Query psy13355
Match_columns 314
No_of_seqs 137 out of 1483
Neff 8.8
Searched_HMMs 46136
Date Fri Aug 16 17:20:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK14944 DNA polymerase III su 100.0 1.8E-65 3.9E-70 477.1 39.9 306 1-312 1-317 (375)
2 PRK14942 DNA polymerase III su 100.0 9.8E-65 2.1E-69 471.9 39.5 308 1-313 1-316 (373)
3 PRK14947 DNA polymerase III su 100.0 1.3E-64 2.8E-69 472.4 38.7 306 1-313 1-316 (384)
4 PRK06673 DNA polymerase III su 100.0 3.4E-64 7.3E-69 469.3 39.0 306 1-313 1-316 (376)
5 PRK14946 DNA polymerase III su 100.0 3.5E-64 7.6E-69 466.4 38.6 300 1-311 1-306 (366)
6 PRK14940 DNA polymerase III su 100.0 1.5E-63 3.2E-68 464.2 41.0 306 1-312 1-308 (367)
7 PRK07761 DNA polymerase III su 100.0 2.3E-59 5.1E-64 438.1 39.5 305 1-313 1-311 (376)
8 PRK14945 DNA polymerase III su 100.0 2.6E-59 5.7E-64 435.7 39.5 303 1-313 1-304 (362)
9 PRK14941 DNA polymerase III su 100.0 4.7E-59 1E-63 434.9 40.6 303 1-313 1-312 (374)
10 PRK05643 DNA polymerase III su 100.0 1.2E-57 2.6E-62 425.9 40.8 309 1-313 1-310 (367)
11 TIGR00663 dnan DNA polymerase 100.0 1.6E-57 3.4E-62 425.0 39.0 308 1-313 1-310 (367)
12 smart00480 POL3Bc DNA polymera 100.0 2.1E-57 4.5E-62 420.7 38.3 292 19-313 1-292 (345)
13 PRK14943 DNA polymerase III su 100.0 9.5E-57 2.1E-61 420.5 40.3 307 1-313 1-318 (374)
14 cd00140 beta_clamp Beta clamp 100.0 1.1E-50 2.3E-55 378.7 40.6 307 1-312 1-308 (365)
15 COG0592 DnaN DNA polymerase sl 100.0 5.3E-50 1.1E-54 371.6 38.9 304 1-312 1-306 (364)
16 PF00712 DNA_pol3_beta: DNA po 100.0 3.3E-28 7.3E-33 191.4 15.3 120 1-122 1-120 (120)
17 PF02767 DNA_pol3_beta_2: DNA 100.0 9.2E-28 2E-32 187.9 15.1 116 132-247 1-116 (116)
18 PRK05643 DNA polymerase III su 99.9 2.3E-25 4.9E-30 208.3 25.4 220 1-231 127-352 (367)
19 PRK14945 DNA polymerase III su 99.9 1E-24 2.2E-29 203.4 25.2 216 6-231 126-347 (362)
20 smart00480 POL3Bc DNA polymera 99.9 4.8E-24 1E-28 197.6 25.4 220 1-231 109-334 (345)
21 cd00140 beta_clamp Beta clamp 99.9 9.8E-24 2.1E-28 196.9 26.2 219 2-232 126-352 (365)
22 TIGR00663 dnan DNA polymerase 99.9 3.5E-23 7.6E-28 193.5 19.5 166 130-302 2-174 (367)
23 PRK07761 DNA polymerase III su 99.9 1.9E-21 4.2E-26 182.2 24.4 215 6-231 126-353 (376)
24 PRK14943 DNA polymerase III su 99.9 2E-21 4.4E-26 182.0 19.4 168 130-304 2-176 (374)
25 PRK14941 DNA polymerase III su 99.9 2.2E-20 4.8E-25 174.7 24.6 216 1-230 129-353 (374)
26 PRK14940 DNA polymerase III su 99.9 5.5E-20 1.2E-24 171.6 24.2 215 6-231 129-351 (367)
27 PRK01115 DNA polymerase slidin 99.9 4.8E-20 1E-24 163.1 20.3 162 134-312 8-180 (247)
28 PRK14942 DNA polymerase III su 99.8 1.2E-16 2.5E-21 149.3 24.4 216 6-230 136-357 (373)
29 PRK14944 DNA polymerase III su 99.7 8.7E-16 1.9E-20 143.5 25.3 220 6-231 132-360 (375)
30 cd00577 PCNA Proliferating Cel 99.7 3.8E-16 8.2E-21 138.0 20.3 163 134-312 5-180 (248)
31 PRK06673 DNA polymerase III su 99.7 1.6E-15 3.5E-20 141.9 25.0 218 6-231 135-360 (376)
32 PRK14946 DNA polymerase III su 99.7 3E-15 6.6E-20 139.3 25.3 214 6-231 129-351 (366)
33 PRK14947 DNA polymerase III su 99.7 1.6E-15 3.5E-20 142.1 23.1 216 6-231 129-358 (384)
34 PF00712 DNA_pol3_beta: DNA po 99.6 1.8E-14 3.9E-19 113.2 14.9 117 130-248 2-119 (120)
35 PF02767 DNA_pol3_beta_2: DNA 99.5 1.3E-12 2.9E-17 101.9 16.9 114 6-120 1-116 (116)
36 COG0592 DnaN DNA polymerase sl 99.4 1E-11 2.2E-16 115.7 20.0 177 130-313 2-185 (364)
37 PRK01115 DNA polymerase slidin 99.4 3.3E-10 7.1E-15 100.3 26.1 204 6-230 5-229 (247)
38 cd00577 PCNA Proliferating Cel 99.2 9.2E-09 2E-13 90.7 24.0 205 7-231 4-231 (248)
39 PF02768 DNA_pol3_beta_3: DNA 99.1 2.7E-10 5.8E-15 89.6 9.3 65 249-313 1-65 (121)
40 PLN00057 proliferating cell nu 98.8 7.7E-06 1.7E-10 72.9 25.2 205 6-231 5-241 (263)
41 PTZ00113 proliferating cell nu 98.8 1.2E-05 2.6E-10 71.9 26.1 206 6-231 5-243 (275)
42 TIGR00590 pcna proliferating c 98.7 2.3E-05 4.9E-10 69.8 26.7 205 6-231 5-241 (259)
43 PHA03383 PCNA-like protein; Pr 98.7 2.2E-05 4.7E-10 69.8 24.6 203 8-231 14-247 (262)
44 PTZ00483 proliferating cell nu 98.6 7.1E-05 1.5E-09 66.6 24.3 201 5-226 4-233 (264)
45 PHA03383 PCNA-like protein; Pr 98.3 0.00014 3.1E-09 64.6 20.1 161 134-310 14-193 (262)
46 TIGR00590 pcna proliferating c 98.3 0.0002 4.2E-09 63.8 20.7 161 134-311 8-183 (259)
47 PF02768 DNA_pol3_beta_3: DNA 98.3 2.7E-05 5.9E-10 61.0 12.8 93 5-103 12-107 (121)
48 PLN00057 proliferating cell nu 98.2 0.00041 8.9E-09 61.9 20.8 161 134-311 8-183 (263)
49 PTZ00113 proliferating cell nu 98.2 0.0004 8.7E-09 62.2 20.2 161 134-311 8-185 (275)
50 PTZ00483 proliferating cell nu 98.1 0.00085 1.8E-08 59.7 20.6 165 130-311 3-189 (264)
51 PHA02545 45 sliding clamp; Pro 98.1 0.0018 3.9E-08 55.2 20.7 189 32-240 18-216 (223)
52 KOG1636|consensus 97.0 0.21 4.4E-06 42.8 18.8 203 9-231 9-239 (260)
53 KOG1636|consensus 96.3 0.17 3.6E-06 43.3 13.1 143 159-311 24-183 (260)
54 PF00705 PCNA_N: Proliferating 95.8 0.2 4.3E-06 39.5 11.0 87 6-101 5-101 (127)
55 PF04139 Rad9: Rad9; InterPro 95.2 2 4.3E-05 37.9 18.8 203 12-233 1-239 (252)
56 PF00705 PCNA_N: Proliferating 93.2 3.4 7.4E-05 32.5 12.7 89 134-232 8-106 (127)
57 PF02747 PCNA_C: Proliferating 92.4 0.87 1.9E-05 35.8 7.9 53 252-309 2-55 (128)
58 PF02747 PCNA_C: Proliferating 82.3 22 0.00047 27.8 13.8 86 4-98 10-107 (128)
59 TIGR02174 CXXU_selWTH selT/sel 66.3 28 0.00061 24.2 6.0 46 205-252 20-68 (72)
60 PF02144 Rad1: Repair protein 63.5 1.1E+02 0.0024 27.3 16.9 216 71-293 6-267 (275)
61 COG3526 Uncharacterized protei 62.1 26 0.00055 25.2 5.0 48 204-251 26-74 (99)
62 PF11858 DUF3378: Domain of un 57.2 70 0.0015 22.9 7.3 65 1-85 1-65 (81)
63 TIGR01439 lp_hng_hel_AbrB loop 56.4 41 0.00088 20.2 4.9 36 66-103 5-41 (43)
64 PF10262 Rdx: Rdx family; Int 54.6 35 0.00076 23.9 4.9 48 205-252 22-70 (76)
65 PF04014 Antitoxin-MazE: Antid 54.0 47 0.001 20.8 4.9 36 66-103 5-41 (47)
66 PF10106 DUF2345: Uncharacteri 53.0 42 0.00091 27.3 5.7 42 33-74 72-113 (155)
67 PF03646 FlaG: FlaG protein; 52.7 69 0.0015 24.0 6.5 54 260-313 32-87 (107)
68 PF04139 Rad9: Rad9; InterPro 47.4 1.9E+02 0.0042 25.2 23.9 188 78-278 5-219 (252)
69 PF02144 Rad1: Repair protein 42.8 2.5E+02 0.0053 25.1 24.0 180 35-225 25-266 (275)
70 PRK07738 flagellar protein Fla 42.7 72 0.0016 24.7 5.2 53 261-313 42-96 (117)
71 PRK08868 flagellar protein Fla 41.7 68 0.0015 25.8 5.1 56 258-313 64-121 (144)
72 PF09116 gp45-slide_C: gp45 sl 40.6 1.7E+02 0.0036 22.5 12.8 96 129-240 2-104 (112)
73 PTZ00179 60S ribosomal protein 35.1 2.7E+02 0.006 23.4 13.6 47 27-73 7-56 (189)
74 COG1334 FlaG Uncharacterized f 33.3 80 0.0017 24.5 4.1 50 264-313 48-99 (120)
75 PF09373 PMBR: Pseudomurein-bi 28.2 48 0.001 19.2 1.7 25 6-30 4-28 (33)
76 PRK08452 flagellar protein Fla 28.2 1.6E+02 0.0036 23.0 5.2 52 262-313 50-103 (124)
77 PF11012 DUF2850: Protein of u 26.0 2.4E+02 0.0052 20.2 5.2 39 219-257 36-74 (79)
78 PRK09974 putative regulator Pr 25.5 1.8E+02 0.0039 22.3 4.8 37 66-104 16-53 (111)
79 PF07660 STN: Secretin and Ton 25.4 1.8E+02 0.0039 18.2 4.7 37 257-298 15-51 (52)
80 TIGR02609 doc_partner putative 25.2 1.7E+02 0.0036 20.4 4.4 34 68-103 10-43 (74)
81 PRK09798 antitoxin MazE; Provi 24.4 1.6E+02 0.0035 21.1 4.2 35 69-105 14-48 (82)
82 COG4253 Uncharacterized protei 23.7 2.1E+02 0.0045 25.7 5.5 89 34-125 125-219 (278)
83 PRK11347 antitoxin ChpS; Provi 22.8 1.3E+02 0.0028 21.7 3.4 42 69-112 13-54 (83)
84 TIGR03653 arch_L6P archaeal ri 22.7 4.4E+02 0.0096 21.7 12.5 46 28-73 3-49 (170)
85 PF10106 DUF2345: Uncharacteri 21.2 4.4E+02 0.0096 21.2 7.4 28 31-58 61-88 (155)
86 TIGR03406 FeS_long_SufT probab 20.8 4.4E+02 0.0095 21.9 6.7 62 84-146 20-86 (174)
87 PF07833 Cu_amine_oxidN1: Copp 20.5 2.1E+02 0.0046 20.1 4.4 71 67-144 2-80 (93)
No 1
>PRK14944 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=1.8e-65 Score=477.14 Aligned_cols=306 Identities=19% Similarity=0.346 Sum_probs=285.6
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEe---eeeccceEEEEechHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV---GYGNSSINIIVAARKF 77 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~---~~~~~~G~~~v~~k~l 77 (314)
||| +|+|++|.++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++ ++. ++|+++||||+|
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~v~~k~~~piL~~ili~a~~~~l~l~atD~ei~i~~~i~~~~~~v~-e~G~v~v~ak~l 77 (375)
T PRK14944 1 MYL--EINKDIFLEQLLKIQKILPQKTFFPIFNALKIQTKKNFLILEANNGNIAIKIEIKDESLKIK-KEGKIACLGRYF 77 (375)
T ss_pred CEE--EEeHHHHHHHHHHHHhHhcCCCCchhhcCEEEEEECCEEEEEEECccEEEEEEEeCCcceee-cceEEEEehHhH
Confidence 999 99999999999999999999999999999999999999999999999999999997 466 899999999999
Q ss_pred HHHHhcCCCCCcEEEEEe-CCEEEEEECCeEEEEecCCCCCCCCCcC-CCCCceEEEEeHHHHHHHHhhhcccccccccc
Q psy13355 78 IDILRSLPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEYPIMTL-NSKYDFEFTLSQKTLKCILNMVYFSIAQQDIR 155 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~-~~~l~I~~g~~~~~l~~~~~~~fP~~~~-~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~ 155 (314)
.+++|+||++. |+++.+ ++.++|+||+++|+|+++++++||.++. .+. ...+.+++..|++++++|.||+|++++|
T Consensus 78 ~~ivk~Lp~~~-I~~~~~~~~~l~I~s~~s~f~L~~~~~~~fP~~~~~~~~-~~~~~i~~~~l~~~i~~t~fa~s~de~r 155 (375)
T PRK14944 78 IEIIKKINDSL-IKMTVMENNFLVIKTEFCEYKLKLMDLCNFLELDFFFEK-KEFFEIKTHFFKKIIKEINISTSKNEKR 155 (375)
T ss_pred HHHHHhCCCCc-EEEEEcCCCEEEEEECcEEEEEcCCCHHHCCCCCcccCc-CeEEEECHHHHHHHHhheeEEEccccCc
Confidence 99999999885 999985 6799999999999999999999999997 454 6789999999999999999999999999
Q ss_pred ceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcC-CCCcEEEEEeCcEEEEEECCE
Q psy13355 156 YYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLEN-KENPVELKISNNQIKIIFSNI 234 (314)
Q Consensus 156 ~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~-~~~~v~i~~~~~~~~~~~~~~ 234 (314)
|+|+||+|+++++.|+++|||||||++++.+++.... +++++||+|.+.++.|+|++ .++.|+|+++++++.|++++.
