638867879999899999999888749999995437242249997289999999718886-71799709--
Q ss_pred CEEEEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEE
Q ss_conf 50899986782024303662114321233243045056113554202202300245565210116677617873489998
Q gi|254780454|r 96 GTEVNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVA 175 (385)
Q Consensus 96 ~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~va 175 (385)
+++.|++|+++|+|+++|+++||.+|+.+...+++++++.|+++|++|.||+|+|++||+|+||||+++++ ++++||
T Consensus 78 -~~l~I~~~~~~f~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~v~fA~s~de~r~~L~Gv~~~~~~~--~l~~vA 154 (345)
T smart00480 78 -DKLVITSGKSRFNLPTLDAEEFPELPFIEEGVTFELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNG--ELRLVA 154 (345)
T ss_pred -CEEEEEECCEEEEEECCCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEECC--EEEEEE
T ss_conf -98999989779997278832355677678774899969999999987787645546661079999997099--999999
Q ss_pred ECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCCCCCCCCCC
Q ss_conf 53415766664357875331000001000122221027764643313345530100250699985126655322101355
Q gi|254780454|r 176 TDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEFPNYQNVIPC 255 (385)
Q Consensus 176 TDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~g~yPdy~~vip~ 255 (385)
|||||||+++.+++.. ...+++|||+|+|.+|.|++.+.+++|+++++++++.|.+++.+++||||+|+||||+++||+
T Consensus 155 TDg~RLa~~~~~~~~~-~~~~~~iiP~k~l~el~kll~~~~~~v~i~~~~~~i~f~~~~~~~~srLieG~yPdy~~viP~ 233 (345)
T smart00480 155 TDGHRLAVREIKLESE-EDDFSVIIPRKSLLELNKLLTDNEELVEIFISSNQILFETGNVIFTSRLIDGEFPDYKRVIPK 233 (345)
T ss_pred CCCCEEEEEEECCCCC-CCCCEEEEEHHHHHHHHHHHCCCCCCCEEECCCCEEEEEECCEEEEEEECCCCCCCHHHHCCC
T ss_conf 4535367886125777-776159988899999987742587651475079879999899999997447799971520888
Q ss_pred CCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCCEEEEECHHHHHHHHHH
Q ss_conf 56617998489988889887410123555302565176599998078732689999989628843999638899889873
Q gi|254780454|r 256 SNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDN 335 (385)
Q Consensus 256 ~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~~~i~fN~~yl~d~L~~ 335 (385)
+++++++++|.+|++||+|+++++++++++|+|+|+++++++++.++|.|++.|++++.|+|++++|+||++||+|+|++
T Consensus 234 ~~~~~~~v~r~~l~~al~Rvsi~~~~~~~~v~l~~~~~~l~i~s~~~e~g~~~e~i~~~~~G~~~~I~fN~~YL~d~L~~ 313 (345)
T smart00480 234 EFETKLTVNRKELKEALKRVALLANEKNRSVKLTLEEGQLKLTANSPEVGEAEEEVDVDYEGEDLEIAFNPKYLLDALKA 313 (345)
T ss_pred CCCEEEEEEEHHHHHHHHHHEEECCCCCCCEEEECCCCCEEEEECCCCCCEEEEEEEEEECCCCEEEEECHHHHHHHHHC
T ss_conf 99769999832787776542540047886589970377247984388864378999757338967999989999999855
Q ss_pred CCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEE
Q ss_conf 5753346633899965898758994377654445556676379983
Q gi|254780454|r 336 ISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLM 381 (385)
Q Consensus 336 ~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liM 381 (385)
+++ ++|+|++.++.+|++|+|.++ ++|+||||
T Consensus 314 ~~~-----~~V~l~~~~~~~p~~i~~~~~---------~~~~~liM 345 (345)
T smart00480 314 LKS-----EEIELKFTDSSSPFLISPPDD---------EKLKYLIM 345 (345)
T ss_pred CCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEC
T ss_conf 899-----879999868999789986899---------95189979
No 6
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=498.68 Aligned_cols=363 Identities=35% Similarity=0.603 Sum_probs=339.5
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEECCCCEEEEEHHHHHHHHHC
Q ss_conf 95898599999999987502037888610133899998997999996782899999977752680799949987788740
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVCGSITVSAHLLYDIVRK 80 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~~~G~~~v~a~~l~~iik~ 80 (385)
|||+|+|+.|.++|+++++++++|+++|||+|+||++.+++|+++|||+++++..++++++..+|++++++|.|.+++|+
T Consensus 1 mk~~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~~l~~~~td~ei~~~~~i~~~v~~~g~~~v~~k~l~dii~~ 80 (364)
T COG0592 1 MKFSIERENLLKALQLVSRIVESRPTIPILSNVLIEAKENGLTLTGTDLEISLEARIPAEVEAEGEVAVPAKKLLDIISK 80 (364)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCCCHHHHCEEEEEECCEEEEEEECCCEEEEEEEEEEEEEEEHHHHHHHHHHHHHHH
T ss_conf 98999889999999999866168999745605799997882799995552589999878999976014448999999985
Q ss_pred CCCCCCEEEEEECCCCEE-EEEEECCCEEEEECCCCCCCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCCCCCCEEE
Q ss_conf 777773047773367508-9998678202430366211432123324304505611355420220230024556521011
Q gi|254780454|r 81 LQDGAQISFFKENELGTE-VNISHGDSNFYLQSFPESEFPSTKEEEYVYSFELASSVLKNLVERTHFAMATEEIRYYLNG 159 (385)
Q Consensus 81 L~~~~~i~~~~~~~~~~~-i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~G 159 (385)
||++..+....+ +.. +.+.+|+++|.+.++|+++||+++..++...+.++.+.|+++|++|.||++.+++|+.++|
T Consensus 81 L~de~~~~~~~~---~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~~~~~~l~~~~Lk~ii~~~~fa~~~~e~~~~lng 157 (364)
T COG0592 81 LPDEAVFLVTED---GISLLAVDSGKSAFVLLTLPAEDFPEYPVDEEEVEFGLPTELLKKIIKRTKFADSLLETRYELNG 157 (364)
T ss_pred CCCCCEEEEECC---CCEEEEECCCCEEEEECCCCHHHCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHHHHHHHHHHCCE
T ss_conf 885205999627---83079982683599965889799877568877517885299999999987765655533532646
Q ss_pred EEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEE
Q ss_conf 66776178734899985341576666435787533100000100012222102776464331334553010025069998
Q gi|254780454|r 160 IFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSV 239 (385)
Q Consensus 160 v~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~s 239 (385)
++|++.++ ++.+||||||||++++.+++....+ ++++||+|++.++.|++.+.+ +.+...++++.|..++..+++
T Consensus 158 v~~~i~~~--~l~~vatd~~rla~~~~~~~~~~~~-~~viIp~k~l~el~k~~~d~~--~~~~~~sd~i~f~~~~~~~~s 232 (364)
T COG0592 158 VLLEIEGT--KLRLVATDGHRLAVEELEIPELEED-ASVIIPAKTLKELIKLLKDAD--VEIFLVSDQIRFKAGETILFS 232 (364)
T ss_pred EEEEEECC--EEEEEECCCCEEEEEECCCCCCCCC-EEEEEEHHHHHHHHHHCCCCC--CEEEECCCEEEEEECCEEEEE
T ss_conf 99999688--8999983884578872467766788-389998799999986421566--317861787999988879999
Q ss_pred EECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCC
Q ss_conf 51266553221013555661799848998888988741012355530256517659999807873268999998962884
Q gi|254780454|r 240 RLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECP 319 (385)
Q Consensus 240 rLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~ 319 (385)
|+++|.||||++++|.+++..+++++.+|.++++|+++++..+...+.+...++.+++++.+++.|++.|++++.|.|++
T Consensus 233 ~lieG~fpd~~~vip~~~~~~~~l~~~el~~al~r~~~l~~~~~~~~~~~~~~~~v~i~~~~~~~g~~~eei~~~~~g~~ 312 (364)
T COG0592 233 KLIEGEFPDYERVIPKEFEKELTLDRLELKEALKRVYSLSYLKDRGKKLSLADGEVKLSLGNDEPGKAEEEIDVGYTGEE 312 (364)
T ss_pred EEEECCCCCEEEECCCCCCCEEEEEHHHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCEEEEEEEECCCCCCE
T ss_conf 99854877358845787773067608888879998777886534613665047519999769985279999962667851
Q ss_pred EEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEEC
Q ss_conf 399963889988987357533466338999658987589943776544455566763799832129
Q gi|254780454|r 320 MDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMRI 385 (385)
Q Consensus 320 ~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvri 385 (385)
++|+||+.|++|+|+++++ ++|.+.|+++.+|++|++.++ .++.|||||||+
T Consensus 313 ~~I~fn~~ylld~l~~~~~-----~~v~~~~~~~~~p~~i~~~~~---------~~~~~~imP~r~ 364 (364)
T COG0592 313 LKIGFNLAYLLDVLKALDS-----EEVQFGFNDSSSPFLIRPEEN---------DDFKYLIMPMRL 364 (364)
T ss_pred EEEEEEHHHHHHHHCCCCC-----CEEEEEECCCCCCEEEEECCC---------CCCEEEEEECCC
T ss_conf 7999970585556504788-----759999768998689971788---------882599987049
No 7
>TIGR00663 dnan DNA polymerase III, beta subunit; InterPro: IPR001001 Describes the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=100.00 E-value=0 Score=427.94 Aligned_cols=377 Identities=31% Similarity=0.531 Sum_probs=339.9
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCE--EEEEEECCEEEEEEEE---EEEECCCCEEEEEHHHHH
Q ss_conf 95898599999999987502037888610133899998997--9999967828999999---777526807999499877
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGL--LEIKASGPEIEITGAI---PASVDVCGSITVSAHLLY 75 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~--l~l~atd~~~~i~~~i---~~~i~~~G~~~v~a~~l~ 75 (385)
|||.|.+..|.+.++++.++++.+++.|+|+++++++.+++ |+++++|++++++..+ .+.+..+|+++++++.+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~l~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 80 (406)
T TIGR00663 1 MKFSIEKDDLLKELSKVSRVLSNRPTIPILSNVLLEVEDDKNYLTLTGTDLDISLESSIPGETVSSEQPGSVTIPAKKFL 80 (406)
T ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCCEEEEEECCCCEEEEEEECCEEEEEEEECCCEEEEECCCEEEEECHHHH
T ss_conf 95774012456789999886505766400113278997477579998505404688875154012311653897032556
Q ss_pred HHHHCCCC--CCCEEEEEECCC--CEEEEEEECCCE--EEEECCCCCCCCCCCCCCC----CEEEECCCHHHHHHHCCEE
Q ss_conf 88740777--773047773367--508999867820--2430366211432123324----3045056113554202202
Q gi|254780454|r 76 DIVRKLQD--GAQISFFKENEL--GTEVNISHGDSN--FYLQSFPESEFPSTKEEEY----VYSFELASSVLKNLVERTH 145 (385)
Q Consensus 76 ~iik~L~~--~~~i~~~~~~~~--~~~i~i~~~~~~--~~l~~~~~~~fP~~~~~~~----~~~~~i~~~~l~~~i~~t~ 145 (385)
+++|.||+ ...+.+...++. ...+.+++++++ |.++++++++||.+|..+. ...+.+++..|+++|+++.
T Consensus 81 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~d~~~~~~~~~~~l~~~~~~~~ 160 (406)
T TIGR00663 81 DIVRALPDDGDSEIELEVDNDKGDSHLLLITSGKSRDDFKLPTLDADEFPNLPTIEGNEDYGVSIELPSDVLKELINQTA 160 (406)
T ss_pred HHHHHCCCCCCEEEEEEECCCCCCEEEEEECCCCCCCEEEECCCCHHHCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHH
T ss_conf 77761445476048998727753124333305664211220577742355678877755411136764289998763432
Q ss_pred EECCCCCCCCCEEEEEEEEC-CCCCEEEEEEECCEEEEEEEEE--CCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCC
Q ss_conf 30024556521011667761-7873489998534157666643--57875331000001000122221027764643313
Q gi|254780454|r 146 FAMATEEIRYYLNGIFFHIN-EEDLKLCAVATDGHRLAVAEVD--IVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVS 222 (385)
Q Consensus 146 ~a~s~d~~r~~L~Gv~~~~~-~~~~~l~~vaTDg~RLa~~~~~--~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~ 222 (385)
||++.+++|++|+|++|+++ .++..+.++|||||||++++.+ .........++++|.|.+.++.|++.+....+...
T Consensus 161 f~~~~~~~~~~l~G~~~~~d~~~~~~l~~~~td~~rl~~~~~~~~~~~~~~~~~~~~~P~k~~~e~~~~~~~~~~~~~~~ 240 (406)
T TIGR00663 161 FAAGEDETRPVLNGVLIKFDEQEGDTLLLVATDGHRLAVCELKKWLELSDEEDFSVIIPGKALLELLKLLSDNGELVLLI 240 (406)
T ss_pred HHCCCCCCCHHHCCEEEEECCCCCCEEEEEEECCCEEEEEEECCEEECCCCCCCEEEECHHHHHHHHHHHCCCCCCEEEE
T ss_conf 11012322010101146630235866899960770577775110000034232225744268888887616777503566
Q ss_pred ------CCCCCEEEECCEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECC--E
Q ss_conf ------34553010025069998512665532210135556617998489988889887410123555302565176--5
Q gi|254780454|r 223 ------LSESRIHLNIESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSD--K 294 (385)
Q Consensus 223 ------~~~~~i~~~~~~~~~~srLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~--~ 294 (385)
.+++++.+..++..+.++|++|+||||++++|+++...+++++.+|.++++|++++++++.+.+.+....+ .
T Consensus 241 ~~g~g~~~~~~~~~~~~~~~~~~~l~~g~~P~~~~~~p~~~~~~~~~~~~~l~~~~~r~~~l~~~~~~~~~~~~~~~~~~ 320 (406)
T TIGR00663 241 LGGVGVIGDTLVYIELGNYKFTSKLIDGNYPDYKSVLPKEFKNSVTVNREELKEALKRVSLLADEKRNLVLTLLEKGLEK 320 (406)
T ss_pred ECCCEECCCCEEEEEECCEEEEEEEECCCCCCCHHCCCCCCCCEEEECHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEE
T ss_conf 41420105627999875758887754277885000031124424564188999898777654215452478863146201
Q ss_pred EEEEECCCC--CEEEEEEEEEE-ECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCC
Q ss_conf 999980787--32689999989-628843999638899889873575334663389996589875899437765444555
Q gi|254780454|r 295 LCMTVDNPD--MGKAIESMNVY-YNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKD 371 (385)
Q Consensus 295 l~i~~~~~e--~g~~~e~i~~~-~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~ 371 (385)
+.+++.+++ .|++.|.+++. |+|++..++||++|++|+|+++++ .+|.+.++++.+|+++++..+.. ..