T Consensus 156 ~~L~Gv~~~~~~~~l~~vATDghRLa~~~~~~~~~~~-~~~~iIP~k~l~el~kll~~~~~~~v~i~~~~~~i~f~~~~~ 234 (375)
T PRK14944 156 PILTGLNLIYQKNLLKALATDSFRMSQKKIKLDFNYH-NFNIVIPNKSLEELSKILEYYQSKNLKIYSDSKKIFLKIDNL 234 (375)
T ss_pred cceeEEEEEEECCEEEEEEEccceeEEEEeccCCCCC-ceEEEEECchHHHHHHHhccCCCCcEEEEEcCCEEEEEECCE
Confidence 9999999999999999999999999999988864433 67899999999999999974 357899999999999999999
Q ss_pred EEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCC---CCeEEEEEE-CCEEEEEEecCCcceeEEEE
Q psy13355 235 EIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK---LKGVRLVIK-PNYLKITVSSSNREKASSTD 310 (314)
Q Consensus 235 ~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~---~~~v~l~~~-~~~l~l~~~~~d~G~a~e~~ 310 (314)
++++|+++|+||||++++|++++..+.++|.+|++||+|++++++++ ++.|.|.+. ++.|++++.++|.|+|+|++
T Consensus 235 ~~~srLieG~fPdy~~viP~~~~~~~~i~r~~l~~al~Rvslls~~~~~~~~~v~l~~~~~~~l~iss~~~e~G~a~e~i 314 (375)
T PRK14944 235 WFQTSLLEGNYPQIQEIKLTNFPFSIHLNKDDLMKALERVSLLFSKEQNNTNVVKFILTKEKSIEISSSNESLGTALEKI 314 (375)
T ss_pred EEEEEeecccCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHhccccCCCceEEEEEcCCCEEEEEEcCcccCeEEEEE
Confidence 99999999999999999999999999999999999999999999753 377999995 78999999999999999985
Q ss_pred -ee
Q psy13355 311 -LI 312 (314)
Q Consensus 311 -~~ 312 (314)
++
T Consensus 315 ~~~ 317 (375)
T PRK14944 315 IPL 317 (375)
T ss_pred ecc
Confidence 64
No 2
>PRK14942 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=9.8e-65 Score=471.87 Aligned_cols=308 Identities=20% Similarity=0.354 Sum_probs=286.8
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|++|.++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++++. ++|+++||||+|.++
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~i~~k~~~pIL~~ili~a~~~~l~l~atD~ei~i~~~i~~~i~-e~G~~~vpak~l~ei 77 (373)
T PRK14942 1 MKI--KVNTSEFLKAIHAVEGVISVREIKSILSNLKIEAEEKEVFLSATDLEISIKTSVPATVG-QKGTASLPAKQLSSF 77 (373)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCCCCCchhhcCEEEEEECCEEEEEEECCCeEEEEEEeeeec-cCeEEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999887 899999999999999
Q ss_pred HhcCCCCC-cEEEEE-e--CCEEEEEE--CC--eEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccc
Q psy13355 81 LRSLPETE-KVTIYI-E--NKHMFIKS--GK--SKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (314)
Q Consensus 81 ik~l~~~~-~v~l~~-~--~~~l~I~~--g~--~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~ 152 (314)
+|+||++. .|+++. + ++.+.|++ |+ ++|+|+++++++||.+|..+. ...+.+++..|++++++|.||+|++
T Consensus 78 vr~lp~~~~~i~~~~~~~~~~~~~I~~~~~~~~~~f~l~~~~~~dfP~~~~~~~-~~~~~i~~~~L~~~i~~t~fa~s~d 156 (373)
T PRK14942 78 FKTIHFETTLLSLEESDSESSIVYITDASGKNDYKSKISGMDAEEIKTISKVDE-SQVSSFPSQLINDMIRKTSYAIAHE 156 (373)
T ss_pred HHhCCCCCceEEEEEccCCCCEEEEEECCCCCccEEEEccCCHHHCCCCCCCCC-ceEEEECHHHHHHHHhhEeEEEecc
Confidence 99999763 477777 2 46899984 85 499999999999999999886 7889999999999999999999999
Q ss_pred cccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEEC
Q psy13355 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFS 232 (314)
Q Consensus 153 ~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~ 232 (314)
++||+|+||+|+++++.|+++|||||||+..+.+++...+.+.+++||+|.+.++.|++.+ +++++|+++++++.|.++
T Consensus 157 e~R~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIP~k~l~el~kll~~-~~~v~i~~~~~~i~f~~~ 235 (373)
T PRK14942 157 DQRFIFNGLYMIPDGTKLIFVGTDGRRLCKIERTLPSPLQFKDSIIVPAKAVREISKMIAT-SETGNIGLIDEQIYVSAN 235 (373)
T ss_pred ccchhheeEEEEEeCCEEEEEEechHHeEEEecccCCCCCCCceEEEehHHHHHHHHhcCC-CCcEEEEEcCCEEEEEEC
Confidence 9999999999999999999999999999999888764322246899999999999999975 468999999999999999
Q ss_pred CEEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 233 ~~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
+.++++|+++|+||||++++|+++...+.++|.+|+++|+|++++++++++.|.|.++++.|++++.+.+.|+++|++++
T Consensus 236 ~~~~~srLieG~yPdy~~vIP~~~~~~~~v~r~~l~~al~Rv~~~~~~~~~~v~l~~~~~~l~isa~~~~~g~~~e~i~~ 315 (373)
T PRK14942 236 NIELLCKLIEGNFPNYEQVIPKQTKFSVRISKEEFQVSLRQVLTAAEEPSRQVRLTFSKNNLNLFAQTLGASEADINMPI 315 (373)
T ss_pred CEEEEEEecccCCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHhhcCCceEEEEEeCCEEEEEEeCCCcceEEEEEEE
Confidence 99999999999999999999999999999999999999999999997777889999999999999999999999999987
Q ss_pred c
Q psy13355 313 Y 313 (314)
Q Consensus 313 ~ 313 (314)
.
T Consensus 316 ~ 316 (373)
T PRK14942 316 E 316 (373)
T ss_pred E
Confidence 3
No 3
>PRK14947 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=1.3e-64 Score=472.41 Aligned_cols=306 Identities=20% Similarity=0.281 Sum_probs=284.8
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|+.|+++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++++. ++|+++||||.|.++
T Consensus 1 Mkf--~i~k~~l~~~L~~v~~~i~~k~~~pIL~~ili~a~~~~L~l~atD~ei~i~~~i~~~i~-e~G~~~v~ak~l~di 77 (384)
T PRK14947 1 MYL--KVNKEDVIDGLQKAANIIPAKTGAAYLRTIWLKAEDGTLSIMSTDSNIEFRGTYPAEVT-EPGLAGVQGRAFVDL 77 (384)
T ss_pred CEE--EEEHHHHHHHHHHHHhhhCCCCcchhhcCEEEEEECCEEEEEEECCcEEEEEEEeeeec-cCeEEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999987 899999999999999
Q ss_pred HhcCCCCCcEEEEEe--CCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhcccccccccccee
Q psy13355 81 LRSLPETEKVTIYIE--NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (314)
Q Consensus 81 ik~l~~~~~v~l~~~--~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l 158 (314)
+|+||+++ |+|+.+ ++.+.|+||+++|+|+++++++||.+|..+. ...+.+++..|+++|++|.||+|++++||+|
T Consensus 78 vk~lp~~~-i~i~~~~~~~~l~I~~g~s~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~t~fA~s~de~r~~L 155 (384)
T PRK14947 78 VRKLPPGE-ITLKLDASSGNLLIEQGRRKYKLPVNDPSWFQNFSAFPA-EGAVVWSGDFLQELIDRIAFCISDEDAMEAI 155 (384)
T ss_pred HHhCCCCc-eEEEEeCCCCEEEEEECCeEEEEcCCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhheeeEeeccchhhhh
Confidence 99999986 999976 3589999999999999999999999999987 7789999999999999999999999999999
Q ss_pred eeEEEEEE-CCEEEEEEeccceEEEEEEecCCC--CCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCE-
Q psy13355 159 NGLLLSFQ-KKNIIAVSSDGHRLTYYQVNIDKK--FSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNI- 234 (314)
Q Consensus 159 ~gv~l~~~-~~~l~~~aTDg~Rl~~~~~~~~~~--~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~- 234 (314)
+||+|++. ++.++++|||||||++.+.+.... ...+.+++||+|.+.++.|++++ ++|+++++++++.|.+++.
T Consensus 156 ~Gv~~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~~~iIP~k~l~el~kll~~--~~v~i~~~~~~i~f~~~~~~ 233 (384)
T PRK14947 156 ACLKIKPVADNAIEVCGLNGHQFALLRFLNDDIHAKLPQEGILIQKKYLLELKKWLGA--DEIELSISEKRLFFRTGDGK 233 (384)
T ss_pred ceEEEEEcCCCEEEEEEcCccceEEEEccccccccccCCccEEEechHHHHHHHhCCC--CcEEEEEeCCEEEEEECCcE
Confidence 99999974 578999999999999998765421 11246899999999999999974 7899999999999999964
Q ss_pred -EEEEEeccccCCCccccccc---CcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEE
Q psy13355 235 -EIISKLIDGKFLDYKYVISN---KYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTD 310 (314)
Q Consensus 235 -~~~~~li~g~yP~~~~v~p~---~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~ 310 (314)
.+.+||++|+||||++++|+ +++..+.++|.+|+++|+|++++++++++.|.|.++++.|++++.++|.|+++|++
T Consensus 234 ~~~~srLieG~fPdY~~vIP~~~~~~~~~~~i~r~~l~~al~Rvsi~s~~~~~~v~l~~~~~~l~iss~~~e~G~a~E~i 313 (384)
T PRK14947 234 ETFSLPLSYYQYPDYMNFLSKLQGDDVSNLEVDRKECMDALDRILIFNTDNNRCTYFDFGPGELSLSAQGQDVGSATESL 313 (384)
T ss_pred EEEEEEeeecccCcceeeCCCCCCCCCEEEEEEHHHHHHHHHHHHHHhcCCCceEEEEEeCCEEEEEEcCCCCceEEEEE
Confidence 88899999999999999997 56789999999999999999999988788899999999999999999999999999
Q ss_pred eec
Q psy13355 311 LIY 313 (314)
Q Consensus 311 ~~~ 313 (314)
++.