T Consensus 321 l~~~~~~~~~~~g~~~~~~~~~~~~ge~~~~~~n~~y~~d~l~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~---~~ 392 (406)
T TIGR00663 321 LKLSADTQENEIGEAEEEIEADLYDGEDLVIAFNPKYLLDALKALKS-----EEIRLQFNDPSKPLLIEPENDED---GP 392 (406)
T ss_pred EEEECCCCCCCCCCHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHCCC-----CEEEEEECCCCCCEEEECCCCCC---CC
T ss_conf 22212676542231121111111026531466402666645552474-----22899983787505885178887---75
Q ss_pred CCCCEEEEEEEEEC
Q ss_conf 66763799832129
Q gi|254780454|r 372 NKVNAFYVLMPMRI 385 (385)
Q Consensus 372 ~~~~~~~liMPvri 385 (385)
-..++.||+||||+
T Consensus 393 ~~~~~~~l~~p~~~ 406 (406)
T TIGR00663 393 LPADCTYLIMPVRL 406 (406)
T ss_pred CCCCEEEEEEEECC
T ss_conf 56422689875229
No 8
>pfam02768 DNA_pol3_beta_3 DNA polymerase III beta subunit, C-terminal domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=100.00 E-value=1.3e-31 Score=210.77 Aligned_cols=121 Identities=30% Similarity=0.588 Sum_probs=115.8
Q ss_pred CCCCCCCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCCEEEEECHHHH
Q ss_conf 10135556617998489988889887410123555302565176599998078732689999989628843999638899
Q gi|254780454|r 250 QNVIPCSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYL 329 (385)
Q Consensus 250 ~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~~~i~fN~~yl 329 (385)
++|||++++++++++|.+|++||+|++++++++++.|+|+|+++.|++++.++|.|++.|+++|+|+|++++|+||++||
T Consensus 1 r~vIP~~~~~~i~i~r~~l~~al~Rvsi~s~~~~~~V~l~~~~~~l~iss~~~d~g~a~E~i~~~~~G~~~~I~FN~~YL 80 (121)
T pfam02768 1 RRVLPKEFETKITVDNKELKKALARVALLANEKNRGVRLSFEEGQLKLTANNPEIGRAEEEVDVDYIGEPLEIAFNVSYL 80 (121)
T ss_pred CCCCCCCCCEEEEEEHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCCEEEEEEEEECCCCCEEEEECHHHH
T ss_conf 96268999889999999999999999987437873399998799369998689765067999400169817999979999
Q ss_pred HHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf 8898735753346633899965898758994377654445556676379983212
Q gi|254780454|r 330 LEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMPMR 384 (385)
Q Consensus 330 ~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMPvr 384 (385)
+|+|+++++ ++|+|+|.++.+|++|++.++ ++|+|||||||
T Consensus 81 ~d~L~~i~~-----~~v~~~~~~~~~p~~i~~~~~---------~~~~~viMP~R 121 (121)
T pfam02768 81 LDALKALKS-----EEIELQFTDSTKPALISPPGD---------DDLKYVVMPMR 121 (121)
T ss_pred HHHHHCCCC-----CEEEEEECCCCCCEEEECCCC---------CCEEEEEEECC
T ss_conf 999960899-----879999868998889985899---------96289997419
No 9
>pfam02767 DNA_pol3_beta_2 DNA polymerase III beta subunit, central domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=99.97 E-value=2e-31 Score=209.73 Aligned_cols=116 Identities=40% Similarity=0.682 Sum_probs=108.9
Q ss_pred ECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHH
Q ss_conf 05611355420220230024556521011667761787348999853415766664357875331000001000122221
Q gi|254780454|r 131 ELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILR 210 (385)
Q Consensus 131 ~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k 210 (385)
+|+++.|+++|++|.||+|+|++||+|+||||+++++ ++++|||||||||+++.+++...+...++|||+|+|.+|.|
T Consensus 1 Ti~~~~l~~~i~~t~fA~s~d~~r~~L~Gv~~~~~~~--~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iIP~k~l~el~k 78 (116)
T pfam02767 1 TLPQKVLKELIEQTAFAMGRDETRYVLNGVNLETEGN--ELRLVATDGHRLAVRKLELSVENPDIFSVIVPRKTLLELAK 78 (116)
T ss_pred CCCHHHHHHHHHHEEEEECCCCCHHHHEEEEEEEECC--EEEEEEECCHHEEEEEEECCCCCCCCEEEEEEHHHHHHHHH
T ss_conf 9798999999843759980464626612899999899--99999976030010145212478876038977899999998
Q ss_pred HCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCCC
Q ss_conf 02776464331334553010025069998512665532
Q gi|254780454|r 211 ILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEFPN 248 (385)
Q Consensus 211 ~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~g~yPd 248 (385)
++.+.+++|+++++++++.|.+++.+++||||||+|||
T Consensus 79 ~l~~~~~~v~i~~~~~~i~f~~~~~~~~srLieG~yPd 116 (116)
T pfam02767 79 LLTDNGELVKLQIGEGQIRFEFGNVIFTSRLIDGKFPD 116 (116)
T ss_pred HHCCCCCEEEEEECCCEEEEEECCEEEEEEEEEEECCC
T ss_conf 62689973999986999999989999999997106779
No 10
>pfam00712 DNA_pol3_beta DNA polymerase III beta subunit, N-terminal domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=99.97 E-value=4.5e-29 Score=195.39 Aligned_cols=119 Identities=30% Similarity=0.555 Sum_probs=112.6
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEEC-CCCEEEEEHHHHHHHHH
Q ss_conf 95898599999999987502037888610133899998997999996782899999977752-68079994998778874
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVD-VCGSITVSAHLLYDIVR 79 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~-~~G~~~v~a~~l~~iik 79 (385)
|||+|+|++|.++|+++++++++|+++|||+|+||++.+++|+++|||+|++++.++++++. ++|+++||||.|.+++|
T Consensus 1 Mkf~i~k~~L~~aL~~v~~~v~~k~~~PiL~~vli~~~~~~l~l~aTDlei~i~~~i~~~~~~e~G~~~vpak~l~divr 80 (120)
T pfam00712 1 MKFTIERDQLLKALQKVARVLSNRPTIPILSGILLEVKDDQLSLTGTDLEISIESTISAEIESEPGSVLIPARKFLDIVR 80 (120)
T ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCHHHHCCEEEEEECCEEEEEECCCCEEEEEEEEEEEECCCEEEEEEHHHHHHHHH
T ss_conf 98999899999999999866077987178758899998999999982675799999801681434089980499889998
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCC
Q ss_conf 0777773047773367508999867820243036621143212
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTK 122 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~ 122 (385)
+||++..+.+..++ +++.|++|+++|+|+++|++|||.+|
T Consensus 81 ~lp~~~~i~~~~~~---~~l~I~~~~~~f~l~~~~~~eFP~~P 120 (120)
T pfam00712 81 ALPDDKDVKLSVNE---DRLLIISGNSRFSLPTLPAEDYPNLP 120 (120)
T ss_pred HCCCCCCEEEEECC---CEEEEEECCEEEEECCCCHHHCCCCC
T ss_conf 39999838999839---99999979729997178979868998
No 11
>cd00140 beta_clamp Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.
Probab=99.65 E-value=3.6e-14 Score=104.99 Aligned_cols=211 Identities=20% Similarity=0.278 Sum_probs=101.4
Q ss_pred EEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEE--ECCCCEEEEEHHHHHHHHH
Q ss_conf 58985999999999875020378886101338999989979999967828999999777--5268079994998778874
Q gi|254780454|r 2 KITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS--VDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 2 k~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~--i~~~G~~~v~a~~l~~iik 79 (385)
.++++...|.+++..+.-+++...+.|+|.|++++..+++|.+.|||+-.-....++.+ ...+..++||+|.+.++.|
T Consensus 126 ~~~i~~~~l~~~i~~v~~a~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k 205 (365)
T cd00140 126 SFTIPASELKELIKKTAFAVSTDETRPILNGVLLEIEDNKLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNELLK 205 (365)
T ss_pred EEEECHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCEEEEEEECCCEEEEEEECCCCCCCCCEEEEEEHHHHHHHHH
T ss_conf 89985999999997556454655663136899999979989999964141046984257777765169986999999998
Q ss_pred CCCCC-CCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCC---CCCCEEEECCCHHHHHHHCCEEEECCCCCCCC
Q ss_conf 07777-730477733675089998678202430366211432123---32430450561135542022023002455652
Q gi|254780454|r 80 KLQDG-AQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKE---EEYVYSFELASSVLKNLVERTHFAMATEEIRY 155 (385)
Q Consensus 80 ~L~~~-~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~---~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~ 155 (385)
-++++ ..+.+... ++++.+..+...+.....+. .||.+.. .+....+.++.+.|.++++|+..-++ +..
T Consensus 206 ~l~~~~~~v~i~~~---~~~i~~~~~~~~~~srlieg-~yP~y~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~-~~~-- 278 (365)
T cd00140 206 LLEDDDEEVEISIS---ENQILFKLGNTTFTSRLIEG-EFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSN-EKN-- 278 (365)
T ss_pred HHCCCCCCEEEEEC---CCEEEEEECCEEEEEEECCC-CCCCHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHC-CCC--
T ss_conf 62568872899985---87799998999999986177-999756508998984899638999999987713503-788--
Q ss_pred CEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 1011667761787348999853415766664357875331000001000122221027764643313345
Q gi|254780454|r 156 YLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSE 225 (385)
Q Consensus 156 ~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~ 225 (385)
++|.|++.++..++.+.+.|.-. +.-+++.... +++..+-.-.+.|.+.++.+.+ ++|.+.+.+
T Consensus 279 --~~v~l~~~~~~l~iss~~~e~g~-~~e~i~~~~~-G~~~~i~fN~~yL~d~L~~~~~--~~v~l~~~~ 342 (365)
T cd00140 279 --RGVKLEISEGQLKLSANNPEIGE-AEEELEVEYE-GEELEIGFNPKYLLDALKAIDS--EEVRLSFTD 342 (365)
T ss_pred --CEEEEEECCCEEEEEECCCCCEE-EEEEEEEEEC-CCCEEEEECHHHHHHHHHCCCC--CEEEEEECC
T ss_conf --43999964997999986888606-9999998850-8867999989999999851899--879999868
No 12
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=99.65 E-value=4.6e-14 Score=104.32 Aligned_cols=199 Identities=17% Similarity=0.258 Sum_probs=78.3
Q ss_pred EECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHH
Q ss_conf 50561135542022023002455652101166776178734899985341576666435787533100000100012222
Q gi|254780454|r 130 FELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEIL 209 (385)
Q Consensus 130 ~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~ 209 (385)
|.++.+.|.+++..+..+++...+.|+|.|++++..++ ++++.|||+--=....++.. ...++..++||+|.+.++.
T Consensus 3 ~~i~k~~L~~~l~~v~~~i~~k~~~piL~~ill~~~~~--~l~l~atd~e~~i~~~i~~~-~i~~~G~~~v~ak~l~~iv 79 (365)
T PRK05643 3 FTIERNALLKALQLVQRAVERRNTIPILSNILIEADEG--GLSLTGTDLEIGIETKIPAA-EVEEEGAITVPAKKFLDIV 79 (365)
T ss_pred EEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECC--EEEEEEECCCEEEEEEEECC-EECCCEEEEEEHHHHHHHH
T ss_conf 99989999999999875528898628876879999899--99999988855999999741-4445549999779989899
Q ss_pred HHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECC-CCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCC-CCCC---
Q ss_conf 1027764643313345530100250699985126-6553221013555661799848998888988741012-3555---
Q gi|254780454|r 210 RILSSKDSSVKVSLSESRIHLNIESLSMSVRLID-GEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSS-VRIQ--- 284 (385)
Q Consensus 210 k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~-g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~-~~~~--- 284 (385)
|-|++ ++|++...++++.++.++..|.-..++ ..||.+... +....+.++...|.++++++...++ +..+
T Consensus 80 k~lp~--~~i~l~~~~~~l~I~~~~~~f~l~~~~~~dfP~~~~~---~~~~~~~i~~~~l~~~i~~v~~a~s~de~r~~L 154 (365)
T PRK05643 80 RKLPD--SEITLELEGNRLTIKSGRSRFNLQTLPAEDFPELPEI---EEEVSFSLPQKTLKRLIKKTQFAISTQETRYYL 154 (365)
T ss_pred HHCCC--CCEEEEECCCEEEEEECCEEEEEECCCHHHCCCCCCC---CCCCEEEECHHHHHHHHHHHHEECCCCCCCCEE
T ss_conf 63899--8459997499899997877999976897998898667---887179997999999997454000455672013
Q ss_pred -CCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCCEEEEECHHHHHHHHHHCC
Q ss_conf -30256517659999807873268999998962884399963889988987357
Q gi|254780454|r 285 -AVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNIS 337 (385)
Q Consensus 285 -~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~~~i~fN~~yl~d~L~~~~ 337 (385)
+|.|.++++.+++.+.+. +-=+.-.++......+..+-...+.+.+..+.+.
T Consensus 155 ~Gv~~~~~~~~l~~vATDg-~RLa~~~~~~~~~~~~~~~iiP~K~l~el~kll~ 207 (365)
T PRK05643 155 NGVLLEIKGNELRAVATDG-HRLAVRSLELEGTEEMFSVIIPRKTLLELQKLLD 207 (365)
T ss_pred EEEEEEEECCEEEEEEECC-CEEEEEECCCCCCCCCCEEEEEHHHHHHHHHHHC
T ss_conf 2599999699999999643-3124676135677765048988799999998717
No 13
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=99.60 E-value=2.1e-13 Score=100.31 Aligned_cols=209 Identities=16% Similarity=0.248 Sum_probs=113.7
Q ss_pred EEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHH
Q ss_conf 45056113554202202300245565210116677617873489998534157666643578753310000010001222
Q gi|254780454|r 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEI 208 (385)
Q Consensus 129 ~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el 208 (385)
.|.++.++|.+++..+..+++...+.|+|.||+++..++ +|++.|||+---....++. ...++..++||+|.+.++
T Consensus 2 kf~i~k~~L~~~L~~v~~~v~~k~~~piL~~vliea~~~--~l~l~atd~ei~i~~~i~~--~i~e~G~~~vpak~l~~i 77 (376)
T PRK07761 2 KFRVERDDLADAVAWVARSLPARPPVPVLAGVLLEADDE--GLTLSGFDYEVSARVRVSA--EVDEPGRVLVSGRLLADI 77 (376)
T ss_pred EEEEEHHHHHHHHHHHHHHCCCCCCHHHHCCEEEEEECC--EEEEEEECCCEEEEEEEEE--EECCCEEEEEEHHHHHHH
T ss_conf 799999999999999986617898728877889999899--9999997782799999976--871571899977999999
Q ss_pred HHHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECC-CCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCC-CCC---
Q ss_conf 21027764643313345530100250699985126-6553221013555661799848998888988741012-355---
Q gi|254780454|r 209 LRILSSKDSSVKVSLSESRIHLNIESLSMSVRLID-GEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSS-VRI--- 283 (385)
Q Consensus 209 ~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~-g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~-~~~--- 283 (385)
.|-|++ ++|.+...++++.++.+...|.-..++ ..||.+..+ ......++...|.++++++...+. +..