T Consensus 314 ~~~ 316 (384)
T PRK14947 314 EVT 316 (384)
T ss_pred EEE
Confidence 874
No 4
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=3.4e-64 Score=469.35 Aligned_cols=306 Identities=23% Similarity=0.426 Sum_probs=286.5
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeee-------ccceEEEEe
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYG-------NSSINIIVA 73 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~-------~~~G~~~v~ 73 (314)
||| +|+|++|.++|+.+++++++|++.|+|+||+|++++++|+++|||+++++++++++++. .++|+++||
T Consensus 1 Mkf--~i~k~~L~~~L~~v~~~i~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~~~~~~~~~i~~~G~v~v~ 78 (376)
T PRK06673 1 MEF--IVNHKHFTQALSEVSKAISTKAIIPILSGIKITADQSGITLIASNSNIFIEKFIPSAIDDEQITTILQAGTIVVP 78 (376)
T ss_pred CEE--EEEHHHHHHHHHHHHHHhCCCCCchhhcCEEEEEcCCeEEEEEECCcEEEEEEEecccccccccccccCEEEEEE
Confidence 999 99999999999999999999999999999999999999999999999999999997643 257999999
Q ss_pred chHHHHHHhcCCCCCcEEEEEe-CCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccc
Q psy13355 74 ARKFIDILRSLPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (314)
Q Consensus 74 ~k~l~~iik~l~~~~~v~l~~~-~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~ 152 (314)
|+.|.+++|+||++ ++++.. ++.+.|++|+++|+|+++++++||.++..+. ...+.+++..|++++++|.||+|++
T Consensus 79 ak~l~~ivk~lp~~--i~~~~~~~~~l~I~~~~~~f~l~~~~~~dfP~~~~~~~-~~~~~i~~~~L~~~i~kt~fA~s~~ 155 (376)
T PRK06673 79 AKYFIEIIKKMPSD--IVIKSKNEQTITIQSGEITLNLNGFPANEFPNVPQIDD-HTEIQIETKQLIDAFKQTVFAVAKN 155 (376)
T ss_pred hHHHHHHHHcCCCC--cEEEECCCCEEEEEECCEEEEEcCCCHHHCCCCCCCCC-CceEEECHHHHHHHHhhEeEEEecC
Confidence 99999999999975 888764 6689999999999999999999999999886 7889999999999999999999999
Q ss_pred cccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEEC
Q psy13355 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFS 232 (314)
Q Consensus 153 ~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~ 232 (314)
++||+|+||+|++++|.+.++|||||||+.++.+.+.. . +++++||++.+.++.|++++.++.|+++++++++.|.++
T Consensus 156 e~r~~L~Gv~l~~~~~~l~~vaTDg~RLA~~~~~~~~~-~-~~~~iIP~k~l~el~kll~~~~~~v~i~~~~~~i~f~~~ 233 (376)
T PRK06673 156 ESRPVLTGVHIELDHNKLICAATDSHRLAIRETLISTN-M-KANCIVPSATINELLKLMNSNLEFVSIYLSESHIIFTFG 233 (376)
T ss_pred CCChhceeEEEEEeCCEEEEEEecCceEEEEecccCCC-C-CCcEEEEHHHHHHHHHhccCCCceEEEEEeCCEEEEEEC
Confidence 99999999999999999999999999999999887643 2 578999999999999999765678999999999999999
Q ss_pred CEEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcC-CCCeEEEEE-ECCEEEEEEecCCcceeEEEE
Q psy13355 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISND-KLKGVRLVI-KPNYLKITVSSSNREKASSTD 310 (314)
Q Consensus 233 ~~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~-~~~~v~l~~-~~~~l~l~~~~~d~G~a~e~~ 310 (314)
+.++.+||++|+||||++++|++++..+.++|++|++|++|+++++++ .++.|.|.+ +++.|++++.++|.|+++|++
T Consensus 234 ~~~~~srLieG~fPdy~~vip~~~~~~v~i~r~~l~~al~Rvsi~~~~~~~~~v~l~~~~~~~l~i~s~~~e~G~a~e~i 313 (376)
T PRK06673 234 TTTLYSRLIEGKYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLASEWANNNVNLEIVNESTIQISSNASQIGKISETQ 313 (376)
T ss_pred CEEEEEEEecccCCChhhcCCCCCcEEEEEEHHHHHHHHHHHHHhhccCCCCcEEEEEcCCCEEEEEEcCCCCCcEEEEE
Confidence 999999999999999999999999999999999999999999999976 467899999 789999999999999999999
Q ss_pred eec
Q psy13355 311 LIY 313 (314)
Q Consensus 311 ~~~ 313 (314)
++.
T Consensus 314 ~~~ 316 (376)
T PRK06673 314 QID 316 (376)
T ss_pred Eee
Confidence 873
No 5
>PRK14946 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=3.5e-64 Score=466.36 Aligned_cols=300 Identities=16% Similarity=0.242 Sum_probs=281.1
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEe----eeeccceEEEEechH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV----GYGNSSINIIVAARK 76 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~----~~~~~~G~~~v~~k~ 76 (314)
||| +|+|+.|.++|+++++++++ ++.|+|+||+|++++++|+++|||+++++++++++ ++. ++|+++||||.
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~v~~-~~~~iL~~iliea~~~~l~l~atD~ei~i~~~i~~~~~~~i~-e~G~~~v~ak~ 76 (366)
T PRK14946 1 MKF--TIEKEIIEKQIERMQSAILN-NGNSPLSGFFLKLTRSGLFIISTNSELSYKSFINKKDLIEIN-DVGSCLIDGVF 76 (366)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCC-CCCcccccEEEEEECCeEEEEEECCcEEEEEEEeCCcCceec-cCeEEEEEcHH
Confidence 999 99999999999999999998 56679999999999999999999999999999997 777 89999999999
Q ss_pred HHHHHhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccc
Q psy13355 77 FIDILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRY 156 (314)
Q Consensus 77 l~~iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~ 156 (314)
|.+++|+||+ . |+++.+++.+.|+||+++|+|+++++++||.+|..+. ...+.+++..|++++++|.||+|++++||
T Consensus 77 l~eIvk~lp~-~-I~~~~~~~~l~I~s~~s~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~kt~fA~s~de~r~ 153 (366)
T PRK14946 77 LKNIIKKSDN-Q-ISFELIGSELKVFWEDAQFSKTLRDSSFFPEINFEQK-GIKLTVNAKNLKRAIKNTAFATTNNPNQP 153 (366)
T ss_pred HHHHHHcCCC-c-EEEEEeCCEEEEEECceEEEEcCCCHHHCCCCCcccC-CcEEEECHHHHHHHHhhEEEEEeCCCCcc
Confidence 9999999985 4 9999988889999999999999999999999999886 78999999999999999999999999999
Q ss_pred eeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEE
Q psy13355 157 YLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEI 236 (314)
Q Consensus 157 ~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~ 236 (314)
+|+||+|+++++.|+++|||||||++.+.+++.. . +++++||+|.+.++ ++.+.+++|+|+++++++.|.+++.++
T Consensus 154 ~L~Gv~~~~~~~~l~~vATDg~RLA~~~~~~~~~-~-~~~~iIP~k~l~el--l~~~~~~~v~i~~~~~~i~f~~~~~~~ 229 (366)
T PRK14946 154 ILSAINLKSEDNFLHFSATDTIRFASEKIEISNP-S-RIDISISAKNLKDF--IPPELDKDIELFIESSKISYTYDNLTI 229 (366)
T ss_pred cceEEEEEEeCCEEEEEEecchheEEEEeccCCC-C-cceEEEeccCHHHH--hcccCCCcEEEEEeCCEEEEEECCEEE
Confidence 9999999999999999999999999999888643 2 57899999999999 554445789999999999999999999
Q ss_pred EEEeccccCCCcccccccC--cceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEe
Q psy13355 237 ISKLIDGKFLDYKYVISNK--YEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDL 311 (314)
Q Consensus 237 ~~~li~g~yP~~~~v~p~~--~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~ 311 (314)
.+|+++|+||||++++|++ +.+.+.++|.+|+++++|++++++++++.|+|.++++.|++++.++|.|+++|+++
T Consensus 230 ~srLieG~fPdy~~viP~~~~~~~~~~i~r~~l~~al~Rvsl~a~~~~~~v~l~~~~~~l~lss~~~e~G~a~e~i~ 306 (366)
T PRK14946 230 QSRIFTIEYKDISNVLPKDSEILYSLTIEKKEILDLIDKATIITPGKDNVINFSLSKNELKGYISQYESGQSNVKTK 306 (366)
T ss_pred EEEEecccCCCHHHhCCCCCCccEEEEEEHHHHHHHHHHhheeecCCCceEEEEEcCCEEEEEEECCCCceEEEEec
Confidence 9999999999999999987 45799999999999999999999877889999999999999999999999999983
No 6
>PRK14940 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=1.5e-63 Score=464.17 Aligned_cols=306 Identities=29% Similarity=0.494 Sum_probs=290.0
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|++|.++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++++. ++|+++|||+.|.++
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~v~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~i~-e~G~v~v~ak~l~~i 77 (367)
T PRK14940 1 MKI--LCEKEALLKEISIAQEIISTKKALSILSNVLLAAQDGSLTIKATDTKVSFETSIPVNIL-AEGSTTVFCDKFVGI 77 (367)
T ss_pred CEE--EEEHHHHHHHHHHHHhhccCCCchHHhcCEEEEEECCEEEEEEECCceEEEEEEEeeec-cCeEEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999988 899999999999999
Q ss_pred HhcCCCCCcEEEEEeCCEEEEEE--CCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhcccccccccccee
Q psy13355 81 LRSLPETEKVTIYIENKHMFIKS--GKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (314)
Q Consensus 81 ik~l~~~~~v~l~~~~~~l~I~~--g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l 158 (314)
+|+||++. |+|+.+++++.|+| |+++|+|+++++++||.++..+. ...+.+++..|+++|+++.||+|++++||+|
T Consensus 78 vk~lp~~~-i~~~~~~~~l~I~~~~~~~~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~v~~a~s~~~~rpiL 155 (367)
T PRK14940 78 LSSLPTGE-IELELCDEQLVITPPNKKISFQLKTISHESFPCFPENEG-GVSFAIPTKDLREMINQTIFAVSDDETRYFM 155 (367)
T ss_pred HHhCCCCc-eEEEEcCCEEEEEEcCCceEEEEccCChHHCCCCCCCCC-CeEEEECHHHHHHHHhhEeEEEcCCCCCcee
Confidence 99999985 99999888999999 68999999999999999999887 7899999999999999999999999999999
Q ss_pred eeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEE
Q psy13355 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIIS 238 (314)
Q Consensus 159 ~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~ 238 (314)
+||+|++++|.|+++|||||||+..+.+++......++++||+|.+.++.|++.+ +++|++.++++++.|.+++.+|.+
T Consensus 156 ~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~viiP~k~l~~l~kll~~-~~~v~i~~~~~~i~f~~~~~~~~~ 234 (367)
T PRK14940 156 NGVYVEFQYGNIICVATDGRRLAYIKKKGESSPQEFSGVIVPPKILGIINKKLSP-EGNVTLCITSQNIFFFFGGYKFSS 234 (367)
T ss_pred EEEEEEEeCCEEEEEEEcCceEEEEEeccCCCccccceEEEcHHHHHHHHHhcCC-CCcEEEEEeCCEEEEEECCEEEEE
Confidence 9999999999999999999999999887764333246899999999999999864 578999999999999999999999
Q ss_pred EeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 239 KLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 239 ~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
|+++|+||||++++|.+++..+.+++.+|.++++|++++++++++.|.|.++++.|++++.++|.|+++|++++
T Consensus 235 rlidg~fPdy~~vip~~~~~~~~i~~~~L~~al~R~~~~~~~~~~~v~l~~~~~~l~l~~~~~e~G~~~e~i~~ 308 (367)
T PRK14940 235 VLIEGQFPNYKRVIPDHQERSFCVGRVELMEALKRVSLLVEQKSRRIFLTIQQGLLTLSSQENEIGDAQEEIAC 308 (367)
T ss_pred EEccccccchHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhccCCceEEEEEeCCEEEEEEcCCCCccEEEEEEE
Confidence 99999999999999998889999999999999999999997777889999999999999999999999999986
No 7
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=2.3e-59 Score=438.09 Aligned_cols=305 Identities=17% Similarity=0.307 Sum_probs=284.9
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|++|.++|++++++++++++.|+|+||+|++++|+|+++|||+++++++++++++. ++|+++||+|.|.++
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~v~~k~~~piL~~iliea~~~~l~l~atd~~~~i~~~i~~~i~-~~G~~~v~~k~l~~i 77 (376)
T PRK07761 1 MKF--RVERDVLADAVAWVARSLPARPPVPVLAGVLLEADDGGLTLSGFDYEVSARVTIEAEVD-EPGRVLVSGRLLADI 77 (376)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCCCCCcHHHcCeEEEEeCCEEEEEEECccEEEEEEEEeEec-cCceEEEEHHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999887 899999999999999
Q ss_pred HhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceeee
Q psy13355 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (314)
Q Consensus 81 ik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~g 160 (314)
+|+||++. |+++.+++.+.|+||+++|+++++++++||.++..+. . .+.+++..|.++|++|.+|++.++++|+|+|
T Consensus 78 ik~lp~~~-i~~~~~~~~l~I~~~~~~~~l~~~~~~~fP~~~~~~~-~-~~~i~~~~L~~~i~~v~~a~s~~~~~piL~g 154 (376)
T PRK07761 78 TRSLPNKP-VDISVDGSRVTLTCGSARFTLPTMPVEDYPTLPELPE-A-TGTVDADAFAEAVSQVAVAAGRDDTLPMLTG 154 (376)
T ss_pred HHhCCCCc-EEEEEcCCEEEEEECceEEEecCCCHHHCCCCCCCCC-c-ceEECHHHHHHHHhhEeEEEEcccchhhhce
Confidence 99999885 9999998899999999999999999999999998875 3 4599999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEeccceEEEEEEecCCC-CCCcceEEEehhhHHHHHhhhcCCCCcEEEEEe-----CcEEEEEECCE
Q psy13355 161 LLLSFQKKNIIAVSSDGHRLTYYQVNIDKK-FSSCSDIIIPRKTVFTLQRLLENKENPVELKIS-----NNQIKIIFSNI 234 (314)
Q Consensus 161 v~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~-~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~-----~~~~~~~~~~~ 234 (314)
|+|+.++|.|.++|||||||++...+.... ..++++++||++.+.++.|.|++ +++++|.++ ++++.|.+++.