T Consensus 78 vk~lp~--~~I~l~~e~~~l~I~~g~~~f~l~~~~~~dfP~~~~~----~~~~~~i~~~~l~~~i~~t~fa~s~~e~r~~ 151 (376)
T PRK07761 78 TRALPN--KPVEFSVDGSRVTLTCGSARFTLPTMPVEDYPTLPQL----PEETGTVPAELFAEAVSQVAVAAGRDDTLPM 151 (376)
T ss_pred HHHCCC--CCEEEEECCCEEEEEECCEEEEEECCCHHHCCCCCCC----CCCCEEECHHHHHHHHHHEEEEECCCCCHHH
T ss_conf 974777--6327997199999998977999634686878666788----7631589899999998437587317478477
Q ss_pred -CCCEEEEECCEEEEEECCCCCEEEEEEEEEEE--CCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECC
Q ss_conf -53025651765999980787326899999896--2884399963889988987357533466338999658
Q gi|254780454|r 284 -QAVKLSLSSDKLCMTVDNPDMGKAIESMNVYY--NECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDS 352 (385)
Q Consensus 284 -~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~--~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~ 352 (385)
++|.|.++++.+++-+.+. +-=+.-.+.++. ...+..+-...+.|.|.++.+..+ +++.+.+.+
T Consensus 152 L~Gv~~~~~~~~l~~vATDg-hRLa~~~~~~~~~~~~~~~~~iIP~k~l~el~k~l~~~----~~v~l~~~~ 218 (376)
T PRK07761 152 LTGIRLEIEGETVVLAATDR-FRLAVRELTWSPGSPDIDAAALVPAKTLAEAAKALTLG----SEVRLALGT 218 (376)
T ss_pred HCCEEEEEECCEEEEEEECC-CCEEEEEECCCCCCCCCCCCEEECHHHHHHHHHHCCCC----CCEEEEEEC
T ss_conf 37389998499899999753-21013663246667776543571089999999753889----848999966
No 14
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=99.58 E-value=1.4e-12 Score=95.33 Aligned_cols=218 Identities=19% Similarity=0.229 Sum_probs=159.1
Q ss_pred EEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEE-ECCCCEEEEEHHHHHHHHHC
Q ss_conf 58985999999999875020378886101338999989979999967828999999777-52680799949987788740
Q gi|254780454|r 2 KITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS-VDVCGSITVSAHLLYDIVRK 80 (385)
Q Consensus 2 k~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~-i~~~G~~~v~a~~l~~iik~ 80 (385)
.|+++..+|.++|.++.-+++...+.|+|.|++++..++++++.|||+-.-....++.+ ..++.+++||+|.+.++.|-
T Consensus 110 ~~~i~~~~l~~~i~~v~fA~s~de~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~iiP~k~l~el~kl 189 (345)
T smart00480 110 TFELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGHRLAVREIKLESEEDDFSVIIPRKSLLELNKL 189 (345)
T ss_pred EEEECHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEECCEEEEEECCCCEEEEEEECCCCCCCCCEEEEEHHHHHHHHHH
T ss_conf 89996999999998778764554666107999999709999999945353678861257777761599888999999877
Q ss_pred CCCC-CCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCC---CCCCEEEECCCHHHHHHHCCEEEECCCCCCCCC
Q ss_conf 7777-730477733675089998678202430366211432123---324304505611355420220230024556521
Q gi|254780454|r 81 LQDG-AQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKE---EEYVYSFELASSVLKNLVERTHFAMATEEIRYY 156 (385)
Q Consensus 81 L~~~-~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~---~~~~~~~~i~~~~l~~~i~~t~~a~s~d~~r~~ 156 (385)
|++. ..+.+... ++++.+.++...+....++. .||.... .+....+.++.+.|.++++|+...+ .+..
T Consensus 190 l~~~~~~v~i~~~---~~~i~f~~~~~~~~srLieG-~yPdy~~viP~~~~~~~~v~r~~l~~al~Rvsi~~-~~~~--- 261 (345)
T smart00480 190 LTDNEELVEIFIS---SNQILFETGNVIFTSRLIDG-EFPDYKRVIPKEFETKLTVNRKELKEALKRVALLA-NEKN--- 261 (345)
T ss_pred HCCCCCCCEEECC---CCEEEEEECCEEEEEEECCC-CCCCHHHHCCCCCCEEEEEEEHHHHHHHHHHEEEC-CCCC---
T ss_conf 4258765147507---98799998999999974477-99971520888997699998327877765425400-4788---
Q ss_pred EEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCC--CEEEEC
Q ss_conf 0116677617873489998534157666643578753310000010001222210277646433133455--301002
Q gi|254780454|r 157 LNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSES--RIHLNI 232 (385)
Q Consensus 157 L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~--~i~~~~ 232 (385)
.+|.|.+.++..++...+.|.- -+.-+++... .+++..+-.-.+.|.+.++.+.+ ++|.+.+.+. -+.++.
T Consensus 262 -~~v~l~~~~~~l~i~s~~~e~g-~~~e~i~~~~-~G~~~~I~fN~~YL~d~L~~~~~--~~V~l~~~~~~~p~~i~~ 334 (345)
T smart00480 262 -RSVKLTLEEGQLKLTANSPEVG-EAEEEVDVDY-EGEDLEIAFNPKYLLDALKALKS--EEIELKFTDSSSPFLISP 334 (345)
T ss_pred -CCEEEECCCCCEEEEECCCCCC-EEEEEEEEEE-CCCCEEEEECHHHHHHHHHCCCC--CEEEEEECCCCCCEEEEC
T ss_conf -6589970377247984388864-3789997573-38967999989999999855899--879999868999789986
No 15
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=99.52 E-value=3.3e-12 Score=93.09 Aligned_cols=142 Identities=11% Similarity=0.263 Sum_probs=72.6
Q ss_pred EEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEECCCCEEEEEHHHHHHHHHCCC
Q ss_conf 89859999999998750203788861013389999899799999678289999997775268079994998778874077
Q gi|254780454|r 3 ITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVCGSITVSAHLLYDIVRKLQ 82 (385)
Q Consensus 3 ~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~~~G~~~v~a~~l~~iik~L~ 82 (385)
+.++..+|.++|+++.-++++..+.|+|.|++++.+++.+++.|||+-.=.....+.+.+.++.++||+|.+.++.|-++
T Consensus 134 ~~i~~~~l~~~i~kt~fA~s~de~rp~l~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~iiP~k~l~el~kll~ 213 (376)
T PRK06673 134 IQIETKQLIDAFKQTVFAVAKNESRPVLTGVHIELDHNKLICAATDSHRLAIRETLISTNMKANCIVPSATINELLKLMN 213 (376)
T ss_pred EEECHHHHHHHHHHHHHHHCCCCCCHHEEEEEEECCCCEEEEEEECCCEEEEEECCCCCCCCCCEEECHHHHHHHHHHHC
T ss_conf 99859999999997673553656714422387723599899999758456888603588877437832899999997740
Q ss_pred CCCC-EEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCC---CCCCEEEECCCHHHHHHHCCEEEEC
Q ss_conf 7773-0477733675089998678202430366211432123---3243045056113554202202300
Q gi|254780454|r 83 DGAQ-ISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKE---EEYVYSFELASSVLKNLVERTHFAM 148 (385)
Q Consensus 83 ~~~~-i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~---~~~~~~~~i~~~~l~~~i~~t~~a~ 148 (385)
++.+ +.+...+ +++.+++++..+.-..++. .||.... .+....+.++...|.++++|+..-+
T Consensus 214 ~~~e~v~i~~~~---~~i~f~~~~~~~~srLIeg-~fPdy~~viP~~~~~~~~v~r~~ll~al~Rvsi~~ 279 (376)
T PRK06673 214 SNLEFVSIYLSE---SHIIFTFGTTTLYSRLIEG-KYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLA 279 (376)
T ss_pred CCCCEEEEEECC---CEEEEEECCEEEEEEECCC-CCCCHHHHCCCCCCEEEEEEHHHHHHHHHHHHHHH
T ss_conf 588547897256---1599998998999981266-78877772899998699998999999999999771
No 16
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=99.32 E-value=8.7e-10 Score=78.39 Aligned_cols=215 Identities=16% Similarity=0.220 Sum_probs=158.8
Q ss_pred EEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHH
Q ss_conf 45056113554202202300245565210116677617873489998534157666643578753310000010001222
Q gi|254780454|r 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEI 208 (385)
Q Consensus 129 ~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el 208 (385)
.|.++.+.|.+.+..+..++++..+.|+|+|++++.+++ .+.+.|||..==..+.++.. ......+.+|.|.+.++
T Consensus 2 k~~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~--~l~~~~td~ei~~~~~i~~~--v~~~g~~~v~~k~l~di 77 (364)
T COG0592 2 KFSIERENLLKALQLVSRIVESRPTIPILSNVLIEAKEN--GLTLTGTDLEISLEARIPAE--VEAEGEVAVPAKKLLDI 77 (364)
T ss_pred EEEEEHHHHHHHHHHHHHHCCCCCCCHHHHCEEEEEECC--EEEEEEECCCEEEEEEEEEE--EEEEEHHHHHHHHHHHH
T ss_conf 899988999999999986616899974560579999788--27999955525899998789--99976014448999999
Q ss_pred HHHCCCCCCCCCCCCCCCC-EEEECCEEEEEEEECC-CCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHHHCCC-----C
Q ss_conf 2102776464331334553-0100250699985126-6553221013555661799848998888988741012-----3
Q gi|254780454|r 209 LRILSSKDSSVKVSLSESR-IHLNIESLSMSVRLID-GEFPNYQNVIPCSNDKELRVNCTNLRQAVDRVSIMSS-----V 281 (385)
Q Consensus 209 ~k~l~~~~~~v~i~~~~~~-i~~~~~~~~~~srLi~-g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv~i~~~-----~ 281 (385)
.+-+.+. ..+....++.. ..+..+...|....+. ..||+|...-+. ..+.++-..|.+.++|+..-.+ .
T Consensus 78 i~~L~de-~~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~~---~~~~l~~~~Lk~ii~~~~fa~~~~e~~~ 153 (364)
T COG0592 78 ISKLPDE-AVFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEEE---VEFGLPTELLKKIIKRTKFADSLLETRY 153 (364)
T ss_pred HHHCCCC-CEEEEECCCCEEEEECCCCEEEEECCCCHHHCCCCCCCCCC---EEEEEEHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9858852-05999627830799826835999658897998775688775---1788529999999998776565553353
Q ss_pred CCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCCEEEEECHHHHHHHHHHCCCCC----CCCCEEEEEECC
Q ss_conf 55530256517659999807873268999998962884399963889988987357533----466338999658
Q gi|254780454|r 282 RIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDE----VVDDEVVFRLDS 352 (385)
Q Consensus 282 ~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~~~i~fN~~yl~d~L~~~~~~~----~~~e~i~l~~~~ 352 (385)
.-+++.|.+.++.+..-+.+. +--+..+++......+..+....+-+.++++.+.... +..+.+.+...+
T Consensus 154 ~lngv~~~i~~~~l~~vatd~-~rla~~~~~~~~~~~~~~viIp~k~l~el~k~~~d~~~~~~~~sd~i~f~~~~ 227 (364)
T COG0592 154 ELNGVLLEIEGTKLRLVATDG-HRLAVEELEIPELEEDASVIIPAKTLKELIKLLKDADVEIFLVSDQIRFKAGE 227 (364)
T ss_pred HCCEEEEEEECCEEEEEECCC-CEEEEEECCCCCCCCCEEEEEEHHHHHHHHHHCCCCCCEEEECCCEEEEEECC
T ss_conf 264699999688899998388-45788724677667883899987999999864215663178617879999888
No 17
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=99.27 E-value=4.6e-09 Score=73.99 Aligned_cols=225 Identities=19% Similarity=0.299 Sum_probs=158.5
Q ss_pred EECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCC-----HHCCCCCH
Q ss_conf 5056113554202202300245565210116677617873489998534157666643578753310-----00001000
Q gi|254780454|r 130 FELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMP-----SIIVPRKA 204 (385)
Q Consensus 130 ~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~-----~~iiP~k~ 204 (385)
.++++..|+++++. .+..+.=+.|++..++. .+.|.|..|.+.....++...-... .+-|....
T Consensus 4 ~~i~a~~~k~i~e~---------l~~l~~e~~~~~~~~Gl--~iqamD~shv~lv~l~l~~~~F~~Y~~d~~~iGv~~~~ 72 (245)
T PRK01115 4 AVISAEELKDAIDA---------LSVLVDEAKFKVTEEGI--SVRAVDPANVAMVDLELPKSAFSEYEADGGEIGVDLDR 72 (245)
T ss_pred EEECHHHHHHHHHH---------HHHHHCEEEEEECCCEE--EEEEECCCCEEEEEEEECHHHCCEEEECCCEEEEEHHH
T ss_conf 99819999999999---------98875469999927826--99999877289999996864190798159799999899
Q ss_pred HHHHHHHCCCCCCCCCCCCCCC--CEEEECCEEEEEEEECCCCCCCCCCCCCC-CCCCEEEEEHHHHHHHHHHHHHCCCC
Q ss_conf 1222210277646433133455--30100250699985126655322101355-56617998489988889887410123
Q gi|254780454|r 205 VGEILRILSSKDSSVKVSLSES--RIHLNIESLSMSVRLIDGEFPNYQNVIPC-SNDKELRVNCTNLRQAVDRVSIMSSV 281 (385)
Q Consensus 205 l~el~k~l~~~~~~v~i~~~~~--~i~~~~~~~~~~srLi~g~yPdy~~vip~-~~~~~~~v~r~~l~~al~Rv~i~~~~ 281 (385)
|..+.|.... ++.+++.++++ .+.+.+++..+.-+|++-..+.-.-=+|+ +++..++++-.+|.++++.+..+++.
T Consensus 73 l~KIlk~~~~-~d~l~l~~~~~~~~l~i~~~~~~f~l~Lidi~~~~~~~~iP~~e~~~~i~m~S~~f~~i~~dl~~~~D~ 151 (245)
T PRK01115 73 LKDILGMADS-GDTVRLELDEENRKLEISFGGLEYTLSLIDPSTIRKEPDIPELDLPAKVVLLGADLKRAVKAAEKVSDH 151 (245)
T ss_pred HHHHHHHCCC-CCEEEEEEECCCCEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCEEEEEEEHHHHHHHHHHHHHCCCE
T ss_conf 8999962789-987999992899889999846289997106333234689999774599999989999999999861987
Q ss_pred CCCCCEEEEECCEEEEEECCCCCEEEEEEEE----EEECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCE
Q ss_conf 5553025651765999980787326899999----896288439996388998898735753346633899965898758
Q gi|254780454|r 282 RIQAVKLSLSSDKLCMTVDNPDMGKAIESMN----VYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSV 357 (385)
Q Consensus 282 ~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~----~~~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~ 357 (385)
|.+..+++++.+++.+ +.|++.-.+. ..++.++.+-.|..+||..+.++... .+.|+++|. ...|+
T Consensus 152 ----i~i~~~~~~~~~~~~g-d~~~~~~~~~~~~~~~~~~~~~~~~ysl~Yl~~~~k~~~l----s~~v~i~~~-~d~Pl 221 (245)
T PRK01115 152 ----IALGVDDEEFYMEAEG-DTDEVKLELEDDELIDLSPGEAKSLFSLDYLKDMVKAIGK----ADEVTISLG-NDFPV 221 (245)
T ss_pred ----EEEEEECCEEEEEEEC-CCEEEEEEECCCCCEEEECCCCEEEEEHHHHHHHHHHCCC----CCEEEEEEC-CCCCE
T ss_conf ----9999948999999984-7736999966986168403662358879999998735157----986999975-99889
Q ss_pred EEECCCCCCCCCCCCCCCEEEEEEE
Q ss_conf 9943776544455566763799832
Q gi|254780454|r 358 FIRGKDKDSKNNKDNKVNAFYVLMP 382 (385)
Q Consensus 358 ~i~~~~~~~~~~~~~~~~~~~liMP 382 (385)
.+.-.=. ++...-.|.|.|
T Consensus 222 ~l~y~~~------~~~g~l~f~LAP 240 (245)
T PRK01115 222 KIEFYIA------DGNGRVTYLLAP 240 (245)
T ss_pred EEEEEEC------CCCEEEEEEECC
T ss_conf 9999977------983999999888
No 18
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=99.03 E-value=3.3e-07 Score=62.72 Aligned_cols=205 Identities=19% Similarity=0.275 Sum_probs=142.9
Q ss_pred EEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCC------CCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCC-C--
Q ss_conf 011667761787348999853415766664357875------3310000010001222210277646433133455-3--
Q gi|254780454|r 157 LNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQI------AKMPSIIVPRKAVGEILRILSSKDSSVKVSLSES-R-- 227 (385)
Q Consensus 157 L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~------~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~-~-- 227 (385)
..=+.|++..++ +.+.|.|+.|.+.....++... ++...+-|+.+.|..++|.+... ..+.+.+++. .