T Consensus 155 V~l~~~~~~L~l~ATDg~rLa~~~~~~~~~~~~~~~~~iIP~k~l~ei~k~l~~-~~~v~i~~~~~~~~~~~i~~~~~~~ 233 (376)
T PRK07761 155 VRVEIEGDTVTLAATDRYRLAVRELTWKPASPDISAAALVPARTLSDTAKSLGS-GGNVSIALSTGVGGEGLIGFEGGGR 233 (376)
T ss_pred EEEEEeCCEEEEEEECCceEEEEEeccCCCCCCcceeEEEEhHHHHHHHHhcCC-CCcEEEEEecCcCCCCEEEEEECCE
Confidence 999999999999999999999998665421 12368899999999999999986 567999997 78999999999
Q ss_pred EEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 235 EIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 235 ~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
+|.+++++|+||+|++++|.++...+.+++.+|+++++|+.+++ ++++.|.|+++++.|++++.++|.|+++|++++.
T Consensus 234 ~~~~~li~g~fP~~~~vip~~~~~~~~i~~~~L~~~l~r~~~~~-~~~~~v~l~~~~~~l~l~~~~~~~G~~~e~i~~~ 311 (376)
T PRK07761 234 RTTTRLLDGEFPKVRRLFPDEHPAVAVVETAPLIEAIKRVALVA-ERNAPVRLEFSDGQLTLSAGGGDDAQASEALEAD 311 (376)
T ss_pred EEEEEEecccCCChHhhCCCCCCEEEEEEHHHHHHHHHHHHHHh-cCCceEEEEEeCCEEEEEEcCCCcceEEEEEEEE
Confidence 99999999999999999999888899999999999999999997 4567899999999999999999999999999873
No 8
>PRK14945 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=2.6e-59 Score=435.68 Aligned_cols=303 Identities=21% Similarity=0.377 Sum_probs=285.3
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|++++|.++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++++. ++|+++||+|.|.++
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atd~~~~i~~~i~~~i~-~~G~~~v~ak~l~~i 77 (362)
T PRK14945 1 MNV--RVPKKTLSEGLGLLERIIPSRSSNPLLTYLKVELSEGGLTLSGTNGEVDLEVTLPAEVQ-GPGRVVVPAHLFFQI 77 (362)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCCCCchhhhcCEEEEEeCCEEEEEEECCcEEEEEEEeeeec-cCeEEEEEccCHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999987 899999999999999
Q ss_pred HhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceeee
Q psy13355 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (314)
Q Consensus 81 ik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~g 160 (314)
+|+||++. |+++.+++.+.|++|+++|+|+++++++||.++.... ..+.++++.|.++++++.+|+++++++|+|+|
T Consensus 78 vk~lp~~~-i~~~~~~~~l~i~~~~~~~~l~~~~~~~fP~~~~~~~--~~~~i~~~~L~~~i~~v~~avs~~~~~piL~g 154 (362)
T PRK14945 78 VRNLPGEL-VELEFQGGELEVRSGSSRTKLQTAPPEGYPELSFPSQ--GDVRLSAGELAKALTHVRYAASNEEFQAIFRG 154 (362)
T ss_pred HHhCCCCc-EEEEEcCCEEEEEECCEEEEeccCChHHCCCCCCCCC--ceEEECHHHHHHHHhhEEEEEecccchhheee
Confidence 99999885 9999988899999999999999999999999987654 35799999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEEe
Q psy13355 161 LLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKL 240 (314)
Q Consensus 161 v~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~l 240 (314)
|+|+.++|.|.++||||||++..+++.+.. . +++++||++.+.++.|.+++. ++|++.++++++.|++++.+|.+++
T Consensus 155 v~l~~~~~~l~lvATDg~rla~~~~~~~~~-~-~~~~iip~k~l~el~k~l~~~-~~v~i~~~~~~i~~~~~~~~~~~~l 231 (362)
T PRK14945 155 VKLEHSPQGLRAVASDGYRLAIYDLPASQG-Q-GRKLVIPARSADELVRVLKDG-DEASLALGEGVLTLTTGGVRMNLKL 231 (362)
T ss_pred EEEEEeCCEEEEEEEccceEEEEEeccCCC-C-CceEEEEHHHHHHHHHhcCCC-CcEEEEEcCCEEEEEECCEEEEEEe
Confidence 999999999999999999999999887643 2 689999999999999999863 3899999999999999999999999
Q ss_pred ccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCC-CCeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 241 IDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK-LKGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 241 i~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~-~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
++|+||+|++++|.++...+.+++.+|.++|+|+.+++++. ++.|.|+++++.|++++++ ++|.|.|++++.
T Consensus 232 idg~fP~~~~vip~~~~~~v~i~~~~L~~~l~r~~~~~~~~~~~~v~l~~~~~~l~~~a~~-~~g~a~~~i~~~ 304 (362)
T PRK14945 232 MEGEFPDYERVIPQDFKLQVTLPAEALREAVNRVAVLSDRNANNRVELLVAEGRLRLTAEG-DYGRGQEELAVT 304 (362)
T ss_pred ecccCCChhhhCCCCCCEEEEEEHHHHHHHHHHHhhhhccCCCccEEEEEECCEEEEEecC-CCceEEEEEEEE
Confidence 99999999999998888999999999999999999998765 6779999999999999986 999999999874
No 9
>PRK14941 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=4.7e-59 Score=434.95 Aligned_cols=303 Identities=25% Similarity=0.381 Sum_probs=280.1
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|++|.++|+++++++++|++.|+|+||+|++++++|+++|||+++++++++++++. ++|+++|||+.|.++
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~v~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~~~-~~G~~~v~a~~l~~i 77 (374)
T PRK14941 1 MKF--TSSIKQLQEAVNKVAQAIPAKSIDPRFENIHLTLENGKLTLFATDGELSITAKTEVESS-DSGNIGIRARTLQDF 77 (374)
T ss_pred CEE--EEEHHHHHHHHHHHHhhhcCCCchhHhcCEEEEEECCEEEEEEECCCeEEEEEEeeeec-cceEEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999887 899999999999999
Q ss_pred HhcCCCCCcEEEEEe------CCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccc
Q psy13355 81 LRSLPETEKVTIYIE------NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDI 154 (314)
Q Consensus 81 ik~l~~~~~v~l~~~------~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~ 154 (314)
+|+||++. |+|+.+ ++.+.|+||+++|+|+++++ +||.++..+. ..++.++++.|+++|++|.||++.+++
T Consensus 78 vk~lp~~~-i~~~~~~~~~~~~~~l~I~~~~~~f~l~~~~~-~~p~~~~~~~-~~~~~i~~~~L~~~i~~v~~a~s~~~~ 154 (374)
T PRK14941 78 LRSMYDTE-VTFSIERQEISDHGTVHIATDKGRYKIPCLFE-SKPEKQEKNF-DISLDLETSELLDLIQKTIFACSVDGM 154 (374)
T ss_pred HHcCCCCc-EEEEEeccccCCCCEEEEEECCEEEEeeccCc-ccCCCcCCCC-ceEEEECHHHHHHHHhheeEEEecccc
Confidence 99999885 999985 57899999999999999975 5798887765 678999999999999999999999999
Q ss_pred cceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEe--CcEEEEEEC
Q psy13355 155 RYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKIS--NNQIKIIFS 232 (314)
Q Consensus 155 ~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~--~~~~~~~~~ 232 (314)
||+|+||+|++++|.|+++|||||||+..+.+.+.....+++++||++.+.++.|++.+ +++++.++ ++++.|+++
T Consensus 155 rpiL~Gv~l~~~~~~l~lvATDg~Rla~~~~~~~~~~~~~~~~iiP~k~l~el~kll~~--~~v~i~~~~~~~~i~~~~~ 232 (374)
T PRK14941 155 RPAMMGVLFELEGNTITAVSTDGHRLVRCRKNSSVGVEEKQKIVVPARVLSILQKLAQH--ETVTMSIDSERRFVRFICG 232 (374)
T ss_pred hhhhceEEEEEeCCEEEEEEecCeeEEEEEecccCCccccceEEechHHHHHHHHhCCC--CceEEEEEcCCCEEEEEEC
Confidence 99999999999999999999999999999987753222257999999999999998864 36888877 578999999
Q ss_pred CEEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcc-eeEEEEe
Q psy13355 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNRE-KASSTDL 311 (314)
Q Consensus 233 ~~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G-~a~e~~~ 311 (314)
+.+|.+++++|+||||++++|.+++..+.+++.+|+++|+|+++++++ +.++|.++++.|++++.++|.| +++|+++
T Consensus 233 ~~~~~s~Li~g~fPdy~~viP~~~~~~i~i~~~~L~~al~rv~~~~~~--~~v~~~~~~~~l~l~~~~~~~g~~~~e~i~ 310 (374)
T PRK14941 233 NVVLDAALIVEPYPNYEAVIPVENDKKLVINRSNIYDSVKRVGRFSSI--GDIKISVEGSVLKVMAENTNEGESAQEELP 310 (374)
T ss_pred CEEEEEEEEeecCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHccC--CceEEEEECCEEEEEEECcccccceEEEEE
Confidence 999999999999999999999999999999999999999999999864 4699999999999999999998 7999999
Q ss_pred ec
Q psy13355 312 IY 313 (314)
Q Consensus 312 ~~ 313 (314)
+.