T Consensus 20 ~~e~~~~~~~~G--i~i~~~D~s~v~lv~~~L~~~~F~~Y~~~~~~~~gv~~~~L~kiLk~~~~~-d~l~l~~~~~~~l~ 96 (248)
T cd00577 20 VDEANFDITEDG--ISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKILKCAGNE-DCVTLRADDEDPLK 96 (248)
T ss_pred HCCEEEEEECCE--EEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEHHHHHHHHHHHCCC-CEEEEEECCCCCEE
T ss_conf 581999990785--799999999779999997743190781499889999989999998642489-71899963799179
Q ss_pred EEEECC----EEEEEEEECCCCCCCCCCCCC-CCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCC
Q ss_conf 010025----069998512665532210135-556617998489988889887410123555302565176599998078
Q gi|254780454|r 228 IHLNIE----SLSMSVRLIDGEFPNYQNVIP-CSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNP 302 (385)
Q Consensus 228 i~~~~~----~~~~~srLi~g~yPdy~~vip-~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~ 302 (385)
+.+... ...+..+|++..-++..- | .+++..++++-..|.++++.+..+++ .+.+..+++++.+++.+.
T Consensus 97 i~~~~~~~~~~~~~~l~l~d~~~~~~~~--p~~e~~~~i~~~s~~~~~~~~~l~~~~d----~v~i~~~~~~~~~~~~gd 170 (248)
T cd00577 97 ILFESSKGDVTSEFSLKLMDIDSEQLPI--PELEYDATVTLPSDELKDIVRDLESISD----SVTISASKDGFKFSAEGE 170 (248)
T ss_pred EEEEECCCCEEEEEEEECCCCCCCCCCC--CCCCCCEEEEECHHHHHHHHHHHHHHCC----CEEEEEECCEEEEEEEEC
T ss_conf 9999579867999995033676446789--8766568999719999999999996099----499999399899999944
Q ss_pred CCEEEEEEE-E-------EEECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCC
Q ss_conf 732689999-9-------89628843999638899889873575334663389996589875899437765444555667
Q gi|254780454|r 303 DMGKAIESM-N-------VYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKV 374 (385)
Q Consensus 303 e~g~~~e~i-~-------~~~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~ 374 (385)
.|.+...+ + ....+++.+..|..+||..+.++... .+.|++++... .|+.+.-.-.. ..
T Consensus 171 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~yL~~~~k~~~l----s~~V~i~~~~~-~Pl~l~y~~~~-------~~ 237 (248)
T cd00577 171 -LGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL----SDKVTLSFGSD-GPLSLEFKIAD-------GG 237 (248)
T ss_pred -CCCEEEEEEECCCCEEEEEECCCCEEEEEEHHHHHHHHHHHCC----CCEEEEEECCC-CCEEEEEECCC-------CE
T ss_conf -8857999930898606898549736899989999998625046----98799997699-77899999289-------80
Q ss_pred CEEEEEEEE
Q ss_conf 637998321
Q gi|254780454|r 375 NAFYVLMPM 383 (385)
Q Consensus 375 ~~~~liMPv 383 (385)
...|.+-|.
T Consensus 238 ~i~f~lAP~ 246 (248)
T cd00577 238 HLTFYLAPK 246 (248)
T ss_pred EEEEEECCC
T ss_conf 999998644
No 19
>PTZ00113 proliferating cell nuclear antigen (cyclin); Provisional
Probab=98.95 E-value=1.4e-06 Score=58.89 Aligned_cols=207 Identities=20% Similarity=0.296 Sum_probs=140.3
Q ss_pred CCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCC------CHHCCCCCHHH
Q ss_conf 611355420220230024556521011667761787348999853415766664357875331------00000100012
Q gi|254780454|r 133 ASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKM------PSIIVPRKAVG 206 (385)
Q Consensus 133 ~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~------~~~iiP~k~l~ 206 (385)
++..|++++. ..+..+.=+.|++..++ +.+.|.|.-|.|...+.++...-.. ..+=|....|.
T Consensus 8 ~a~~~k~i~e---------~lk~lv~e~~~~~~~~G--i~iqamD~shVaLv~l~L~~~~F~~Y~~~~~~~iGvn~~~l~ 76 (277)
T PTZ00113 8 NAVVLRRIFD---------CIRDLINDGNIDFDATG--MKLQALDGNHVALVHLKLHESGFSLYRCDRPRALGININSVT 76 (277)
T ss_pred CHHHHHHHHH---------HHHHHHCEEEEEECCCE--EEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEHHHHH
T ss_conf 5689999999---------99986451789995885--799998678489999998964381995599869989889999
Q ss_pred HHHHHCCCCCCCCCCCCCC--CCEEEECCE------EEEEEEECCCCCCCCCCCCCC-C--CCCEEEEEHHHHHHHHHHH
Q ss_conf 2221027764643313345--530100250------699985126655322101355-5--6617998489988889887
Q gi|254780454|r 207 EILRILSSKDSSVKVSLSE--SRIHLNIES------LSMSVRLIDGEFPNYQNVIPC-S--NDKELRVNCTNLRQAVDRV 275 (385)
Q Consensus 207 el~k~l~~~~~~v~i~~~~--~~i~~~~~~------~~~~srLi~g~yPdy~~vip~-~--~~~~~~v~r~~l~~al~Rv 275 (385)
.++|.... +..+.+...+ ..+.+.+.+ ..|.-+|++-....+. +|. + ++..++++-.+|.++++-+
T Consensus 77 kiLk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~did~e~l~--IPe~e~~~~~~i~m~S~~f~~~ikdl 153 (277)
T PTZ00113 77 KAFKSCGN-NDSVLIQSEEDKDNINFVFENNVEDRVTSFSLKLMSIEQDALS--IPENTEGFDAEITLSSKELTNICKQM 153 (277)
T ss_pred HHHHHCCC-CCEEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCC--CCCCCCCCCEEEEECHHHHHHHHHHH
T ss_conf 99862569-9769999807998799999758863588999986136754567--99987654289998199999999999
Q ss_pred HHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEE-----------EEE-CCCCEEEEECHHHHHHHHHHCCCCCCCC
Q ss_conf 4101235553025651765999980787326899999-----------896-2884399963889988987357533466
Q gi|254780454|r 276 SIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMN-----------VYY-NECPMDICFNYKYLLEIIDNISSDEVVD 343 (385)
Q Consensus 276 ~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~-----------~~~-~G~~~~i~fN~~yl~d~L~~~~~~~~~~ 343 (385)
+.+++. |.+..+++++++++.+ |.|++...+. +.. ..++++-.|..+||..+.++..- .
T Consensus 154 ~~~~d~----I~i~~~~~~~~~~~~G-d~g~~~~~~~~~~~~~e~~~~~~i~~~~~~~~~ysl~YL~~f~K~~~l----s 224 (277)
T PTZ00113 154 NEFSDT----VKIDISSNSIKFTTKG-DLGDGEIVLKNRAPTSEDDCGVTIKVKKPIKQSYATKYLLMFSKSGCL----S 224 (277)
T ss_pred HHCCCE----EEEEEECCEEEEEEEE-CCCEEEEEEECCCCCCCCCCEEEEECCCCEEEEEEHHHHHHHHCCCCC----C
T ss_conf 862988----9999959989999980-375289999527887886530689738836889848998865370567----8
Q ss_pred CEEEEEECCCCCCEEEECCC
Q ss_conf 33899965898758994377
Q gi|254780454|r 344 DEVVFRLDSSNSSVFIRGKD 363 (385)
Q Consensus 344 e~i~l~~~~~~~p~~i~~~~ 363 (385)
+.|+++|. +..|+.+.-.=
T Consensus 225 ~~V~i~~~-~d~Pl~l~y~l 243 (277)
T PTZ00113 225 DVVTLGLS-QNRPIEVKYEV 243 (277)
T ss_pred CEEEEEEE-CCCCEEEEEEE
T ss_conf 76999970-99678999994
No 20
>pfam00712 DNA_pol3_beta DNA polymerase III beta subunit, N-terminal domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=98.94 E-value=1.8e-09 Score=76.41 Aligned_cols=117 Identities=18% Similarity=0.339 Sum_probs=97.7
Q ss_pred EEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCCHHCCCCCHHHHH
Q ss_conf 45056113554202202300245565210116677617873489998534157666643578753310000010001222
Q gi|254780454|r 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMPSIIVPRKAVGEI 208 (385)
Q Consensus 129 ~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el 208 (385)
.|.++.+.|.+++..+..++++..+.|+|.||+++..++ .+++.|||.-.-....++.... .++..++||+|.+.++
T Consensus 2 kf~i~k~~L~~aL~~v~~~v~~k~~~PiL~~vli~~~~~--~l~l~aTDlei~i~~~i~~~~~-~e~G~~~vpak~l~di 78 (120)
T pfam00712 2 KFTIERDQLLKALQKVARVLSNRPTIPILSGILLEVKDD--QLSLTGTDLEISIESTISAEIE-SEPGSVLIPARKFLDI 78 (120)
T ss_pred EEEEEHHHHHHHHHHHHHHHCCCCCHHHHCCEEEEEECC--EEEEEECCCCEEEEEEEEEEEE-CCCEEEEEEHHHHHHH
T ss_conf 899989999999999986607798717875889999899--9999982675799999801681-4340899804998899
Q ss_pred HHHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECC-CCCCCC
Q ss_conf 21027764643313345530100250699985126-655322
Q gi|254780454|r 209 LRILSSKDSSVKVSLSESRIHLNIESLSMSVRLID-GEFPNY 249 (385)
Q Consensus 209 ~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~-g~yPdy 249 (385)
.|-++++ +.+.+..+++++.+..++..|.-..++ ..||.+
T Consensus 79 vr~lp~~-~~i~~~~~~~~l~I~~~~~~f~l~~~~~~eFP~~ 119 (120)
T pfam00712 79 VRALPDD-KDVKLSVNEDRLLIISGNSRFSLPTLPAEDYPNL 119 (120)
T ss_pred HHHCCCC-CCEEEEECCCEEEEEECCEEEEECCCCHHHCCCC
T ss_conf 9839999-8389998399999997972999717897986899
No 21
>pfam02767 DNA_pol3_beta_2 DNA polymerase III beta subunit, central domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=98.84 E-value=8.2e-08 Score=66.41 Aligned_cols=113 Identities=18% Similarity=0.191 Sum_probs=89.5
Q ss_pred EEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEE--ECCCCEEEEEHHHHHHHHHCC
Q ss_conf 985999999999875020378886101338999989979999967828999999777--526807999499877887407
Q gi|254780454|r 4 TVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPAS--VDVCGSITVSAHLLYDIVRKL 81 (385)
Q Consensus 4 ~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~--i~~~G~~~v~a~~l~~iik~L 81 (385)
++..+.|.++|+++.-+++...+.|+|.|++++..++++++.|||+-.=....++.+ .....+++||+|.+.++.|-|
T Consensus 1 Ti~~~~l~~~i~~t~fA~s~d~~r~~L~Gv~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~~~iIP~k~l~el~k~l 80 (116)
T pfam02767 1 TLPQKVLKELIEQTAFAMGRDETRYVLNGVNLETEGNELRLVATDGHRLAVRKLELSVENPDIFSVIVPRKTLLELAKLL 80 (116)
T ss_pred CCCHHHHHHHHHHEEEEECCCCCHHHHEEEEEEEECCEEEEEEECCHHEEEEEEECCCCCCCCEEEEEEHHHHHHHHHHH
T ss_conf 97989999998437599804646266128999998999999997603001014521247887603897789999999862
Q ss_pred CCCC-CEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCC
Q ss_conf 7777-30477733675089998678202430366211432
Q gi|254780454|r 82 QDGA-QISFFKENELGTEVNISHGDSNFYLQSFPESEFPS 120 (385)
Q Consensus 82 ~~~~-~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~ 120 (385)
.+.. .+.+... .+++.++.++..+.-..++. +||.
T Consensus 81 ~~~~~~v~i~~~---~~~i~f~~~~~~~~srLieG-~yPd 116 (116)
T pfam02767 81 TDNGELVKLQIG---EGQIRFEFGNVIFTSRLIDG-KFPD 116 (116)
T ss_pred CCCCCEEEEEEC---CCEEEEEECCEEEEEEEEEE-ECCC
T ss_conf 689973999986---99999998999999999710-6779
No 22
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=98.70 E-value=4.6e-06 Score=55.77 Aligned_cols=201 Identities=14% Similarity=0.234 Sum_probs=130.2
Q ss_pred EEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEE--EEEEE------EEECCCCEEEEEHHH
Q ss_conf 5898599999999987502037888610133899998997999996782899--99997------775268079994998
Q gi|254780454|r 2 KITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEI--TGAIP------ASVDVCGSITVSAHL 73 (385)
Q Consensus 2 k~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i--~~~i~------~~i~~~G~~~v~a~~ 73 (385)
+.+++-+.|...++.++.+++ .+-|++.++++.++|-|..--. ...++ -+++++ .+.|+-..
T Consensus 3 ~~~i~a~~~k~i~e~l~~l~~---------e~~~~~~~~Gl~iqamD~shv~lv~l~l~~~~F~~Y~~d~~-~iGv~~~~ 72 (245)
T PRK01115 3 KAVISAEELKDAIDALSVLVD---------EAKFKVTEEGISVRAVDPANVAMVDLELPKSAFSEYEADGG-EIGVDLDR 72 (245)
T ss_pred EEEECHHHHHHHHHHHHHHHC---------EEEEEECCCEEEEEEECCCCEEEEEEEECHHHCCEEEECCC-EEEEEHHH
T ss_conf 999819999999999988754---------69999927826999998772899999968641907981597-99999899
Q ss_pred HHHHHHCCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCC---CCCCCCCCCCCEEEECCCHHHHHHHCCEEEECCC
Q ss_conf 7788740777773047773367508999867820243036621---1432123324304505611355420220230024
Q gi|254780454|r 74 LYDIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPES---EFPSTKEEEYVYSFELASSVLKNLVERTHFAMAT 150 (385)
Q Consensus 74 l~~iik~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~---~fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~ 150 (385)
|..++|.+.++..+.+..+++ +..+.|..++.+|+++.++.+ +-|.+|+.+....+.+++..|+++++...-- +
T Consensus 73 l~KIlk~~~~~d~l~l~~~~~-~~~l~i~~~~~~f~l~Lidi~~~~~~~~iP~~e~~~~i~m~S~~f~~i~~dl~~~-~- 149 (245)
T PRK01115 73 LKDILGMADSGDTVRLELDEE-NRKLEISFGGLEYTLSLIDPSTIRKEPDIPELDLPAKVVLLGADLKRAVKAAEKV-S- 149 (245)
T ss_pred HHHHHHHCCCCCEEEEEEECC-CCEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCEEEEEEEHHHHHHHHHHHHHC-C-
T ss_conf 899996278998799999289-9889999846289997106333234689999774599999989999999999861-9-
Q ss_pred CCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCC-----CCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 5565210116677617873489998534157666643578753-----31000001000122221027764643313345
Q gi|254780454|r 151 EEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIA-----KMPSIIVPRKAVGEILRILSSKDSSVKVSLSE 225 (385)
Q Consensus 151 d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~-----~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~ 225 (385)
|. |.+...++...+.+.+..| + .+..+..... ++....-+.+.|..+.|...- .+.|+++++.
T Consensus 150 D~-------i~i~~~~~~~~~~~~gd~~-~---~~~~~~~~~~~~~~~~~~~~~ysl~Yl~~~~k~~~l-s~~v~i~~~~ 217 (245)
T PRK01115 150 DH-------IALGVDDEEFYMEAEGDTD-E---VKLELEDDELIDLSPGEAKSLFSLDYLKDMVKAIGK-ADEVTISLGN 217 (245)
T ss_pred CE-------EEEEEECCEEEEEEECCCE-E---EEEEECCCCCEEEECCCCEEEEEHHHHHHHHHHCCC-CCEEEEEECC
T ss_conf 87-------9999948999999984773-6---999966986168403662358879999998735157-9869999759
Q ss_pred CC
Q ss_conf 53
Q gi|254780454|r 226 SR 227 (385)
Q Consensus 226 ~~ 227 (385)
++
T Consensus 218 d~ 219 (245)
T PRK01115 218 DF 219 (245)
T ss_pred CC
T ss_conf 98
No 23
>TIGR00663 dnan DNA polymerase III, beta subunit; InterPro: IPR001001 Describes the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=98.43 E-value=2.7e-05 Score=51.09 Aligned_cols=208 Identities=14% Similarity=0.232 Sum_probs=102.6
Q ss_pred EECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEEC-CCCCCCCCHHCCCCCHHHHH
Q ss_conf 50561135542022023002455652101166776178734899985341576666435-78753310000010001222
Q gi|254780454|r 130 FELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDI-VAQIAKMPSIIVPRKAVGEI 208 (385)
Q Consensus 130 ~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~-~~~~~~~~~~iiP~k~l~el 208 (385)
+.+..+.|.+.+..+.-+.+...+.|++.|++++..+..+.+++.+||+.--....+.- .........++++.+.+.++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~l~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 82 (406)
T TIGR00663 3 FSIEKDDLLKELSKVSRVLSNRPTIPILSNVLLEVEDDKNYLTLTGTDLDISLESSIPGETVSSEQPGSVTIPAKKFLDI 82 (406)
T ss_pred EEEEHHHHHHHHHHHHHHHCCCCCCCHHCCEEEEEECCCCEEEEEEECCEEEEEEEECCCEEEEECCCEEEEECHHHHHH
T ss_conf 77401245678999988650576640011327899747757999850540468887515401231165389703255677
Q ss_pred HHHCC-CCCCCCCCCCCCCC-----EEEECCEEE--EEEEEC-CCCCCCCCCCCC-CCCCCEEEEEHHHHHHHHHHHHHC
Q ss_conf 21027-76464331334553-----010025069--998512-665532210135-556617998489988889887410
Q gi|254780454|r 209 LRILS-SKDSSVKVSLSESR-----IHLNIESLS--MSVRLI-DGEFPNYQNVIP-CSNDKELRVNCTNLRQAVDRVSIM 278 (385)
Q Consensus 209 ~k~l~-~~~~~v~i~~~~~~-----i~~~~~~~~--~~srLi-~g~yPdy~~vip-~~~~~~~~v~r~~l~~al~Rv~i~ 278 (385)
.+-++ ..+..+.+...+++ +.++.++.. +..+-+ ...||++...-+ .++...+.+....|.++++++...
T Consensus 83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~d~~~~~~~~~~~l~~~~~~~~f~ 162 (406)
T TIGR00663 83 VRALPDDGDSEIELEVDNDKGDSHLLLITSGKSRDDFKLPTLDADEFPNLPTIEGNEDYGVSIELPSDVLKELINQTAFA 162 (406)
T ss_pred HHHCCCCCCEEEEEEECCCCCCEEEEEECCCCCCCEEEECCCCHHHCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHH
T ss_conf 76144547604899872775312433330566421122057774235567887775541113676428999876343211
Q ss_pred CCCC-----CCCCEEE---EECCEEEEEECCCCCEEEEEEEE--EE-ECCCCEEEEECHHHHHHHHHHCCC
Q ss_conf 1235-----5530256---51765999980787326899999--89-628843999638899889873575
Q gi|254780454|r 279 SSVR-----IQAVKLS---LSSDKLCMTVDNPDMGKAIESMN--VY-YNECPMDICFNYKYLLEIIDNISS 338 (385)
Q Consensus 279 ~~~~-----~~~i~l~---~~~~~l~i~~~~~e~g~~~e~i~--~~-~~G~~~~i~fN~~yl~d~L~~~~~ 338 (385)
.... -+++.+. .+++.+.+.+.+. ..-+--+++ .. -...+..+....+.+.+..+.+..
T Consensus 163 ~~~~~~~~~l~G~~~~~d~~~~~~l~~~~td~-~rl~~~~~~~~~~~~~~~~~~~~~P~k~~~e~~~~~~~ 232 (406)
T TIGR00663 163 AGEDETRPVLNGVLIKFDEQEGDTLLLVATDG-HRLAVCELKKWLELSDEEDFSVIIPGKALLELLKLLSD 232 (406)
T ss_pred CCCCCCCHHHCCEEEEECCCCCCEEEEEEECC-CEEEEEEECCEEECCCCCCCEEEECHHHHHHHHHHHCC
T ss_conf 01232201010114663023586689996077-05777751100000342322257442688888876167
No 24
>PTZ00113 proliferating cell nuclear antigen (cyclin); Provisional
Probab=98.40 E-value=6.3e-05 Score=48.88 Aligned_cols=212 Identities=11% Similarity=0.124 Sum_probs=125.5
Q ss_pred CEEEEE-HHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEE--EEEEE------EEECCCCEEEEEH
Q ss_conf 958985-99999999987502037888610133899998997999996782899--99997------7752680799949
Q gi|254780454|r 1 MKITVE-RSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEI--TGAIP------ASVDVCGSITVSA 71 (385)
Q Consensus 1 Mk~~i~-~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i--~~~i~------~~i~~~G~~~v~a 71 (385)
|++++. -+.|.+.+..++.++ ..+-|++.++++.++|.|..--. ...++ -.++++-.+.|+-
T Consensus 2 ~e~k~~~a~~~k~i~e~lk~lv---------~e~~~~~~~~Gi~iqamD~shVaLv~l~L~~~~F~~Y~~~~~~~iGvn~ 72 (277)
T PTZ00113 2 LELKLNNAVVLRRIFDCIRDLI---------NDGNIDFDATGMKLQALDGNHVALVHLKLHESGFSLYRCDRPRALGINI 72 (277)
T ss_pred EEEEECCHHHHHHHHHHHHHHH---------CEEEEEECCCEEEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEH
T ss_conf 2899755689999999999864---------5178999588579999867848999999896438199559986998988
Q ss_pred HHHHHHHHCCCCCCCEEEEEECCCCEEEEE--EECC----CEEEEECCCCC-CCCCCCCCC--CCEEEECCCHHHHHHHC
Q ss_conf 987788740777773047773367508999--8678----20243036621-143212332--43045056113554202
Q gi|254780454|r 72 HLLYDIVRKLQDGAQISFFKENELGTEVNI--SHGD----SNFYLQSFPES-EFPSTKEEE--YVYSFELASSVLKNLVE 142 (385)
Q Consensus 72 ~~l~~iik~L~~~~~i~~~~~~~~~~~i~i--~~~~----~~~~l~~~~~~-~fP~~~~~~--~~~~~~i~~~~l~~~i~ 142 (385)
..|..++|.+.++..+.+..+++. ..+.+ ..++ .+|+++.++.+ +.+.+|+.+ ....+.+++..|+++++
T Consensus 73 ~~l~kiLk~~~~~d~l~l~~~~~~-~~l~i~~~~~~~~~~~~f~l~L~did~e~l~IPe~e~~~~~~i~m~S~~f~~~ik 151 (277)
T PTZ00113 73 NSVTKAFKSCGNNDSVLIQSEEDK-DNINFVFENNVEDRVTSFSLKLMSIEQDALSIPENTEGFDAEITLSSKELTNICK 151 (277)
T ss_pred HHHHHHHHHCCCCCEEEEEEECCC-CEEEEEEECCCCCEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECHHHHHHHHH
T ss_conf 999999862569976999980799-8799999758863588999986136754567999876542899981999999999
Q ss_pred CEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCC-----------CCCCCHHCCCCCHHHHHHHH
Q ss_conf 2023002455652101166776178734899985341576666435787-----------53310000010001222210
Q gi|254780454|r 143 RTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQ-----------IAKMPSIIVPRKAVGEILRI 211 (385)
Q Consensus 143 ~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~-----------~~~~~~~iiP~k~l~el~k~ 211 (385)
...-- + |. |.+...++...+.+-+-.|.- ...+..... ...+.....+.+.|..+.|.
T Consensus 152 dl~~~-~-d~-------I~i~~~~~~~~~~~~Gd~g~~--~~~~~~~~~~~e~~~~~~i~~~~~~~~~ysl~YL~~f~K~ 220 (277)
T PTZ00113 152 QMNEF-S-DT-------VKIDISSNSIKFTTKGDLGDG--EIVLKNRAPTSEDDCGVTIKVKKPIKQSYATKYLLMFSKS 220 (277)
T ss_pred HHHHC-C-CE-------EEEEEECCEEEEEEEECCCEE--EEEEECCCCCCCCCCEEEEECCCCEEEEEEHHHHHHHHCC
T ss_conf 99862-9-88-------999995998999998037528--9999527887886530689738836889848998865370
Q ss_pred CCCCCCCCCCCCCCCC---EEEECCE
Q ss_conf 2776464331334553---0100250
Q gi|254780454|r 212 LSSKDSSVKVSLSESR---IHLNIES 234 (385)
Q Consensus 212 l~~~~~~v~i~~~~~~---i~~~~~~ 234 (385)
-.- .+.|+|+++.++ +.|..++
T Consensus 221 ~~l-s~~V~i~~~~d~Pl~l~y~l~~ 245 (277)
T PTZ00113 221 GCL-SDVVTLGLSQNRPIEVKYEVKD 245 (277)
T ss_pred CCC-CCEEEEEEECCCCEEEEEEECC
T ss_conf 567-8769999709967899999479
No 25
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=98.23 E-value=0.00038 Score=44.14 Aligned_cols=202 Identities=13% Similarity=0.139 Sum_probs=123.6
Q ss_pred EHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEE--EEEEEEEEE------ECCCCEEEEEHHHHHHH
Q ss_conf 5999999999875020378886101338999989979999967828--999999777------52680799949987788
Q gi|254780454|r 6 ERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEI--EITGAIPAS------VDVCGSITVSAHLLYDI 77 (385)
Q Consensus 6 ~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~--~i~~~i~~~------i~~~G~~~v~a~~l~~i 77 (385)
+-+.|...++..++++ ..+.+++.++++.+++.|..- -+...++++ ++++-.+.|+-..|..+
T Consensus 5 ~a~~~k~i~~~l~~l~---------~e~~~~~~~~Gi~i~~~D~s~v~lv~~~L~~~~F~~Y~~~~~~~~gv~~~~L~ki 75 (248)
T cd00577 5 NAKLLKKIVDALSKLV---------DEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKI 75 (248)
T ss_pred HHHHHHHHHHHHHHHH---------CCEEEEEECCEEEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEHHHHHHH
T ss_conf 2699999999999875---------8199999078579999999977999999774319078149988999998999999
Q ss_pred HHCCCCCCCEEEEEECCCCEEEEEEECC----CEEEEECCCCCC-CCCCCCCCCCEEEECCCHHHHHHHCCEEEECCCCC
Q ss_conf 7407777730477733675089998678----202430366211-43212332430450561135542022023002455
Q gi|254780454|r 78 VRKLQDGAQISFFKENELGTEVNISHGD----SNFYLQSFPESE-FPSTKEEEYVYSFELASSVLKNLVERTHFAMATEE 152 (385)
Q Consensus 78 ik~L~~~~~i~~~~~~~~~~~i~i~~~~----~~~~l~~~~~~~-fP~~~~~~~~~~~~i~~~~l~~~i~~t~~a~s~d~ 152 (385)
+|.+.++..+.+..+++....+.+...+ .+|+++.++.+. .+.+|+.+....+.+++..|+++++..... + |.
T Consensus 76 Lk~~~~~d~l~l~~~~~~~l~i~~~~~~~~~~~~~~l~l~d~~~~~~~~p~~e~~~~i~~~s~~~~~~~~~l~~~-~-d~ 153 (248)
T cd00577 76 LKCAGNEDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESI-S-DS 153 (248)
T ss_pred HHHHCCCCEEEEEECCCCCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHH-C-CC
T ss_conf 864248971899963799179999957986799999503367644678987665689997199999999999960-9-94
Q ss_pred CCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCC------CCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 652101166776178734899985341576666435787------53310000010001222210277646433133455
Q gi|254780454|r 153 IRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQ------IAKMPSIIVPRKAVGEILRILSSKDSSVKVSLSES 226 (385)
Q Consensus 153 ~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~------~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~ 226 (385)
|.+....+...+.+.+ |..+-.....+.+.. .+......-..+.|..+.|...- ...|+++++.+
T Consensus 154 -------v~i~~~~~~~~~~~~g-d~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~yL~~~~k~~~l-s~~V~i~~~~~ 224 (248)
T cd00577 154 -------VTISASKDGFKFSAEG-ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGSD 224 (248)
T ss_pred -------EEEEEECCEEEEEEEE-CCCCEEEEEEECCCCEEEEEECCCCEEEEEEHHHHHHHHHHHCC-CCEEEEEECCC
T ss_conf -------9999939989999994-48857999930898606898549736899989999998625046-98799997699
Q ss_pred C
Q ss_conf 3
Q gi|254780454|r 227 R 227 (385)
Q Consensus 227 ~ 227 (385)
.
T Consensus 225 ~ 225 (248)
T cd00577 225 G 225 (248)
T ss_pred C
T ss_conf 7
No 26
>pfam02768 DNA_pol3_beta_3 DNA polymerase III beta subunit, C-terminal domain. A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold.
Probab=98.08 E-value=0.00021 Score=45.72 Aligned_cols=95 Identities=23% Similarity=0.291 Sum_probs=71.9
Q ss_pred EEEEEHHHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEE-EEEEEEEEEC-CCCEEEEEHHHHHHHHH
Q ss_conf 589859999999998750203788861013389999899799999678289-9999977752-68079994998778874
Q gi|254780454|r 2 KITVERSDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIE-ITGAIPASVD-VCGSITVSAHLLYDIVR 79 (385)
Q Consensus 2 k~~i~~~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~-i~~~i~~~i~-~~G~~~v~a~~l~~iik 79 (385)
++++++++|.++|..++-+...++ ..+.+...++.|+++|.+.+.+ ....++++.+ ++-++..+++.|.|+++
T Consensus 11 ~i~i~r~~l~~al~Rvsi~s~~~~-----~~V~l~~~~~~l~iss~~~d~g~a~E~i~~~~~G~~~~I~FN~~YL~d~L~ 85 (121)
T pfam02768 11 KITVDNKELKKALARVALLANEKN-----RGVRLSFEEGQLKLTANNPEIGRAEEEVDVDYIGEPLEIAFNVSYLLDALK 85 (121)
T ss_pred EEEEEHHHHHHHHHHHHHHHCCCC-----CEEEEEECCCCEEEEECCCCCCEEEEEEEEECCCCCEEEEECHHHHHHHHH
T ss_conf 999999999999999998743787-----339999879936999868976506799940016981799997999999996
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEE
Q ss_conf 077777304777336750899986
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISH 103 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~ 103 (385)
.+.+ +.+.+...+..++ +.|+.
T Consensus 86 ~i~~-~~v~~~~~~~~~p-~~i~~ 107 (121)
T pfam02768 86 ALKS-EEIELQFTDSTKP-ALISP 107 (121)
T ss_pred CCCC-CEEEEEECCCCCC-EEEEC
T ss_conf 0899-8799998689988-89985
No 27
>pfam02747 PCNA_C Proliferating cell nuclear antigen, C-terminal domain. N-terminal and C-terminal domains of PCNA are topologically identical. Three PCNA molecules are tightly associated to form a closed ring encircling duplex DNA.