T Consensus 311 ~~ 312 (374)
T PRK14941 311 CS 312 (374)
T ss_pred eE
Confidence 74
No 10
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=1.2e-57 Score=425.94 Aligned_cols=309 Identities=40% Similarity=0.650 Sum_probs=288.4
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|++++|.++|++++++++++++.|+|+|++|++.+++|+++|||+++++++++++++..++|+++||+|.|.++
T Consensus 1 Mk~--~i~~~~l~~~l~~~~~~i~~~~~~piL~~ili~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~ei 78 (367)
T PRK05643 1 MKF--TISRNALLKALQLVQGAVERRNTIPILSNVLIEAEGGKLSLTATDLEISIETTIPAEVEVEEGSITVPAKKLLDI 78 (367)
T ss_pred CEE--EEEHHHHHHHHHHHhhhcCCCCChhHhcCEEEEEeCCEEEEEEECcceEEEEEEEeeEcccCeEEEEEhHHHHHH
Confidence 999 999999999999999999999999999999999999999999999999999999987631589999999999999
Q ss_pred HhcCCCCCcEEEEEeC-CEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceee
Q psy13355 81 LRSLPETEKVTIYIEN-KHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (314)
Q Consensus 81 ik~l~~~~~v~l~~~~-~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~ 159 (314)
+|+||++..|+++.++ +.+.|++|+++|+++++++++||.++..+. ...+.++++.|.++++++.+|+++++++|+|+
T Consensus 79 ik~l~~~~~i~i~~~~~~~l~i~~~~~~~~l~~~~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~~v~~a~~~~~~~piL~ 157 (367)
T PRK05643 79 VRKLPDGAEITLELEENNRLTIKSGKSRFNLPTLPAEDFPNLPEIEE-EVSFTLPQKTLKRLIEKTQFAMSTQETRYYLN 157 (367)
T ss_pred HHcCCCCCcEEEEECCCCEEEEEECCEEEEeccCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhheeEEeecCCcccccc
Confidence 9999986349999864 699999999999999999999999999876 78999999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEE
Q psy13355 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISK 239 (314)
Q Consensus 160 gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~ 239 (314)
||+|+.++|.|.++||||||++...++++....++++++||++.+.++.|.|++ ++.|.++++++++.|++++.+|.++
T Consensus 158 gi~~~~~~~~l~l~aTD~~rl~~~~~~~~~~~~~~~~~~vp~k~l~ei~k~l~~-~~~v~i~~~~~~~~~~~~~~~~~~~ 236 (367)
T PRK05643 158 GVLLEIEGNELRAVATDGHRLAVRKLELEEGSLGDFSVIIPRKTLLELQKLLDD-EEPVEIFISDNQILFEFGNTIFTSK 236 (367)
T ss_pred EEEEEEeCCEEEEEEeccceeEEEEecccCCcccCceEEEchHHHHHHHHhcCC-CCcEEEEEeCCEEEEEECCEEEEEE
Confidence 999999999999999999999999988764221268999999999999999974 5679999999999999999999999
Q ss_pred eccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 240 LIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 240 li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
+++|+||+|++++|.++...+.+++.+|.++++|+.++++++.++|.|++++++|++++++++.|++.|++++.
T Consensus 237 li~g~yP~~~~~ip~~~~~~~~i~~~~L~~~i~rv~~~~~~~~~~i~l~~~~~~l~~~a~~~~~g~a~~~i~~~ 310 (367)
T PRK05643 237 LIDGKFPDYRRVIPKEFDKKLTVDRKELLQALERASILSNEKSRGVKLSLSEGQLKISANNPEQGEAEEELEVE 310 (367)
T ss_pred EeeecCCChhhhCCCCCCEEEEEEHHHHHHHHHHHHHHhcCCCceEEEEEeCCEEEEEEECCCCCcEEEEEEEE
Confidence 99999999999999988999999999999999999999877778999999999999999999999999999873
No 11
>TIGR00663 dnan DNA polymerase III, beta subunit. University).
Probab=100.00 E-value=1.6e-57 Score=425.02 Aligned_cols=308 Identities=28% Similarity=0.465 Sum_probs=285.9
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEE-eeeeccceEEEEechHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTA-VGYGNSSINIIVAARKFID 79 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~-~~~~~~~G~~~v~~k~l~~ 79 (314)
||| +|++++|.++|++++++++++++.|+|+|++|++.+++|+++|||+++.++++++ +++. ++|+++||+|.|.+
T Consensus 1 Mk~--~i~~~~L~~~l~~v~~~i~~~~~~piL~gvlle~~~~~l~l~atD~~~~~~~~~~~~~~~-~~g~~~vp~k~l~e 77 (367)
T TIGR00663 1 MKF--IIERDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIFTINSE-QEGSVTINAKKFLD 77 (367)
T ss_pred CEE--EEEHHHHHHHHHHHHhHhcCCCchhhhcCEEEEEECCEEEEEEECCceEEEEEEeccccc-cCeEEEEEhHHHHH
Confidence 999 9999999999999999999999999999999999999999999999999999994 7776 78999999999999
Q ss_pred HHhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceee
Q psy13355 80 ILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (314)
Q Consensus 80 iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~ 159 (314)
++|+||+++ |+++.+++++.|++|+++|+++++++++||.++...+ ..++.++++.|.++++++.++++.+++||+|+
T Consensus 78 i~k~l~~~~-i~i~~~~~~l~i~~~~~~~~~~~l~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~~v~~a~~~~~~r~~L~ 155 (367)
T TIGR00663 78 IVRALPDSK-ITLEVKNDKLAITSEKSRFKLPTLSAEEFPNLPTIEE-GVSIEIPSDVLKEAINQTAFAAGEDETRPVLN 155 (367)
T ss_pred HHHhCCCCc-eEEEEcCCEEEEEECcEEEEecCCCHHHCCCCCCcCC-CcEEEECHHHHHHHHhhEEEEEecCCCCcccc
Confidence 999999775 9999988899999999999999999999999999876 78999999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEE
Q psy13355 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISK 239 (314)
Q Consensus 160 gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~ 239 (314)
||+|++++|.+.++|||||||++.+.+.+.....+++++||++.+.++.|++++.++.+.+..+++++.|++++.++.+|
T Consensus 156 gi~~~~~~~~l~~~atDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~r 235 (367)
T TIGR00663 156 GVLIEQKGKTLLLVATDGHRLAVCKLKSEVSDEEDFSVIIPAKALNELLKLLSENGSVVLKSLNDQLVYIELGNYKFTSK 235 (367)
T ss_pred eEEEEEeCCEEEEEEecchheEEEeccccCCCCccceEEEecHHHHHHHHHhcCCCCeEEEEEeCCEEEEEECCEEEEEE
Confidence 99999999999999999999999987765322236899999999999999998633455557779999999999999999
Q ss_pred eccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECC-EEEEEEecCCcceeEEEEeec
Q psy13355 240 LIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPN-YLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 240 li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~-~l~l~~~~~d~G~a~e~~~~~ 313 (314)
+++|+||||++++|.++.+.+.++|.+|+++|+|++++++++.+.|.|.++++ .|++++.+++.|+++|++++.
T Consensus 236 li~g~yP~y~~vip~~~~~~~~i~~~~L~~al~rv~~~~~~~~~~v~~~~~~~~~l~i~~~~~~~g~~~e~i~~~ 310 (367)
T TIGR00663 236 LIEGNYPDYKSVIPKEQKNSFTVNREELKEAIKRVSLLADEKRNLVLTLSENGKKLKESSDTQEIGEAEEEIEVA 310 (367)
T ss_pred EeeccCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHhcCCCceEEEEECCCCeEEEEEcCCCCccEEEEEEEE
Confidence 99999999999999988899999999999999999999877778999999999 999999999999999999874
No 12
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=100.00 E-value=2.1e-57 Score=420.72 Aligned_cols=292 Identities=34% Similarity=0.570 Sum_probs=273.3
Q ss_pred hhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCCCCCcEEEEEeCCE
Q psy13355 19 VISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLPETEKVTIYIENKH 98 (314)
Q Consensus 19 v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~~~~~v~l~~~~~~ 98 (314)
+++++++|++.|+|+|++|++++++|+++|||++++++.++++++..++|+++||+++|.+++|+||++. |+++.+++.
T Consensus 1 ~~~~v~~k~~~piL~~ill~a~~~~l~l~atd~e~~i~~~i~~~~~~~~G~~~v~a~~l~~ivk~lp~~~-i~~~~~~~~ 79 (345)
T smart00480 1 VSRVISNRNTIPILSNILLEAKDDGLTLTATDLEISIKSSISAEVEDEEGSVTVPAKKFLDIVRKLPDKE-ITLSVEEDK 79 (345)
T ss_pred CccccCCCCChhHhcCEEEEEECCEEEEEEECCceEEEEEEEeeEccCCeEEEEEhHHHHHHHHhCCCCc-eEEEEcCCE
Confidence 4678999999999999999999999999999999999999998774258999999999999999999875 999998889
Q ss_pred EEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccc
Q psy13355 99 MFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGH 178 (314)
Q Consensus 99 l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~ 178 (314)
+.|+||+++|+++++++++||.++..+. ...+.++++.|.++++++.+|++++++||+|+||+|+.++|.|.++|||||
T Consensus 80 l~i~~~~~~~~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l~lvATDg~ 158 (345)
T smart00480 80 LVITSGKSRFNLPTLDAEEFPELPFIEE-GVTFELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGH 158 (345)
T ss_pred EEEEECcEEEEecCCCHHHCCCCCCcCC-CcEEEECHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEEEEEEEcCc
Confidence 9999999999999999999999999886 679999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEEeccccCCCcccccccCcce
Q psy13355 179 RLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKLIDGKFLDYKYVISNKYEK 258 (314)
Q Consensus 179 Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~g~yP~~~~v~p~~~~~ 258 (314)
|++..+++++...+ ++.++||++.+.++.|.|++.++.|+|+++++++.|++++.+|.+|+++|+||+|++++|.++..
T Consensus 159 rla~~~~~~~~~~~-~~~~ivP~k~l~el~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~g~fP~~~~vip~~~~~ 237 (345)
T smart00480 159 RLAVREIKLESEED-DFSVIIPRKSLLELNKLLTDNEELVEIFISSNQILFETGNVIFTSRLIDGEFPDYKRVIPKEFET 237 (345)
T ss_pred eEEEEEeccCCCCC-cceEEEehHHHHHHHHhccCCCCcEEEEEeCCEEEEEECCEEEEEEEeeecCCCchhhCCCCCCE
Confidence 99999988764322 57899999999999999985456899999999999999999999999999999999999998889
Q ss_pred EEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 259 SFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 259 ~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
.+.+++.+|+++++|+.++++++.++|.|++++++|+++++++|.|+++|++++.
T Consensus 238 ~~~i~~~~L~~ai~rv~~~~~~~~~~v~l~~~~~~l~~~a~d~~~g~~~e~i~~~ 292 (345)
T smart00480 238 KLTVNRKELKEALKRVALLANEKNRSVKLTLEEGQLKLTANSPEVGEAEEEVDVD 292 (345)
T ss_pred EEEEEHHHHHHHHHHHhhhhcCCCceEEEEEeCCEEEEEEcCCccceEEEEEEEE
Confidence 9999999999999999999876678999999999999999999999999999874
No 13
>PRK14943 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=9.5e-57 Score=420.48 Aligned_cols=307 Identities=28% Similarity=0.478 Sum_probs=287.4
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+++.|.++|+++.+++++++..|+|+|++|++++++|+++|||+++++++++++++. ++|+++||+|.|.++
T Consensus 1 Mk~--~i~~~~L~~~l~~v~~~v~~~~~~piL~gill~~~~~~l~l~aTD~~~~~~~~~~~~~~-~~g~~~vpak~l~ei 77 (374)
T PRK14943 1 MKF--KINKDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVIKANVL-REGTVTLPVKKLATI 77 (374)
T ss_pred CEE--EEEHHHHHHHHHHHHhHhCCCCChHHhcCEEEEEECCEEEEEEECccEEEEEEEEeeec-cCeEEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999887 789999999999999
Q ss_pred HhcCCCCCcEEEEEe-CCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceee
Q psy13355 81 LRSLPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (314)
Q Consensus 81 ik~l~~~~~v~l~~~-~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~ 159 (314)
+|+||+++ |+++.+ ++++.+++|+++|++.+++.++||.+|..+. ..++.++++.|.++++++.+|++.++++|+|+
T Consensus 78 ~k~l~~~~-i~i~~~~~~~~~i~~~~~~~~l~~l~~~~fP~~p~~~~-~~~~~i~~~~l~~~i~~v~~a~s~~~~~~~L~ 155 (374)
T PRK14943 78 VRELPEAE-VQVDANQNNQAKVESGGSQFKIMGIPAEEFPPLPSFEQ-ATVFQLEQSELRDMLKSVEYAQSTDETRYILN 155 (374)
T ss_pred HHhCCCCc-eEEEEcCCCeEEEEECCEEEEEccCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhhEeEEeccCcCCcceE
Confidence 99999875 999986 6799999999999999999999999998765 67899999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEE--------
Q psy13355 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIF-------- 231 (314)
Q Consensus 160 gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~-------- 231 (314)
||+|++++|.|+++||||||++..+.+.+...+.++++++|++.+.++.|+|++ +++|++.++++++.|.+
T Consensus 156 gv~l~~~~~~l~l~aTDg~rla~~~~~~~~~~~~~~~~ivp~k~l~~l~~~l~~-~~~V~i~~~~~~~~f~~~~~~~~~~ 234 (374)
T PRK14943 156 GVYFNFRDGKLTLVATDGRRLALAETELEFPEDQAGDAILPAKTVGELRRLLDK-GGKLKIRFNDRQAAFEISIGEDSSG 234 (374)
T ss_pred EEEEEEeCCEEEEEEecchhEEEEEeccCCCCCcCceEEEehhHHHHHHHhCCC-CCcEEEEEeCCEEEEEEeccccccc
Confidence 999999999999999999999998887653222367899999999999999985 57899999999998988
Q ss_pred --CCEEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEE
Q psy13355 232 --SNIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASST 309 (314)
Q Consensus 232 --~~~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~ 309 (314)
++.++.+++++|+||||++++|.++...+.+++.+|+++|+|+.++++++++.|.|+++++.|++++.++|.|+++|+
T Consensus 235 ~~~~~~~~~~li~g~fP~y~~vip~~~~~~~~i~~~~l~~al~r~~~~~~~~~~~v~l~~~~~~l~i~~~~~e~G~~~e~ 314 (374)
T PRK14943 235 LANDTYLISKLVEGNYPNYRQVIPKETKERIKLERELLLECVHRAALVSSDKSNSVKLKFSENLLEIASSSEGVGEAHES 314 (374)
T ss_pred cCCCEEEEEEEeeecCCChHHhCCCCCCeEEEEEHHHHHHHHHHHHhhcccCCceEEEEEECCEEEEEEcCCCCceEEEE
Confidence 888999999999999999999998889999999999999999999988778889999999999999999999999999
Q ss_pred Eeec
Q psy13355 310 DLIY 313 (314)
Q Consensus 310 ~~~~ 313 (314)
+++.