Probab=98.05 E-value=0.00052 Score=43.34 Aligned_cols=113 Identities=18% Similarity=0.270 Sum_probs=85.2
Q ss_pred CCC-CCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEE-----------EEE-CCCC
Q ss_conf 355-566179984899888898874101235553025651765999980787326899999-----------896-2884
Q gi|254780454|r 253 IPC-SNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMN-----------VYY-NECP 319 (385)
Q Consensus 253 ip~-~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~-----------~~~-~G~~ 319 (385)
||+ +++..+++.-.+|.++++-++.+++. |.+..+++.+.+++.+ |.|++...+. ..+ ..++
T Consensus 2 IPe~ey~~~i~m~S~~f~~~i~dl~~~~d~----v~i~~~~~~i~f~~~G-d~g~~~v~~~~~~~~~~~~~~~~ie~~~~ 76 (128)
T pfam02747 2 IPESEYDCVVRMPSAEFARICRDLSQIGDS----VVISCTKEGVKFSASG-DIGTGNIKLKQTTDVDKPEEAIIIEMNEP 76 (128)
T ss_pred CCCCCCCEEEEEEHHHHHHHHHHHHHCCCE----EEEEEECCEEEEEEEC-CCCEEEEEEECCCCCCCCCCEEEEECCCC
T ss_conf 799675089998799999999999875999----9999959929999984-47538999922567788641268862771
Q ss_pred EEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCCCCCCCCCCCCCEEEEEEE
Q ss_conf 399963889988987357533466338999658987589943776544455566763799832
Q gi|254780454|r 320 MDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDKDSKNNKDNKVNAFYVLMP 382 (385)
Q Consensus 320 ~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~~~~~~~~~~~~~~~liMP 382 (385)
++..|.-+||..+.++..- .+.|++++.+ ..|+.++-.-.+ .....|.|-|
T Consensus 77 ~~~~fslkYL~~f~K~~~l----s~~V~l~l~~-d~Pl~l~y~~~~-------~g~l~fyLAP 127 (128)
T pfam02747 77 VTLTFALRYLNSFTKATPL----SPTVTISMSS-ELPLVVEYKIAD-------MGLLRYYLAP 127 (128)
T ss_pred EEEEEEHHHHHHHHCCCCC----CCEEEEEECC-CCCEEEEEECCC-------CCEEEEEECC
T ss_conf 7899988998877653467----7538999859-976999998379-------8489999846
No 28
>KOG1636 consensus
Probab=97.56 E-value=0.006 Score=36.89 Aligned_cols=193 Identities=19% Similarity=0.304 Sum_probs=120.3
Q ss_pred CEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCC----CHHCCCCCHHHHHHHHCC--CCCCCCCCCCCC--CC
Q ss_conf 1011667761787348999853415766664357875331----000001000122221027--764643313345--53
Q gi|254780454|r 156 YLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKM----PSIIVPRKAVGEILRILS--SKDSSVKVSLSE--SR 227 (385)
Q Consensus 156 ~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~----~~~iiP~k~l~el~k~l~--~~~~~v~i~~~~--~~ 227 (385)
..+-..|+.++++. ..-|-|..+.|...+.+....-+. ..+.+ .-.|.-+.|+|. +.++.+++.... ..
T Consensus 22 lV~~a~fdcse~Gi--slQaMD~SHValvsl~l~s~~F~~yRCDRnl~l-G~~L~slsKiLkcanned~~Tlkaed~~dt 98 (260)
T KOG1636 22 LVNDANFDCSETGI--SLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSL-GMNLKSLSKILKCANNEDTVTLKAEDNPDT 98 (260)
T ss_pred HHHCCCCCCCCCCE--EEEEECCCCEEEEEEEEECCCCCEECCCCCCCC-CCCHHHHHHHHCCCCCCCCEEEEEECCCCE
T ss_conf 98636866566755--788732541578888860366420214773020-227778999874346787169996358866
Q ss_pred EEEECCEE------EEEEEECCCCCCCCCCC-CCC-CCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEE
Q ss_conf 01002506------99985126655322101-355-56617998489988889887410123555302565176599998
Q gi|254780454|r 228 IHLNIESL------SMSVRLIDGEFPNYQNV-IPC-SNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSSDKLCMTV 299 (385)
Q Consensus 228 i~~~~~~~------~~~srLi~g~yPdy~~v-ip~-~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~~~l~i~~ 299 (385)
+.+.+++. .|..+|.+- |-+.+ ||. ++...+++...+|....+-++.+++. +.+..++.++.+++
T Consensus 99 i~l~fe~~~~dki~dy~lKLmdi---D~ehl~IPe~dy~~~~~mPa~EF~ricrdls~f~Ds----v~I~~tkegv~F~~ 171 (260)
T KOG1636 99 ITLMFESPKQDKIADYELKLMDI---DSEHLGIPEQDYDAVVTMPAGEFSRICRDLSTFSDS----VVISATKEGVKFSA 171 (260)
T ss_pred EEEEEECCCCCCCEEEEEEEEEC---CHHHCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCE----EEEEEECCEEEEEE
T ss_conf 89998778877401157876506---677709984321189974689998887788652670----79998346269985
Q ss_pred CCCCCEEEEEEEE-----------EEEC-CCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEEECCCC
Q ss_conf 0787326899999-----------8962-884399963889988987357533466338999658987589943776
Q gi|254780454|r 300 DNPDMGKAIESMN-----------VYYN-ECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFIRGKDK 364 (385)
Q Consensus 300 ~~~e~g~~~e~i~-----------~~~~-G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i~~~~~ 364 (385)
.+ |+|.+.-.+. +..+ .+|++..|-.|||..+-|+..-. ++|++.+.+ ..|+++.-.-+
T Consensus 172 ~G-dig~asi~l~~~~~~d~~e~av~iE~~~pVtltfa~kYln~ftKatpLs----~rV~lsls~-~~P~~vey~i~ 242 (260)
T KOG1636 172 KG-DIGTASITLSQCTAVDKPEEAVKIEMNEPVTLTFALKYLNQFTKATPLS----DRVTLSLSS-EVPVVVEYKIE 242 (260)
T ss_pred CC-CCCCEEEEECCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHCCCCCC----CEEEEEECC-CCCEEEEEECC
T ss_conf 16-6564048970478877865207998068311224899998763346441----047999517-88589998416
No 29
>pfam04139 Rad9 Rad9. Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage. It contains a Bcl-2 homology domain 3 (BH3).
Probab=96.48 E-value=0.062 Score=30.72 Aligned_cols=110 Identities=15% Similarity=0.162 Sum_probs=72.0
Q ss_pred CHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHH
Q ss_conf 00000100012222102776464331334553010025069998512665532210135556617998489988889887
Q gi|254780454|r 196 PSIIVPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEFPNYQNVIPCSNDKELRVNCTNLRQAVDRV 275 (385)
Q Consensus 196 ~~~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~g~yPdy~~vip~~~~~~~~v~r~~l~~al~Rv 275 (385)
..+.++.|.|.++...+....+++++..++..+.++.- ++..-. .+ +.-.+.+.++.++|.+-
T Consensus 131 n~~~i~~k~l~~~l~hF~~s~eeiti~~~~~~v~~~sy--------~~~~~~-~~----~~l~Te~~I~~~EF~~y---- 193 (252)
T pfam04139 131 NILRIPPRLLSDLLVHFPSSLEEITINASPGRVLLKSY--------TEEGVD-NK----KPLHTELSIDPEEFDQY---- 193 (252)
T ss_pred CEEEECHHHHHHHHHHCCCCHHHEEEEECCCEEEEEEC--------CCCCCC-CC----CCEEEEEEECHHHHHHE----
T ss_conf 17998757899999856898435899965986999861--------367777-78----61489998877886445----
Q ss_pred HHCCCCCCCCCEEEEECCEEEEEECCCCCEEEEEEEEEEECCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCC
Q ss_conf 41012355530256517659999807873268999998962884399963889988987357533466338999658987
Q gi|254780454|r 276 SIMSSVRIQAVKLSLSSDKLCMTVDNPDMGKAIESMNVYYNECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNS 355 (385)
Q Consensus 276 ~i~~~~~~~~i~l~~~~~~l~i~~~~~e~g~~~e~i~~~~~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~ 355 (385)
+ -|++..|.|+-|=+..+|...++-. -.|.++++.|.+
T Consensus 194 --------------------------------------~-v~~~~~itf~lKEfra~l~fae~~~---~~v~~~f~~pG~ 231 (252)
T pfam04139 194 --------------------------------------Q-LGEDVDITFCLKEFRAILAFAESLS---LPLAIYFSEPGK 231 (252)
T ss_pred --------------------------------------E-CCCCCEEEEEHHHHHHHHHHHHHCC---CCEEEEECCCCC
T ss_conf --------------------------------------4-4899589999899999999986649---848999888998
Q ss_pred CEEEECCCC
Q ss_conf 589943776
Q gi|254780454|r 356 SVFIRGKDK 364 (385)
Q Consensus 356 p~~i~~~~~ 364 (385)
|+++..++.
T Consensus 232 Pi~~~~~~~ 240 (252)
T pfam04139 232 PALLSLSDS 240 (252)
T ss_pred CEEEEECCC
T ss_conf 589997589
No 30
>KOG1636 consensus
Probab=96.13 E-value=0.098 Score=29.54 Aligned_cols=206 Identities=13% Similarity=0.156 Sum_probs=114.4
Q ss_pred HHHHHHHHHHHHHHCCCCCCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEE--------EECCCCEEEEEHHHHHHHHH
Q ss_conf 9999999987502037888610133899998997999996782899999977--------75268079994998778874
Q gi|254780454|r 8 SDILELLGHACRIIERKNTIPVSCHVLLQANDGLLEIKASGPEIEITGAIPA--------SVDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 8 ~~L~~~l~~v~~~i~~k~~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~--------~i~~~G~~~v~a~~l~~iik 79 (385)
..|.+.|.-..-++..-+ +.+.++++.++|.|..--.-+.+.. -++.+=+.-++-+-+..|+|
T Consensus 10 sLlKkIlealkdlV~~a~---------fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiLk 80 (260)
T KOG1636 10 SLLKKILEALKDLVNDAN---------FDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKILK 80 (260)
T ss_pred HHHHHHHHHHHHHHHCCC---------CCCCCCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCCCCCCCHHHHHHHHC
T ss_conf 899999999999986368---------66566755788732541578888860366420214773020227778999874
Q ss_pred CCCCCCCEEEEEECCCCE-EEEEEECC----CEEEEECCCCC-CCCCCCCCCCCEEEECCCHHHHHHHCCEE-EECCCCC
Q ss_conf 077777304777336750-89998678----20243036621-14321233243045056113554202202-3002455
Q gi|254780454|r 80 KLQDGAQISFFKENELGT-EVNISHGD----SNFYLQSFPES-EFPSTKEEEYVYSFELASSVLKNLVERTH-FAMATEE 152 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~-~i~i~~~~----~~~~l~~~~~~-~fP~~~~~~~~~~~~i~~~~l~~~i~~t~-~a~s~d~ 152 (385)
...+...+++..++.... .+.+++.+ +.|++..|+.+ |+-.+|+.+....+++|+..|.++-+-.. |.-+- .
T Consensus 81 canned~~Tlkaed~~dti~l~fe~~~~dki~dy~lKLmdiD~ehl~IPe~dy~~~~~mPa~EF~ricrdls~f~Dsv-~ 159 (260)
T KOG1636 81 CANNEDTVTLKAEDNPDTITLMFESPKQDKIADYELKLMDIDSEHLGIPEQDYDAVVTMPAGEFSRICRDLSTFSDSV-V 159 (260)
T ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCCCCCEEEEEEEEECCHHHCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCEE-E
T ss_conf 346787169996358866899987788774011578765066777099843211899746899988877886526707-9
Q ss_pred CCCCEEEEEEEECCCCCEEEEEEECCEEEEEEE--------EECCCCCCCCCHHCCCCCHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 652101166776178734899985341576666--------435787533100000100012222102776464331334
Q gi|254780454|r 153 IRYYLNGIFFHINEEDLKLCAVATDGHRLAVAE--------VDIVAQIAKMPSIIVPRKAVGEILRILSSKDSSVKVSLS 224 (385)
Q Consensus 153 ~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~--------~~~~~~~~~~~~~iiP~k~l~el~k~l~~~~~~v~i~~~ 224 (385)
..-.=.||-|.-+++.+ |-.-.|+... +.++ .+++.....-.|.++.+.|.-+- -++|+++.+
T Consensus 160 I~~tkegv~F~~~Gdig------~asi~l~~~~~~d~~e~av~iE--~~~pVtltfa~kYln~ftKatpL-s~rV~lsls 230 (260)
T KOG1636 160 ISATKEGVKFSAKGDIG------TASITLSQCTAVDKPEEAVKIE--MNEPVTLTFALKYLNQFTKATPL-SDRVTLSLS 230 (260)
T ss_pred EEEECCEEEEEECCCCC------CEEEEECCCCCCCCCCCEEEEE--ECCCCHHHHHHHHHHHHHCCCCC-CCEEEEEEC
T ss_conf 99834626998516656------4048970478877865207998--06831122489999876334644-104799951
Q ss_pred CCC-EEEEC
Q ss_conf 553-01002
Q gi|254780454|r 225 ESR-IHLNI 232 (385)
Q Consensus 225 ~~~-i~~~~ 232 (385)
... +.|++
T Consensus 231 ~~~P~~vey 239 (260)
T KOG1636 231 SEVPVVVEY 239 (260)
T ss_pred CCCCEEEEE
T ss_conf 788589998
No 31
>pfam00705 PCNA_N Proliferating cell nuclear antigen, N-terminal domain. N-terminal and C-terminal domains of PCNA are topologically identical. Three PCNA molecules are tightly associated to form a closed ring encircling duplex DNA.
Probab=93.88 E-value=0.46 Score=25.47 Aligned_cols=61 Identities=10% Similarity=0.093 Sum_probs=28.2
Q ss_pred EEEEEECCEEEEEEECCEEEEEE--EEEE------EECCCCEEEEEHHHHHHHHHCCCCCCCEEEEEEC
Q ss_conf 89999899799999678289999--9977------7526807999499877887407777730477733
Q gi|254780454|r 33 VLLQANDGLLEIKASGPEIEITG--AIPA------SVDVCGSITVSAHLLYDIVRKLQDGAQISFFKEN 93 (385)
Q Consensus 33 ilie~~~~~l~l~atd~~~~i~~--~i~~------~i~~~G~~~v~a~~l~~iik~L~~~~~i~~~~~~ 93 (385)
+-+++.++++.+.|.|..-..-. .+++ .++++..+.|+-..|..++|.+.++..+++..++
T Consensus 26 ~n~~~~~~Gl~i~amD~shv~Lv~l~L~~~~Fe~y~c~~~~~iGin~~~l~Kilk~~~~~d~l~l~~~d 94 (127)
T pfam00705 26 ANFDCSESGISLQAMDSSHVALVSLLLRSEGFEHYRCDRNLSLGVNLNSMSKILKCAGNEDIVTLKAED 94 (127)
T ss_pred EEEEECCCCEEEEEECCCCEEEEEEEECHHHCEEEECCCCEEEEEEHHHHHHHHHHCCCCCEEEEEEEC
T ss_conf 889995880799997789779999999742072998799879999899999999854799889999946
No 32
>TIGR00590 pcna proliferating cell nuclear antigen (pcna); InterPro: IPR000730 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein that plays a key role in the control of eukaryotic DNA replication . It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication . The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes . In yeast, POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex.