T Consensus 315 i~~~ 318 (374)
T PRK14943 315 MAIT 318 (374)
T ss_pred EEEE
Confidence 9873
No 14
>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=1.1e-50 Score=378.66 Aligned_cols=307 Identities=35% Similarity=0.587 Sum_probs=286.4
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEee-eeccceEEEEechHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVG-YGNSSINIIVAARKFID 79 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~-~~~~~G~~~v~~k~l~~ 79 (314)
||| +|++++|.++|+++.+++++++..|+|+|+++++.+++|+++|||+++.++++++++ .. ++|+++||+|.+.+
T Consensus 1 M~~--~i~~~~l~~~i~~~~~~~~~~~~~p~L~gvl~e~~~~~l~~~atd~~~~~~~~~~~~~~~-~~g~~~vp~k~l~~ 77 (365)
T cd00140 1 MKF--TINREALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEEVE-EEGSVTVPAKKLLD 77 (365)
T ss_pred CEE--EEEHHHHHHHHHHHHhHhCCCCChhHhcCEEEEEECCEEEEEEecceEEEEEEEeceecc-cCeEEEEEhHHHHH
Confidence 999 999999999999999999999999999999999999999999999999999999988 54 78999999999999
Q ss_pred HHhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccccccceee
Q psy13355 80 ILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (314)
Q Consensus 80 iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~ 159 (314)
++|.++++. |+++.+++.+.|++|+++|.++.+++++||.++..+. ..++.++++.|.++++++.+++++++++|+|+
T Consensus 78 i~k~l~~~~-v~i~~~~~~l~i~~g~~~~~~~~~~~~~fP~~~~~~~-~~~~~i~~~~l~~~l~~v~~~~~~~~~~~~l~ 155 (365)
T cd00140 78 IVRKLPDEE-VTLETEENRLTIKSGKSRFSLNTLPAEEFPELPEIEN-GSSFTIPASELKELIKKTAFAVSTDETRPILN 155 (365)
T ss_pred HHHhCCCCc-EEEEEcCCEEEEEECcEEEEEcCCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhhEEEEecCccCcccce
Confidence 999999875 9999999999999999999999999889999999865 78999999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEE
Q psy13355 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISK 239 (314)
Q Consensus 160 gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~ 239 (314)
||+|++++|.+.++|||+||++...++++.....++.+++|++.+.+++|.++..++.|+++++++++.|++++.+|+++
T Consensus 156 gI~~~~~~~~l~l~atD~~~~~~~~~~~~~~~~~~~~~~i~~~~l~~l~k~l~~~~~~v~i~~~~~~l~i~~~~~~~~~~ 235 (365)
T cd00140 156 GVLLEIEDNKLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNELLKLLEDDDEEVEISISENQILFKLGNTTFTSR 235 (365)
T ss_pred EEEEEEECCEEEEEEEcCceEEEEEeecCCCCccCceEEEechHHHHHHHhccCCCCcEEEEEeCCEEEEEECCEEEEEE
Confidence 99999999999999999999999998877422237899999999999999997223789999999999999999999999
Q ss_pred eccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 240 LIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 240 li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
+++|+||+|++++|..+...+.+++.+|.++++|+.+++++..++|.|++++++|++++++++.|.++++++.
T Consensus 236 li~~~yP~~~~~ip~~~~~~~~i~~~~L~~~l~~~~~~~~~~~~~v~l~~~~~~l~~~a~~~~~~~~~~~~~~ 308 (365)
T cd00140 236 LIEGEFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSNEKNRGVKLEISEGQLKLSANNPEIGEAEEELEV 308 (365)
T ss_pred EEeeECCCchhcCCCCCcEEEEEEHHHHHHHHHHHhhhhccCCceEEEEEeCCEEEEEEcCCCCceEEEEEEE
Confidence 9999999999999988889999999999999999999987667899999999999999999888999988764
No 15
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=100.00 E-value=5.3e-50 Score=371.65 Aligned_cols=304 Identities=31% Similarity=0.503 Sum_probs=287.2
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|+|+.|.++|+++++++++|++.|+|+|++|++++++|+++|||+++++.+++++++. .+|.+++++|.|.++
T Consensus 1 mk~--~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~~l~~~~td~ei~~~~~i~~~v~-~~g~~~v~~k~l~di 77 (364)
T COG0592 1 MKF--SIERENLLKALQLVSRIVESRPTIPILSNVLIEAKENGLTLTGTDLEISLEARIPAEVE-AEGEVAVPAKKLLDI 77 (364)
T ss_pred CEE--EEEHHHHHHHHHHHHhhccCCCCChhhhcEEEEEECCeEEEEEecceEEEEEEEEEEEe-cceeEEEEhHHHHHH
Confidence 999 99999999999999999999999999999999999999999999999999999999987 899999999999999
Q ss_pred HhcCCCCCcEEEEEe-CCE-EEEEECCeEEEEecCCCCCCCCCcCCCCCceEEEEeHHHHHHHHhhhcccccccccccee
Q psy13355 81 LRSLPETEKVTIYIE-NKH-MFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (314)
Q Consensus 81 ik~l~~~~~v~l~~~-~~~-l~I~~g~~~~~l~~~~~~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l 158 (314)
+++|+++. +.+... +.. +.|.+|+++|.+.++|.++||+++...+ ...+.++.+.|+++++++.|+++.+++++.+
T Consensus 78 i~~L~de~-~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~-~~~~~l~~~~Lk~ii~~~~fa~~~~e~~~~l 155 (364)
T COG0592 78 ISKLPDEA-VFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEE-EVEFGLPTELLKKIIKRTKFADSLLETRYEL 155 (364)
T ss_pred HHhCCCCc-eEEEEecCCceEEEecCceEEEcCCCCHHHCCCCCCCCc-CceEEecHHHHHHHHhheeecccchhhhhhc
Confidence 99999996 555544 444 8999999999999999999999999987 5679999999999999999999999999999
Q ss_pred eeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEE
Q psy13355 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIIS 238 (314)
Q Consensus 159 ~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~ 238 (314)
+||+|++.++.++++|||||||+....+.+.... +.+++||++.+.++.|++++. + +.+...++++.|..++..+.+
T Consensus 156 ngv~~~i~~~~l~~vatd~~rla~~~~~~~~~~~-~~~viIp~k~l~el~k~~~d~-~-~~~~~~sd~i~f~~~~~~~~s 232 (364)
T COG0592 156 NGVLLEIEGTKLRLVATDGHRLAVEELEIPELEE-DASVIIPAKTLKELIKLLKDA-D-VEIFLVSDQIRFKAGETILFS 232 (364)
T ss_pred ccEEEEEECCEEEEEEECCceEEEEEeccccCCC-CccEEEEhhHHHHHHHhCCCC-C-eEEEEcCCeEEEEECCEEEEE
Confidence 9999999999999999999999999999987544 599999999999999999873 3 999999999999999999999
Q ss_pred EeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 239 KLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 239 ~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
++++|+||||++++|.+++..+.+++.+|.++++|+..++..+.+.+.+.+.++.+++++.+++.|+++|+++.
T Consensus 233 ~lieG~fpd~~~vip~~~~~~~~l~~~el~~al~r~~~l~~~~~~~~~~~~~~~~v~i~~~~~~~g~~~eei~~ 306 (364)
T COG0592 233 KLIEGEFPDYERVIPKEFEKELTLDRLELKEALKRVYSLSYLKDRGKKLSLADGEVKLSLGNDEPGKAEEEIDV 306 (364)
T ss_pred EEecccCCChhhcCCCCCceEEEEeHHHHHHHHHHHHHHHhcccCceEEEeeCCeEEEEecCCCccceEEEEEe
Confidence 99999999999999999999999999999999999999998888888898888999999999999999999985
No 16
>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of 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, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....
Probab=99.96 E-value=3.3e-28 Score=191.43 Aligned_cols=120 Identities=37% Similarity=0.629 Sum_probs=109.1
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
||| +|++++|.++|+.+++++++|++.|+|+||+|++++++|+++|||++++++++++++...++|+++|||+.|.++
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~i~~~i~~~~~~~~G~~~v~ak~l~~i 78 (120)
T PF00712_consen 1 MKF--TINKEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEISIRTTIPAEIEEEEGSILVPAKKLFDI 78 (120)
T ss_dssp EEE--EEEHHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEETEEEEE-EEEEEEHHHHHHH
T ss_pred CEE--EEEHHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEEEEEEEeceeecCCeEEEEEhHHHHHH
Confidence 999 999999999999999999999999999999999999999999999999999999998865799999999999999
Q ss_pred HhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCc
Q psy13355 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMT 122 (314)
Q Consensus 81 ik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~ 122 (314)
+|+||++..|+|+.+++.+.|++|+++|+|+++++++||.+|
T Consensus 79 vk~lp~~~~I~i~~~~~~l~I~~~~~~f~l~~~~~~dfP~lp 120 (120)
T PF00712_consen 79 VKKLPDDEEITIEVEENKLTIKSGKSRFKLPTLDAEDFPELP 120 (120)
T ss_dssp HHHSSSTSEEEEEEETTEEEEEETTEEEEEE-BEGGGS----
T ss_pred HHhCCCCCeEEEEEeCCEEEEEECCEEEEEcCCCHHHcCCCC
Confidence 999999445999999999999999999999999999999986
No 17
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of 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, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=99.96 E-value=9.2e-28 Score=187.86 Aligned_cols=116 Identities=36% Similarity=0.609 Sum_probs=103.5
Q ss_pred EEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHhhh
Q psy13355 132 TLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLL 211 (314)
Q Consensus 132 ~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l 211 (314)
+++++.|+++|+++.||++++++||+|+||+|+++++.|.++|||||||++.+.+++...+.+.+++||++.+.++.|++
T Consensus 1 ~i~~~~l~~~i~~v~fa~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIp~k~l~~l~k~l 80 (116)
T PF02767_consen 1 QIPAKELKEAIKKVAFAASKDESRPILNGVLFEIENNKLRLVATDGHRLAVREIELDEENEDEFSFIIPAKALKELKKLL 80 (116)
T ss_dssp EEEHHHHHHHHHHHGGGS-SSTTSGGGGEEEEEEETTEEEEEEEESSEEEEEEEEEEEECESEEEEEEEHHHHHHHHHHS
T ss_pred CcCHHHHHHHHhheeEEEecCCCCceeeeEEEEEECCEEEEEEeCCceEEEEEEecCcccccceEEEEechHHHHHhhhc
Confidence 58999999999999999999999999999999999999999999999999999998864433589999999999999999
Q ss_pred cCCCCcEEEEEeCcEEEEEECCEEEEEEeccccCCC
Q psy13355 212 ENKENPVELKISNNQIKIIFSNIEIISKLIDGKFLD 247 (314)
Q Consensus 212 ~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~g~yP~ 247 (314)
++.++.|+|+++++++.|+++++++++|+++|+|||
T Consensus 81 ~~~~~~v~i~~~~~~i~f~~~~~~~~srli~g~yPd 116 (116)
T PF02767_consen 81 SDEDEEVEISISDNQIIFKFDNIEITSRLIDGEYPD 116 (116)
T ss_dssp STTSSEEEEEEESSEEEEEESSEEEEEE-BSS----
T ss_pred ccCCceEEEEEcCCEEEEEECCEEEEEEEecccCCC
Confidence 876789999999999999999999999999999997
No 18
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=99.94 E-value=2.3e-25 Score=208.26 Aligned_cols=220 Identities=14% Similarity=0.231 Sum_probs=188.1
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeee-ccceEEEEechHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYG-NSSINIIVAARKFID 79 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~-~~~G~~~v~~k~l~~ 79 (314)
|+| +++++.|.++|+++..++++++..|+|+||++++++++|++.|||+++.+.+.++.+.. .++|.++||++.|.+
T Consensus 127 ~~~--~i~~~~l~~~i~~v~~a~~~~~~~piL~gi~~~~~~~~l~l~aTD~~rl~~~~~~~~~~~~~~~~~~vp~k~l~e 204 (367)
T PRK05643 127 VSF--TLPQKTLKRLIEKTQFAMSTQETRYYLNGVLLEIEGNELRAVATDGHRLAVRKLELEEGSLGDFSVIIPRKTLLE 204 (367)
T ss_pred cEE--EECHHHHHHHHhheeEEeecCCccccccEEEEEEeCCEEEEEEeccceeEEEEecccCCcccCceEEEchHHHHH
Confidence 578 99999999999999999999999999999999999999999999999999988886542 247999999999999
Q ss_pred HHhcCCCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCC--CCceEEEEeHHHHHHHHhhhccccccccccce
Q psy13355 80 ILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNS--KYDFEFTLSQKTLKCILNMVYFSIAQQDIRYY 157 (314)
Q Consensus 80 iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~--~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~ 157 (314)
++|.++++..|++..+++++.+++|+..|.++.++ ++||+++... +....+.+++..|.++++++.++ ++++.
T Consensus 205 i~k~l~~~~~v~i~~~~~~~~~~~~~~~~~~~li~-g~yP~~~~~ip~~~~~~~~i~~~~L~~~i~rv~~~-~~~~~--- 279 (367)
T PRK05643 205 LQKLLDDEEPVEIFISDNQILFEFGNTIFTSKLID-GKFPDYRRVIPKEFDKKLTVDRKELLQALERASIL-SNEKS--- 279 (367)
T ss_pred HHHhcCCCCcEEEEEeCCEEEEEECCEEEEEEEee-ecCCChhhhCCCCCCEEEEEEHHHHHHHHHHHHHH-hcCCC---
Confidence 99999855459999988899999999999999986 5799986542 23679999999999999999987 44432
Q ss_pred eeeEEEEEECCEEEEEEeccceE-EEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 158 LNGLLLSFQKKNIIAVSSDGHRL-TYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 158 l~gv~l~~~~~~l~~~aTDg~Rl-~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
+||+|++++|.+.++|||++|. +...++++...+ +..+.+|.+++.+++|.+++ ++|.+++.+. -+.++.
T Consensus 280 -~~i~l~~~~~~l~~~a~~~~~g~a~~~i~~~~~g~-~~~i~~n~~yL~d~l~~~~~--~~v~i~~~~~~~p~~i~~ 352 (367)
T PRK05643 280 -RGVKLSLSEGQLKISANNPEQGEAEEELEVEYSGE-ELEIGFNVKYLLDVLKALDS--EEVRLSFNDANSPFLIRP 352 (367)
T ss_pred -ceEEEEEeCCEEEEEEECCCCCcEEEEEEEEecCC-cEEEEEcHHHHHHHHhcCCC--CEEEEEECCCCCCEEEEc
Confidence 7899999999999999999984 677777653323 68999999999999999873 6899998874 355554
No 19
>PRK14945 DNA polymerase III subunit beta; Provisional
Probab=99.94 E-value=1e-24 Score=203.36 Aligned_cols=216 Identities=11% Similarity=0.166 Sum_probs=188.9
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLP 85 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~ 85 (314)
+++++.|.++|+++..++++++..|+|+||++++++++|++.|||+++.+.++++.+.. ++|.++||+|.|.+++|.++
T Consensus 126 ~i~~~~L~~~i~~v~~avs~~~~~piL~gv~l~~~~~~l~lvATDg~rla~~~~~~~~~-~~~~~iip~k~l~el~k~l~ 204 (362)
T PRK14945 126 RLSAGELAKALTHVRYAASNEEFQAIFRGVKLEHSPQGLRAVASDGYRLAIYDLPASQG-QGRKLVIPARSADELVRVLK 204 (362)
T ss_pred EECHHHHHHHHhhEEEEEecccchhheeeEEEEEeCCEEEEEEEccceEEEEEeccCCC-CCceEEEEHHHHHHHHHhcC
Confidence 89999999999999999999999999999999999999999999999999999887655 68999999999999999998
Q ss_pred CCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCC-C-CCceEEEEeHHHHHHHHhhhccccccc-cccceeeeEE
Q psy13355 86 ETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLN-S-KYDFEFTLSQKTLKCILNMVYFSIAQQ-DIRYYLNGLL 162 (314)
Q Consensus 86 ~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~-~-~~~~~~~v~~~~l~~~i~~v~~a~s~~-~~~~~l~gv~ 162 (314)
++++|++..+++++.+++|+.+|++++++ ++||+++.. + +...++.++++.|.++++++.++++.+ ..+ |.
T Consensus 205 ~~~~v~i~~~~~~i~~~~~~~~~~~~lid-g~fP~~~~vip~~~~~~v~i~~~~L~~~l~r~~~~~~~~~~~~-----v~ 278 (362)
T PRK14945 205 DGDEASLALGEGVLTLTTGGVRMNLKLME-GEFPDYERVIPQDFKLQVTLPAEALREAVNRVAVLSDRNANNR-----VE 278 (362)
T ss_pred CCCcEEEEEcCCEEEEEECCEEEEEEeec-ccCCChhhhCCCCCCEEEEEEHHHHHHHHHHHhhhhccCCCcc-----EE
Confidence 76349999888899999999999999998 579999865 2 225789999999999999999887755 333 89
Q ss_pred EEEECCEEEEEEeccceEEEEEEecCCCCC-CcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 163 LSFQKKNIIAVSSDGHRLTYYQVNIDKKFS-SCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 163 l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~-~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
|++++|.|.++|+|+||++..+++++...+ .+..+.+..+++.+.++.+. ++|+|.+.+. -+.|+.
T Consensus 279 l~~~~~~l~~~a~~~~g~a~~~i~~~~~G~~~~~~i~fN~~yl~d~L~~~~---~~v~l~~~~~~~p~~i~~ 347 (362)
T PRK14945 279 LLVAEGRLRLTAEGDYGRGQEELAVTQEGSEPAMALAYNARYLLDALAPIE---GDARLGFSGPTSPSVLRS 347 (362)
T ss_pred EEEECCEEEEEecCCCceEEEEEEEEeecCCCCEEEEECHHHHHHHHHhCC---CcEEEEECCCCCCEEEEe
Confidence 999999999999999999999988874321 26899999999999999885 3599999864 356654
No 20
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=99.93 E-value=4.8e-24 Score=197.65 Aligned_cols=220 Identities=15% Similarity=0.260 Sum_probs=186.0
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
|+| +++++.|.++|+++..+++++...|+|+||++++++++|++.|||+++.+.++++.+...++|.++||+|.|.++
T Consensus 109 ~~~--~i~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l~lvATDg~rla~~~~~~~~~~~~~~~ivP~k~l~el 186 (345)
T smart00480 109 VTF--ELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGHRLAVREIKLESEEDDFSVIIPRKSLLEL 186 (345)
T ss_pred cEE--EECHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEEEEEEEcCceEEEEEeccCCCCCcceEEEehHHHHHH
Confidence 567 999999999999999999999999999999999999999999999999998888876542358999999999999
Q ss_pred HhcCCC-CCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCC--CCceEEEEeHHHHHHHHhhhccccccccccce
Q psy13355 81 LRSLPE-TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNS--KYDFEFTLSQKTLKCILNMVYFSIAQQDIRYY 157 (314)
Q Consensus 81 ik~l~~-~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~--~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~ 157 (314)
+|.+++ ++.|+|..+++++.+++|+.+|.++.++ ++||.++.+. +...++.+++..|.++++++.++++ + +
T Consensus 187 ~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~-g~fP~~~~vip~~~~~~~~i~~~~L~~ai~rv~~~~~-~--~-- 260 (345)
T smart00480 187 NKLLTDNEELVEIFISSNQILFETGNVIFTSRLID-GEFPDYKRVIPKEFETKLTVNRKELKEALKRVALLAN-E--K-- 260 (345)
T ss_pred HHhccCCCCcEEEEEeCCEEEEEECCEEEEEEEee-ecCCCchhhCCCCCCEEEEEEHHHHHHHHHHHhhhhc-C--C--
Confidence 999985 3359999988899999999999999997 4799997752 2367999999999999999998763 2 2
Q ss_pred eeeEEEEEECCEEEEEEeccceE-EEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 158 LNGLLLSFQKKNIIAVSSDGHRL-TYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 158 l~gv~l~~~~~~l~~~aTDg~Rl-~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
++||+|+++++.|.++|||+.+- +...++++...+ +..+.+.+++|.+.++.+.+ +.|.+.+.+. -+.|+.
T Consensus 261 ~~~v~l~~~~~~l~~~a~d~~~g~~~e~i~~~~~g~-~~~i~fN~~yL~d~l~~~~~--~~v~l~~~~~~~p~~i~~ 334 (345)
T smart00480 261 NRSVKLTLEEGQLKLTANSPEVGEAEEEVDVDYEGE-DLEIAFNPKYLLDALKALKS--EEIELKFTDSSSPFLISP 334 (345)
T ss_pred CceEEEEEeCCEEEEEEcCCccceEEEEEEEEecCC-cEEEEECHHHHHHHHhcCCC--CEEEEEECCCCCCEEEEc
Confidence 68999999999999999998753 333455543222 68999999999999999864 6899999864 355543
No 21
>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=99.93 E-value=9.8e-24 Score=196.95 Aligned_cols=219 Identities=16% Similarity=0.249 Sum_probs=187.2
Q ss_pred eEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeee-eccceEEEEechHHHHH
Q psy13355 2 QLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGY-GNSSINIIVAARKFIDI 80 (314)
Q Consensus 2 k~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~-~~~~G~~~v~~k~l~~i 80 (314)
+| +++++.|.++|++++.+++.+...|+|+||++++++++|++.|||++..+...++... ..+++.+++|++.|.++
T Consensus 126 ~~--~i~~~~l~~~l~~v~~~~~~~~~~~~l~gI~~~~~~~~l~l~atD~~~~~~~~~~~~~~~~~~~~~~i~~~~l~~l 203 (365)
T cd00140 126 SF--TIPASELKELIKKTAFAVSTDETRPILNGVLLEIEDNKLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNEL 203 (365)
T ss_pred EE--EECHHHHHHHHhhEEEEecCccCcccceEEEEEEECCEEEEEEEcCceEEEEEeecCCCCccCceEEEechHHHHH
Confidence 46 9999999999999999998889999999999999999999999999998888877654 12689999999999999
Q ss_pred HhcCC--CCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCC-C-CCceEEEEeHHHHHHHHhhhccccccccccc
Q psy13355 81 LRSLP--ETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLN-S-KYDFEFTLSQKTLKCILNMVYFSIAQQDIRY 156 (314)
Q Consensus 81 ik~l~--~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~-~-~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~ 156 (314)
+|.++ ++. |++...++.+.|++|+..|+++.++. +||+++.. + .....+.++++.|.++++++.++++ +.
T Consensus 204 ~k~l~~~~~~-v~i~~~~~~l~i~~~~~~~~~~li~~-~yP~~~~~ip~~~~~~~~i~~~~L~~~l~~~~~~~~-~~--- 277 (365)
T cd00140 204 LKLLEDDDEE-VEISISENQILFKLGNTTFTSRLIEG-EFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSN-EK--- 277 (365)
T ss_pred HHhccCCCCc-EEEEEeCCEEEEEECCEEEEEEEEee-ECCCchhcCCCCCcEEEEEEHHHHHHHHHHHhhhhc-cC---
Confidence 99998 664 99999888999999999999999984 69998764 2 1367899999999999999998876 22
Q ss_pred eeeeEEEEEECCEEEEEEeccc-eEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEEC
Q psy13355 157 YLNGLLLSFQKKNIIAVSSDGH-RLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIFS 232 (314)
Q Consensus 157 ~l~gv~l~~~~~~l~~~aTDg~-Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~~ 232 (314)
.+||+|++++|.+.++|||++ |.+...++.+...+ +..+++|.++|.+++|.+++ +.|+|++.+. -+.++..
T Consensus 278 -~~~v~l~~~~~~l~~~a~~~~~~~~~~~~~~~~~g~-~~~i~~~~~yL~d~lk~~~~--~~v~i~~~~~~~p~~i~~~ 352 (365)
T cd00140 278 -NRGVKLEISEGQLKLSANNPEIGEAEEELEVEYEGE-ELEIGFNPKYLLDALKAIDS--EEVRLSFTDSNSPVLITPE 352 (365)
T ss_pred -CceEEEEEeCCEEEEEEcCCCCceEEEEEEEEecCC-cEEEEECHHHHHHHHhcCCC--CEEEEEECCCCCCEEEEcC
Confidence 379999999999999999997 77777776653222 67999999999999999964 6899998875 3566554
No 22
>TIGR00663 dnan DNA polymerase III, beta subunit. University).