Probab=89.14 E-value=1.5 Score=22.25 Aligned_cols=196 Identities=19% Similarity=0.292 Sum_probs=120.5
Q ss_pred CCCCCCEEEEEEEECCCCCEEEEEEECCEEEEEEEEECCCCCCCCC----HHCCCCCHHHHHHHHCC--CCCCCCCC-CC
Q ss_conf 5565210116677617873489998534157666643578753310----00001000122221027--76464331-33
Q gi|254780454|r 151 EEIRYYLNGIFFHINEEDLKLCAVATDGHRLAVAEVDIVAQIAKMP----SIIVPRKAVGEILRILS--SKDSSVKV-SL 223 (385)
Q Consensus 151 d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~RLa~~~~~~~~~~~~~~----~~iiP~k~l~el~k~l~--~~~~~v~i-~~ 223 (385)
+..+..++-..|+.++.+. .+-|.|+.+.+.....+....-+.. .+.+ .-.+..+.|++. +.+..+.+ ..
T Consensus 17 ~~~kdl~~~a~~dc~~~g~--~l~~~d~~hv~lv~l~l~~~gf~~yrcdr~~~~-g~~~~~~~k~~~c~~~~~~~~~~~~ 93 (269)
T TIGR00590 17 EAIKDLVNDANFDCSESGI--SLQAMDSSHVALVSLLLRAEGFEKYRCDRNLAL-GVNLNSLSKILKCAGNEDSVTLKKA 93 (269)
T ss_pred HHHHHHHCCCCCCCCCCCE--EEEEECCCCEEEEEEEECCCCCCCCCCCCCCCC-CCCHHHHHHHHHHCCCCCEEEEEEE
T ss_conf 8888763036633267641--788515763344343200146321215664202-4446778888864288632789861
Q ss_pred CC--CCEEEECCE------EEEEEEECCCCCCCCCCC-CCC-C--CCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEE
Q ss_conf 45--530100250------699985126655322101-355-5--66179984899888898874101235553025651
Q gi|254780454|r 224 SE--SRIHLNIES------LSMSVRLIDGEFPNYQNV-IPC-S--NDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLS 291 (385)
Q Consensus 224 ~~--~~i~~~~~~------~~~~srLi~g~yPdy~~v-ip~-~--~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~ 291 (385)
.. ..+.|.+++ ..+..+|.+- |.+.+ ||. + +...+.+...+|....+-++-+++. +.+..+
T Consensus 94 ~d~~d~~~~~f~~~~~~~~~~~~~kl~~~---d~~~lgip~~~~gy~~~~~~p~~ef~~~~~dl~~~~~~----~~~~~~ 166 (269)
T TIGR00590 94 EDNGDTLNLVFESPKQDKISDYELKLMDI---DSEHLGIPDSDEGYDCVVELPSGEFARICRDLSQFSDS----VVISCT 166 (269)
T ss_pred CCCCCEEEEEEECCCCCCEEEEEEEEEEC---CHHHCCCCCCCCCCEEEEEECHHHHHHHHHHHHHCCCE----EEEEEE
T ss_conf 58873589986168876023466644320---33352897655772279981647888888766543761----699972
Q ss_pred CCEEEEEECCCCCEEEEEEEE-----------EEE-CCCCEEEEECHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCEEE
Q ss_conf 765999980787326899999-----------896-28843999638899889873575334663389996589875899
Q gi|254780454|r 292 SDKLCMTVDNPDMGKAIESMN-----------VYY-NECPMDICFNYKYLLEIIDNISSDEVVDDEVVFRLDSSNSSVFI 359 (385)
Q Consensus 292 ~~~l~i~~~~~e~g~~~e~i~-----------~~~-~G~~~~i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~~~~p~~i 359 (385)
++.+.+++.+ ++|.+...+. +.. -.+++...|-.+||..+.++-.- .+.|++.+.+ ..|+++
T Consensus 167 k~g~~f~~~G-~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yl~~f~k~~~l----~~~v~~~~~~-~~P~~~ 240 (269)
T TIGR00590 167 KEGVKFSAKG-DIGSGNVKLKPNSDTDKEEEAVTLELKEPVTLTFALKYLNLFTKATPL----SDRVTLSLSN-DVPLVV 240 (269)
T ss_pred CCCEEEEECC-CCCCCEEEEECCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCC----CCEEEEEECC-CCCEEE
T ss_conf 5733786345-325521577016787763202688622641002456777765302434----5425887516-775378
Q ss_pred ECC
Q ss_conf 437
Q gi|254780454|r 360 RGK 362 (385)
Q Consensus 360 ~~~ 362 (385)
.-.
T Consensus 241 ~y~ 243 (269)
T TIGR00590 241 EYK 243 (269)
T ss_pred EEE
T ss_conf 861
No 33
>pfam02144 Rad1 Repair protein Rad1/Rec1/Rad17.
Probab=86.94 E-value=2.1 Score=21.42 Aligned_cols=90 Identities=9% Similarity=0.147 Sum_probs=55.1
Q ss_pred CCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEEC---CEEEEEECCCCCEEEEEEEEE------EEC----CCCEE
Q ss_conf 55661799848998888988741012355530256517---659999807873268999998------962----88439
Q gi|254780454|r 255 CSNDKELRVNCTNLRQAVDRVSIMSSVRIQAVKLSLSS---DKLCMTVDNPDMGKAIESMNV------YYN----ECPMD 321 (385)
Q Consensus 255 ~~~~~~~~v~r~~l~~al~Rv~i~~~~~~~~i~l~~~~---~~l~i~~~~~e~g~~~e~i~~------~~~----G~~~~ 321 (385)
.....++.+.-..|.+|++-+.-. ....+.+.+++ ..+.+++.+ +.|+++-.+|. .++ -++..
T Consensus 138 ~~v~~kiimks~~L~~al~eLd~~---~s~~l~I~~s~~~~p~f~l~s~G-~~G~s~v~fp~~~~~le~F~~~~~~~~~~ 213 (250)
T pfam02144 138 DRVVFKVILKSDWLHDALSELDET---NSEELYIYASPSDAPYFALSSFG-QLGSSKVEFPNESDVLETFECSDGDRTVQ 213 (250)
T ss_pred CCEEEEEEEECHHHHHHHHHHCCC---CCCEEEEEECCCCCCEEEEEEEC-CCCCEEEEECCCCCHHHEEEECCCCCEEE
T ss_conf 763899999869999999754406---98479999935999879999874-88858999669963642789547885189
Q ss_pred EEECHHHHHHHHHHCCCCCCCCCEEEEEECC
Q ss_conf 9963889988987357533466338999658
Q gi|254780454|r 322 ICFNYKYLLEIIDNISSDEVVDDEVVFRLDS 352 (385)
Q Consensus 322 i~fN~~yl~d~L~~~~~~~~~~e~i~l~~~~ 352 (385)
-.|+-.++.-+.+++... ..|.++.+.
T Consensus 214 ~~Y~~~~i~~~~kAl~~s----sKvsir~d~ 240 (250)
T pfam02144 214 SRYKFSLLKKARKALALA----SKVSLRMDE 240 (250)
T ss_pred EEEEHHHHHHHHHHHHHC----CEEEEEECC
T ss_conf 997479999999887655----569999079
No 34
>TIGR01882 peptidase-T peptidase T; InterPro: IPR010161 Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases . Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. This entry represents metallopeptidases belonging to MEROPS peptidase family M20 (clan MH), subfamily M20B. They are tripeptide aminopeptidases commonly known as Peptidase T, which have a substrate preference for hydrophobic peptides.; GO: 0008270 zinc ion binding, 0016285 cytosol alanyl aminopeptidase activity, 0045148 tripeptide aminopeptidase activity, 0006518 peptide metabolic process, 0005737 cytoplasm.
Probab=62.68 E-value=7.1 Score=18.25 Aligned_cols=140 Identities=19% Similarity=0.166 Sum_probs=71.7
Q ss_pred EEEEEEEEEECCCCE-E-EEEHHHHH-HHHHCCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCCCE
Q ss_conf 999999777526807-9-99499877-88740777773047773367508999867820243036621143212332430
Q gi|254780454|r 52 EITGAIPASVDVCGS-I-TVSAHLLY-DIVRKLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEYVY 128 (385)
Q Consensus 52 ~i~~~i~~~i~~~G~-~-~v~a~~l~-~iik~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~~~ 128 (385)
++.++||++++..=. + ++...--. |.-.+= =.++|....+ ++=.|.-|.++|.| +|++||++..-....
T Consensus 60 yViatiPsNtdkdVp~iGfLAH~DTAtDFn~en-VnPQI~enYD----Ges~i~lgd~eftL---dP~~fPnL~~YKGqT 131 (413)
T TIGR01882 60 YVIATIPSNTDKDVPKIGFLAHVDTATDFNAEN-VNPQILENYD----GESVIQLGDLEFTL---DPEDFPNLKKYKGQT 131 (413)
T ss_pred EEEEECCCCCCCCCCEEEEEECCCCCCCCCCCC-CCCCEEECCC----CCCEEEECCEEEEE---CCCCCCCCCCCCCCE
T ss_conf 189854778666676120122011000225678-7775520368----85045506501762---722176422588767
Q ss_pred EEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEE-------EECCEEEEEEEEECCCCCCCCCHHCCC
Q ss_conf 4505611355420220230024556521011667761787348999-------853415766664357875331000001
Q gi|254780454|r 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAV-------ATDGHRLAVAEVDIVAQIAKMPSIIVP 201 (385)
Q Consensus 129 ~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~v-------aTDg~RLa~~~~~~~~~~~~~~~~iiP 201 (385)
-++-++..|.-.-.+.--|==..-. -||--||=++ +++++++. ++=.|+.=+..+.. +|.++|-
T Consensus 132 littdGtTLLG~d~K~GiaEiMT~a-dYL~~ihPe~--kHG~IRvaFtPDEEIG~Ga~kFDVkdF~a------dFAyTVD 202 (413)
T TIGR01882 132 LITTDGTTLLGADDKAGIAEIMTLA-DYLLNIHPEV--KHGKIRVAFTPDEEIGVGAEKFDVKDFDA------DFAYTVD 202 (413)
T ss_pred EEECCCCCCCCCCCCCCHHHHHHHH-HHHHHCCCCC--CCCEEEECCCCCCCCCCCCCCCCEEECCC------CEEEECC
T ss_conf 8851686111665334288999999-9985048961--03737744568724477965033000478------5535517
Q ss_pred CCHHHHH
Q ss_conf 0001222
Q gi|254780454|r 202 RKAVGEI 208 (385)
Q Consensus 202 ~k~l~el 208 (385)
...|-+|
T Consensus 203 GgplGeL 209 (413)
T TIGR01882 203 GGPLGEL 209 (413)
T ss_pred CCCCCCC
T ss_conf 8888765
No 35
>PTZ00152 actin depolymerizing factor; Provisional
Probab=55.01 E-value=4.5 Score=19.43 Aligned_cols=41 Identities=17% Similarity=0.196 Sum_probs=29.0
Q ss_pred EEECCCHHHHHHHCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECCE
Q ss_conf 450561135542022023002455652101166776178734899985341
Q gi|254780454|r 129 SFELASSVLKNLVERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDGH 179 (385)
Q Consensus 129 ~~~i~~~~l~~~i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg~ 179 (385)
.|.+.. +-.+.=.+..||.|+|..|..|+||+.+.. |||.|
T Consensus 75 Fi~WsP-dtA~vrsKM~YASSKd~lkr~L~GI~v~~~---------~~e~~ 115 (122)
T PTZ00152 75 FFMYAR-ESSNSRDRMTYASSKQAILKKIEGVNVLTS---------VIESA 115 (122)
T ss_pred EEEECC-CCCCCCCEEEEEECHHHHHHHCCCEEEEEE---------EECCH
T ss_conf 999898-998753406685027889853685699998---------61246
No 36
>pfam10262 Rdx Rdx family. This entry is an approximately 100 residue region of selenoprotein-T, conserved from plants to humans. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins, including selenoprotein T. However, despite its binding to UGTR and that its mRNA is up-regulated in extended asphyxia, the function of the protein and hence of this region of it is unknown. Selenoprotein W contains selenium as selenocysteine in the primary protein structure and levels of this selenoprotein are affected by selenium.
Probab=53.68 E-value=11 Score=17.18 Aligned_cols=47 Identities=15% Similarity=0.268 Sum_probs=28.9
Q ss_pred HHHHHCCCCCCCCCCCCC-CCCEEEECCEEEEEEEECCCCCCCCCCCC
Q ss_conf 222102776464331334-55301002506999851266553221013
Q gi|254780454|r 207 EILRILSSKDSSVKVSLS-ESRIHLNIESLSMSVRLIDGEFPNYQNVI 253 (385)
Q Consensus 207 el~k~l~~~~~~v~i~~~-~~~i~~~~~~~~~~srLi~g~yPdy~~vi 253 (385)
+|+.-+++...++++... +..+.+..++..+.||+-+|.||+.+.+.
T Consensus 23 eLl~~f~~~i~~v~l~p~~~G~FeV~v~~~li~sk~~~g~fP~~~el~ 70 (76)
T pfam10262 23 ELLSTFPDDLIEVELQPGTGGAFEVTVNGELIWSKKEDGGFPDAKELK 70 (76)
T ss_pred HHHHHCCCHHHEEEEEECCCCEEEEEECCEEEEEEHHCCCCCCHHHHH
T ss_conf 999877640015886647993599999999989830028999989999
No 37
>pfam05169 consensus
Probab=47.67 E-value=16 Score=16.11 Aligned_cols=49 Identities=18% Similarity=0.229 Sum_probs=32.1
Q ss_pred HHHHHHHHCCCCCCCCCCCCC-CCCEEEECCEEEEEEEECCCCCCCCCCC
Q ss_conf 012222102776464331334-5530100250699985126655322101
Q gi|254780454|r 204 AVGEILRILSSKDSSVKVSLS-ESRIHLNIESLSMSVRLIDGEFPNYQNV 252 (385)
Q Consensus 204 ~l~el~k~l~~~~~~v~i~~~-~~~i~~~~~~~~~~srLi~g~yPdy~~v 252 (385)
...||+..|.++-++|.+.-+ +..+.+..++..+.+|--+|.||+-+.+
T Consensus 25 ~aQELL~TF~~~i~~V~L~P~tgG~F~V~~d~~~iw~Rk~~ggFPe~k~L 74 (96)
T pfam05169 25 LAQELLSTFSEDLGYVALHPGTGGVFEIFCNGVQIWERKQDGGFPEAKVL 74 (96)
T ss_pred HHHHHHHHHHHHHCCEEEEECCCCCEEEEECCEEEEEECCCCCCCCHHHH
T ss_conf 99999997641220489770899438999899898985046889888999
No 38
>KOG0967 consensus
Probab=44.28 E-value=21 Score=15.36 Aligned_cols=58 Identities=19% Similarity=0.342 Sum_probs=35.3
Q ss_pred HCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEE---CCEEEEEEEEC---CCCCCCCCCCCCC
Q ss_conf 0001000122221027764643313345530100---25069998512---6655322101355
Q gi|254780454|r 198 IIVPRKAVGEILRILSSKDSSVKVSLSESRIHLN---IESLSMSVRLI---DGEFPNYQNVIPC 255 (385)
Q Consensus 198 ~iiP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~---~~~~~~~srLi---~g~yPdy~~vip~ 255 (385)
.-=|.|.+.|+.+-+.+..=.-+..+++.++++. -|.+.++||=- .|+|||.-.+++.
T Consensus 348 LAkpTK~i~evl~rf~~~~FTCEyKYDGeRAQIH~~edG~v~IfSRN~E~~T~kYPDi~~~~~~ 411 (714)
T KOG0967 348 LAKPTKGIQEVLERFQDKAFTCEYKYDGERAQIHKLEDGTVEIFSRNSENNTGKYPDIIEVISK 411 (714)
T ss_pred HCCCCHHHHHHHHHHHCCEEEEEEECCCEEEEEEECCCCCEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 0375210999999853751688863076022568726885899833653356658539999887
No 39
>pfam09606 Med15 ARC105 or Med15 subunit of Mediator complex non-fungal. The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.
Probab=44.25 E-value=21 Score=15.36 Aligned_cols=71 Identities=27% Similarity=0.383 Sum_probs=49.5
Q ss_pred CCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCC---CCCCCCCCCCCCC---EE-----EEEHHHH
Q ss_conf 01000122221027764643313345530100250699985126655---3221013555661---79-----9848998
Q gi|254780454|r 200 VPRKAVGEILRILSSKDSSVKVSLSESRIHLNIESLSMSVRLIDGEF---PNYQNVIPCSNDK---EL-----RVNCTNL 268 (385)
Q Consensus 200 iP~k~l~el~k~l~~~~~~v~i~~~~~~i~~~~~~~~~~srLi~g~y---Pdy~~vip~~~~~---~~-----~v~r~~l 268 (385)
||.-.=.|+.++ |..+++.++.++..-. +.+.+.|+|=|-.+ |..+-.+|.+|+. .+ ..+...|
T Consensus 640 ip~vlqgEiarL----d~kF~v~ldp~~~~~~-~~i~liC~lddk~lp~VPP~~~~vP~~YP~~sp~~~~~~~~y~a~pf 714 (768)
T pfam09606 640 IPHVLQGEIARL----DQKFKVNLDPSHQSNN-GTIKLICKLDDKNLPSVPPLALSVPEEYPDQSPSCSLDEQEYNATPF 714 (768)
T ss_pred CHHHHHHHHHHH----HHCCEECCCCCCCCCC-CEEEEEEEECCCCCCCCCCEEEECCCCCCCCCCCCCCCHHHHCCCHH
T ss_conf 068899999987----4114121372236889-83899988468778999984676776688889761033755324689
Q ss_pred HHHHHHH
Q ss_conf 8889887
Q gi|254780454|r 269 RQAVDRV 275 (385)
Q Consensus 269 ~~al~Rv 275 (385)
+.++.|.
T Consensus 715 l~~v~~~ 721 (768)
T pfam09606 715 LQTVQKS 721 (768)
T ss_pred HHHHHHH
T ss_conf 9999999
No 40
>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules. Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.
Probab=32.70 E-value=32 Score=14.25 Aligned_cols=36 Identities=19% Similarity=0.308 Sum_probs=25.0
Q ss_pred CCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEEECC
Q ss_conf 2202300245565210116677617873489998534
Q gi|254780454|r 142 ERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVATDG 178 (385)
Q Consensus 142 ~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~vaTDg 178 (385)
+.|.|+...+..+++|.+|.|.+..+. .+-.|+-.|
T Consensus 15 ~nVsf~Y~~~~~~~vL~~is~~i~~Ge-~vaIvG~sG 50 (226)
T cd03248 15 QNVTFAYPTRPDTLVLQDVSFTLHPGE-VTALVGPSG 50 (226)
T ss_pred EEEEEECCCCCCCEEEECEEEEECCCC-EEEEECCCC
T ss_conf 988998899999943745389982999-999999999
No 41
>pfam12227 DUF3603 Protein of unknown function (DUF3603). This protein is found in bacteria and eukaryotes. Proteins in this family are about 250 amino acids in length.
Probab=31.24 E-value=34 Score=14.10 Aligned_cols=14 Identities=36% Similarity=0.665 Sum_probs=10.8
Q ss_pred EEEEEECCEEEEEE
Q ss_conf 89998534157666
Q gi|254780454|r 171 LCAVATDGHRLAVA 184 (385)
Q Consensus 171 l~~vaTDg~RLa~~ 184 (385)
.++|+|||.|+...
T Consensus 50 ycfi~TDG~~Iiav 63 (214)
T pfam12227 50 YCFVVTDGKGILAV 63 (214)
T ss_pred EEEEEECCCCEEEE
T ss_conf 58998679756998
No 42
>TIGR00010 TIGR00010 hydrolase, TatD family; InterPro: IPR015991 Escherichia coli TatD (synonym MttC) has been shown experimentally to be a DNase . On the basis of operon structure, it was originally thought to be involved in the Sec-independent export of protein precursors bearing twin arginine signal peptides by the Tat system . This alternative membrane targeting and translocation system (Mtt), also called twin arginine translocase (Tat) (MttA1A2BC or TatABCD), has been shown to transport fully folded proteins to, or across, the membrane , . However, it was later determined that TatD is not required for this translocation process , . Furthermore, it was noted that no exact correlation exists between the ability of an organism to synthesise a TatD-like protein and whether that organism has a Tat protein transport pathway . Also, with the exception of Escherichia coli , the genetic linkage between TatD and other Tat genes (operon structure) is not maintained. Members of this group may be distantly related to a large 3D fold-based domain superfamily of metalloenzymes . The description of this fold superfamily was based on an analysis of conservation patterns in three dimensions, and the discovery that the same active-site architecture occurs in a large set of enzymes involved primarily in nucleotide metabolism. The group is thought to include urease, dihydroorotase, allantoinase, hydantoinase, AMP-, adenine- and cytosine- deaminases, imidazolonepropionase, aryldialkylphosphatase, chlorohydrolase, formylmethanofuran dehydrogenase, and other enzymes ..
Probab=29.16 E-value=37 Score=13.88 Aligned_cols=92 Identities=16% Similarity=0.188 Sum_probs=54.1
Q ss_pred CEEEEEHHHHHHHHHHHHH---CCCCCCCCCEEEEECCEEEEEECCCCCEE--EEEE---EEEEECCCCEEEEE-CHHHH
Q ss_conf 1799848998888988741---01235553025651765999980787326--8999---99896288439996-38899
Q gi|254780454|r 259 KELRVNCTNLRQAVDRVSI---MSSVRIQAVKLSLSSDKLCMTVDNPDMGK--AIES---MNVYYNECPMDICF-NYKYL 329 (385)
Q Consensus 259 ~~~~v~r~~l~~al~Rv~i---~~~~~~~~i~l~~~~~~l~i~~~~~e~g~--~~e~---i~~~~~G~~~~i~f-N~~yl 329 (385)
.-+.=.|+.-.+.+..+.- ....+.. ..|.. .+.+.|..+ ...- .=+.+.| -|.| |++-|
T Consensus 133 P~iiH~RdA~~d~~~iL~~~y~~~~~~~~-g~~HC-------ftg~~E~a~~~ld~gd~~~yiSisG---~vTFknA~~l 201 (269)
T TIGR00010 133 PVIIHARDAEEDVLDILREYYAEKAPKVG-GVLHC-------FTGDAELAKKLLDLGDLLFYISISG---IVTFKNAKSL 201 (269)
T ss_pred CEEEECCCHHHHHHHHHHHHHHCCCCCCC-EEEEE-------CCCCHHHHHHHHCCCCEEEEEECCC---CEEEECCHHH
T ss_conf 68997884579999999999842787787-57981-------4888899999960698799997286---0221062678
Q ss_pred HHHHHHCCCCCCCCCEEEEEECCCC-CCEEEECCCCCC
Q ss_conf 8898735753346633899965898-758994377654
Q gi|254780454|r 330 LEIIDNISSDEVVDDEVVFRLDSSN-SSVFIRGKDKDS 366 (385)
Q Consensus 330 ~d~L~~~~~~~~~~e~i~l~~~~~~-~p~~i~~~~~~~ 366 (385)
.++++.++. |.+..+.++|. +|+.++|+.++.
T Consensus 202 ~~~v~~iP~-----e~LL~ETDSPyLaP~P~RGK~N~P 234 (269)
T TIGR00010 202 REVVKKIPL-----ERLLVETDSPYLAPVPYRGKRNEP 234 (269)
T ss_pred HHHHHHCCC-----CCCEEEECCCCCCCCCCCCCCCCC
T ss_conf 999974596-----432320167445788988985674
No 43
>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]
Probab=27.31 E-value=36 Score=13.93 Aligned_cols=12 Identities=42% Similarity=0.609 Sum_probs=4.8
Q ss_pred EEECHHHHHHHH
Q ss_conf 996388998898
Q gi|254780454|r 322 ICFNYKYLLEII 333 (385)
Q Consensus 322 i~fN~~yl~d~L 333 (385)
.|....|.++.+
T Consensus 166 ~G~~n~~~l~ii 177 (262)
T COG2022 166 LGLQNPYNLEII 177 (262)
T ss_pred CCCCCHHHHHHH
T ss_conf 675788999999
No 44
>pfam02979 NHase_alpha Nitrile hydratase, alpha chain.
Probab=25.37 E-value=37 Score=13.91 Aligned_cols=22 Identities=18% Similarity=0.169 Sum_probs=8.6
Q ss_pred CCCCCCCEEEEEHHHHHHHHHH
Q ss_conf 3555661799848998888988
Q gi|254780454|r 253 IPCSNDKELRVNCTNLRQAVDR 274 (385)
Q Consensus 253 ip~~~~~~~~v~r~~l~~al~R 274 (385)
+|....-+--.+-.+|...+.|
T Consensus 159 lP~RP~GTeg~~e~~La~lVTR 180 (189)
T pfam02979 159 LPMRPAGTEGWSEEQLAELVTR 180 (189)
T ss_pred ECCCCCCCCCCCHHHHHHHHCH
T ss_conf 3579998889999999977331
No 45
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein; InterPro: IPR011918 This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins ..
Probab=23.84 E-value=47 Score=13.29 Aligned_cols=34 Identities=18% Similarity=0.324 Sum_probs=27.4
Q ss_pred HCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEE
Q ss_conf 02202300245565210116677617873489998
Q gi|254780454|r 141 VERTHFAMATEEIRYYLNGIFFHINEEDLKLCAVA 175 (385)
Q Consensus 141 i~~t~~a~s~d~~r~~L~Gv~~~~~~~~~~l~~va 175 (385)
+++|.|+...-...++|.|++|.+..++ ++-.|+
T Consensus 340 F~~V~F~YP~RPd~~aL~~~~L~v~PGE-tvAlVG 373 (576)
T TIGR02204 340 FEQVNFAYPARPDQPALDGLNLTVRPGE-TVALVG 373 (576)
T ss_pred ECCCCCCCCCCCCCHHHCCCCCEECCCC-EEEEEC
T ss_conf 6122325879888042325772562776-588766
No 46
>pfam02102 Peptidase_M35 Deuterolysin metalloprotease (M35) family.
Probab=21.70 E-value=51 Score=13.03 Aligned_cols=106 Identities=15% Similarity=0.155 Sum_probs=50.2
Q ss_pred CEEEEEHHHHHHHHHHHHHHHCCCC-CCCHHCEEEEEEECCEEEEEEECCEEEEEEEEEEEECCCCEEEEEHHHHHHHHH
Q ss_conf 9589859999999998750203788-861013389999899799999678289999997775268079994998778874
Q gi|254780454|r 1 MKITVERSDILELLGHACRIIERKN-TIPVSCHVLLQANDGLLEIKASGPEIEITGAIPASVDVCGSITVSAHLLYDIVR 79 (385)
Q Consensus 1 Mk~~i~~~~L~~~l~~v~~~i~~k~-~~pil~~ilie~~~~~l~l~atd~~~~i~~~i~~~i~~~G~~~v~a~~l~~iik 79 (385)
|+|+..-..|+..-+++. ++|.+. ..|-| .|.++ +.+. ..++..|.-...++=+++ ++.-+..
T Consensus 1 m~~~~~~~a~~ala~~a~-a~p~~~~~~~~l-dV~Ls---------~vgN-t~VkAtITN~G~e~l~ll----k~nt~~D 64 (352)
T pfam02102 1 MRVTTLSTAILALASNAL-ALPAATSSSPGL-DVTLT---------QVDN-TRIKAVVKNTGSEEVTFV----HLNFFRD 64 (352)
T ss_pred CCHHHHHHHHHHHHHHHH-CCCCCCCCCCCE-EEEEE---------ECCC-CEEEEEEECCCCCCEEEE----EECCCCC
T ss_conf 930489999999865553-042247888850-58999---------6488-189999980798525788----6367567
Q ss_pred CCCCCCCEEEEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 07777730477733675089998678202430366211432123324
Q gi|254780454|r 80 KLQDGAQISFFKENELGTEVNISHGDSNFYLQSFPESEFPSTKEEEY 126 (385)
Q Consensus 80 ~L~~~~~i~~~~~~~~~~~i~i~~~~~~~~l~~~~~~~fP~~~~~~~ 126 (385)
..|-. .+.+..+ |..+.+..-+-++....++++.|-.++..+.
T Consensus 65 ~~pv~-Kv~v~~~---g~~V~F~Gi~~~~~~~~L~~~~F~~L~pG~s 107 (352)
T pfam02102 65 AAPVK-KVSLYRG---QTEVQFEGIKRRLRTEGLTKEALTTLAAGET 107 (352)
T ss_pred CCCCE-EEEEECC---CCCCCCCCEEEEEECCCCCHHHCEECCCCCE
T ss_conf 67703-7999658---9504303279987537899888643389987
No 47
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=21.49 E-value=52 Score=13.00 Aligned_cols=26 Identities=15% Similarity=0.188 Sum_probs=12.8
Q ss_pred CCEEEECCCCCCCCCEEEEEEEECCC
Q ss_conf 22023002455652101166776178
Q gi|254780454|r 142 ERTHFAMATEEIRYYLNGIFFHINEE 167 (385)
Q Consensus 142 ~~t~~a~s~d~~r~~L~Gv~~~~~~~ 167 (385)
+.|.|+......+++|.+|.|++..+
T Consensus 4 ~nVsf~Y~~~~~~~vL~~isl~i~~G 29 (238)
T cd03249 4 KNVSFRYPSRPDVPILKGLSLTIPPG 29 (238)
T ss_pred EEEEEECCCCCCCEEECCEEEEECCC
T ss_conf 99999879999995222558997699
No 48
>KOG0848 consensus
Probab=21.11 E-value=24 Score=15.00 Aligned_cols=24 Identities=4% Similarity=0.098 Sum_probs=12.6
Q ss_pred CCCCCCC-CCCCC--CCEEEEEHHHHH
Q ss_conf 5322101-35556--617998489988
Q gi|254780454|r 246 FPNYQNV-IPCSN--DKELRVNCTNLR 269 (385)
Q Consensus 246 yPdy~~v-ip~~~--~~~~~v~r~~l~ 269 (385)
|-||+++ +-++| .-.|++.|+.=+
T Consensus 206 YTDhQRLELEKEfh~SryITirRKSEL 232 (317)
T KOG0848 206 YTDHQRLELEKEFHTSRYITIRRKSEL 232 (317)
T ss_pred ECCHHHHHHHHHHCCCCCEEEEHHHHH
T ss_conf 400466656554343540464256788
No 49
>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=20.64 E-value=54 Score=12.89 Aligned_cols=12 Identities=8% Similarity=-0.045 Sum_probs=5.0
Q ss_pred CHHCEEEEEEEC
Q ss_conf 101338999989
Q gi|254780454|r 28 PVSCHVLLQAND 39 (385)
Q Consensus 28 pil~~ilie~~~ 39 (385)
|+|.++-+++..
T Consensus 18 ~aL~~vsl~i~~ 29 (276)
T PRK13650 18 YTLDDVSFHVKQ 29 (276)
T ss_pred EEEECCEEEECC
T ss_conf 787875879989
Done!