Probab=99.91 E-value=3.5e-23 Score=193.49 Aligned_cols=166 Identities=14% Similarity=0.203 Sum_probs=150.8
Q ss_pred EEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEe-cCCCCCCcceEEEehhhHHHHH
Q psy13355 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVN-IDKKFSSCSDIIIPRKTVFTLQ 208 (314)
Q Consensus 130 ~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~-~~~~~~~~~~~iip~~~l~~l~ 208 (314)
+|.+++..|.++|+++.+++++++++|+|+||+|+++++.|.++|||+||++..+++ ... . +++.++||++.+.++.
T Consensus 2 k~~i~~~~L~~~l~~v~~~i~~~~~~piL~gvlle~~~~~l~l~atD~~~~~~~~~~~~~~-~-~~g~~~vp~k~l~ei~ 79 (367)
T TIGR00663 2 KFIIERDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIFTINS-E-QEGSVTINAKKFLDIV 79 (367)
T ss_pred EEEEEHHHHHHHHHHHHhHhcCCCchhhhcCEEEEEECCEEEEEEECCceEEEEEEecccc-c-cCeEEEEEhHHHHHHH
Confidence 688999999999999999999999999999999999999999999999999999885 443 2 3689999999999999
Q ss_pred hhhcCCCCcEEEEEeCcEEEEEECCEEEEEEecc-ccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCC-----
Q psy13355 209 RLLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL----- 282 (314)
Q Consensus 209 k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~-g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~----- 282 (314)
|.|++ ++|++..+++++.|++++..|.+++++ ++||+|+++.| ...+.+++.+|.++++|+.++++++.
T Consensus 80 k~l~~--~~i~i~~~~~~l~i~~~~~~~~~~~l~~~~fP~~~~~~~---~~~~~i~~~~l~~~i~~v~~a~~~~~~r~~L 154 (367)
T TIGR00663 80 RALPD--SKITLEVKNDKLAITSEKSRFKLPTLSAEEFPNLPTIEE---GVSIEIPSDVLKEAINQTAFAAGEDETRPVL 154 (367)
T ss_pred HhCCC--CceEEEEcCCEEEEEECcEEEEecCCCHHHCCCCCCcCC---CcEEEECHHHHHHHHhhEEEEEecCCCCccc
Confidence 99984 689999999999999999999999998 69999999865 45889999999999999999875432
Q ss_pred CeEEEEEECCEEEEEEecCC
Q psy13355 283 KGVRLVIKPNYLKITVSSSN 302 (314)
Q Consensus 283 ~~v~l~~~~~~l~l~~~~~d 302 (314)
++|.|+++++.|++.++|+.
T Consensus 155 ~gi~~~~~~~~l~~~atDg~ 174 (367)
T TIGR00663 155 NGVLIEQKGKTLLLVATDGH 174 (367)
T ss_pred ceEEEEEeCCEEEEEEecch
Confidence 78999999999999999987
No 23
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=99.89 E-value=1.9e-21 Score=182.18 Aligned_cols=215 Identities=15% Similarity=0.185 Sum_probs=176.1
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecC-eEEEEE--EEEeeeeccceEEEEechHHHHHHh
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDT-EVQITT--YTAVGYGNSSINIIVAARKFIDILR 82 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~-~~~~~~--~~~~~~~~~~G~~~v~~k~l~~iik 82 (314)
+|+++.|.++|+++.++++++...|+|+||+++++++.|++.|||+ ++++.. ..+.... ++|+++||+|.|.+++|
T Consensus 126 ~i~~~~L~~~i~~v~~a~s~~~~~piL~gV~l~~~~~~L~l~ATDg~rLa~~~~~~~~~~~~-~~~~~iIP~k~l~ei~k 204 (376)
T PRK07761 126 TVDADAFAEAVSQVAVAAGRDDTLPMLTGVRVEIEGDTVTLAATDRYRLAVRELTWKPASPD-ISAAALVPARTLSDTAK 204 (376)
T ss_pred EECHHHHHHHHhhEeEEEEcccchhhhceEEEEEeCCEEEEEEECCceEEEEEeccCCCCCC-cceeEEEEhHHHHHHHH
Confidence 7999999999999999999999999999999999999999999995 566543 2233333 57999999999999999
Q ss_pred cCCCCCcEEEEEe-----CCEEEEEECCeEEEEecCCCCCCCCCcCC-CC-CceEEEEeHHHHHHHHhhhcccccccccc
Q psy13355 83 SLPETEKVTIYIE-----NKHMFIKSGKSKFTLQTLDAKEYPIMTLN-SK-YDFEFTLSQKTLKCILNMVYFSIAQQDIR 155 (314)
Q Consensus 83 ~l~~~~~v~l~~~-----~~~l~I~~g~~~~~l~~~~~~~fP~~~~~-~~-~~~~~~v~~~~l~~~i~~v~~a~s~~~~~ 155 (314)
.++++.+|++... ++++.+++|+..|.++.+++ +||.++.+ +. ...++.+++..|.++++++.++++.+
T Consensus 205 ~l~~~~~v~i~~~~~~~~~~~i~~~~~~~~~~~~li~g-~fP~~~~vip~~~~~~~~i~~~~L~~~l~r~~~~~~~~--- 280 (376)
T PRK07761 205 SLGSGGNVSIALSTGVGGEGLIGFEGGGRRTTTRLLDG-EFPKVRRLFPDEHPAVAVVETAPLIEAIKRVALVAERN--- 280 (376)
T ss_pred hcCCCCcEEEEEecCcCCCCEEEEEECCEEEEEEEecc-cCCChHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhcCC---
Confidence 9986545999987 77899999999999999987 99999775 21 24689999999999999999886432
Q ss_pred ceeeeEEEEEECCEEEEEEeccce-EEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 156 YYLNGLLLSFQKKNIIAVSSDGHR-LTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 156 ~~l~gv~l~~~~~~l~~~aTDg~R-l~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
.+|+|+++++.+.+.+.+... -+...++++...+ +..+.+.++++.+.++.+.. +.|.+.+.+. -+.|+.
T Consensus 281 ---~~v~l~~~~~~l~l~~~~~~~G~~~e~i~~~~~Ge-~~~i~fN~~yl~d~L~~~~~--~~v~l~~~~~~~p~~i~~ 353 (376)
T PRK07761 281 ---APVRLEFSDGQLTLSAGGGDDAQASEALEADLTGE-DLTIAFNPQYLLDGLSALHT--PRVRFGFTTPSKPALLTG 353 (376)
T ss_pred ---ceEEEEEeCCEEEEEEcCCCcceEEEEEEEEecCC-cEEEEECHHHHHHHHhcCCC--CeEEEEECCCCCCEEEec
Confidence 369999999999998866432 2444566653333 68999999999999999974 7899999864 366654
No 24
>PRK14943 DNA polymerase III subunit beta; Provisional
Probab=99.88 E-value=2e-21 Score=181.97 Aligned_cols=168 Identities=14% Similarity=0.187 Sum_probs=147.3
Q ss_pred EEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13355 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (314)
Q Consensus 130 ~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k 209 (314)
+|.++++.|.++|+++.+++++++++|+|+||+|+++++.|+++|||+++....+++++.. +++.++||++.+.++.|
T Consensus 2 k~~i~~~~L~~~l~~v~~~v~~~~~~piL~gill~~~~~~l~l~aTD~~~~~~~~~~~~~~--~~g~~~vpak~l~ei~k 79 (374)
T PRK14943 2 KFKINKDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVIKANVL--REGTVTLPVKKLATIVR 79 (374)
T ss_pred EEEEEHHHHHHHHHHHHhHhCCCCChHHhcCEEEEEECCEEEEEEECccEEEEEEEEeeec--cCeEEEEEhHHHHHHHH
Confidence 6889999999999999999999999999999999999999999999999888888877542 26899999999999999
Q ss_pred hhcCCCCcEEEEEe-CcEEEEEECCEEEE-EEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcC-CC----
Q psy13355 210 LLENKENPVELKIS-NNQIKIIFSNIEII-SKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISND-KL---- 282 (314)
Q Consensus 210 ~l~~~~~~v~i~~~-~~~~~~~~~~~~~~-~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~-~~---- 282 (314)
.|++ ++|.+.+. ++++.|++++.+|. ..+.+++||++..+ +....+.+++++|.++++|+...++. ..
T Consensus 80 ~l~~--~~i~i~~~~~~~~~i~~~~~~~~l~~l~~~~fP~~p~~---~~~~~~~i~~~~l~~~i~~v~~a~s~~~~~~~L 154 (374)
T PRK14943 80 ELPE--AEVQVDANQNNQAKVESGGSQFKIMGIPAEEFPPLPSF---EQATVFQLEQSELRDMLKSVEYAQSTDETRYIL 154 (374)
T ss_pred hCCC--CceEEEEcCCCeEEEEECCEEEEEccCCHHHCCCCCCC---CCCcEEEECHHHHHHHHhhEeEEeccCcCCcce
Confidence 9985 68999986 67899999999999 45667999994432 56678999999999999999987643 33
Q ss_pred CeEEEEEECCEEEEEEecCCcc
Q psy13355 283 KGVRLVIKPNYLKITVSSSNRE 304 (314)
Q Consensus 283 ~~v~l~~~~~~l~l~~~~~d~G 304 (314)
++|.|+++++.|+++++|++..
T Consensus 155 ~gv~l~~~~~~l~l~aTDg~rl 176 (374)
T PRK14943 155 NGVYFNFRDGKLTLVATDGRRL 176 (374)
T ss_pred EEEEEEEeCCEEEEEEecchhE
Confidence 5899999999999999998864
No 25
>PRK14941 DNA polymerase III subunit beta; Provisional
Probab=99.88 E-value=2.2e-20 Score=174.67 Aligned_cols=216 Identities=15% Similarity=0.170 Sum_probs=176.4
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeee-eccceEEEEechHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGY-GNSSINIIVAARKFID 79 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~-~~~~G~~~v~~k~l~~ 79 (314)
|+| ++++..|.++|+++.++++.+..+|+|+|+++++++++|++.|||+++.+.++++.+. ..++|+++||+|.+.
T Consensus 129 ~~~--~i~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~l~~~~~~l~lvATDg~Rla~~~~~~~~~~~~~~~~iiP~k~l~- 205 (374)
T PRK14941 129 ISL--DLETSELLDLIQKTIFACSVDGMRPAMMGVLFELEGNTITAVSTDGHRLVRCRKNSSVGVEEKQKIVVPARVLS- 205 (374)
T ss_pred eEE--EECHHHHHHHHhheeEEEecccchhhhceEEEEEeCCEEEEEEecCeeEEEEEecccCCccccceEEechHHHH-
Confidence 567 9999999999999999999999999999999999999999999999999998886632 125689999999985
Q ss_pred HHhcCCCCCcEEEEEe--CCEEEEEECCeEEEEecCCCCCCCCCcCCC--CCceEEEEeHHHHHHHHhhhcccccccccc
Q psy13355 80 ILRSLPETEKVTIYIE--NKHMFIKSGKSKFTLQTLDAKEYPIMTLNS--KYDFEFTLSQKTLKCILNMVYFSIAQQDIR 155 (314)
Q Consensus 80 iik~l~~~~~v~l~~~--~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~--~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~ 155 (314)
.+++++++.++++... ++++.+++|+..|. ..+..++||+++.+- +....+.+++..|.++++++.++++.
T Consensus 206 el~kll~~~~v~i~~~~~~~~i~~~~~~~~~~-s~Li~g~fPdy~~viP~~~~~~i~i~~~~L~~al~rv~~~~~~---- 280 (374)
T PRK14941 206 ILQKLAQHETVTMSIDSERRFVRFICGNVVLD-AALIVEPYPNYEAVIPVENDKKLVINRSNIYDSVKRVGRFSSI---- 280 (374)
T ss_pred HHHHhCCCCceEEEEEcCCCEEEEEECCEEEE-EEEEeecCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHccC----
Confidence 5555554424888876 56899999999999 556678999998852 23679999999999999999988763
Q ss_pred ceeeeEEEEEECCEEEEEEeccce--EEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEE
Q psy13355 156 YYLNGLLLSFQKKNIIAVSSDGHR--LTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKII 230 (314)
Q Consensus 156 ~~l~gv~l~~~~~~l~~~aTDg~R--l~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~ 230 (314)
+++.|.+++|.|.+.|.+... -+..+++++...+ +..+.+..+++.++++.+.+ ++|.|.+.+. -+.|+
T Consensus 281 ---~~v~~~~~~~~l~l~~~~~~~g~~~~e~i~~~~~G~-~~~I~fN~~yl~d~L~~~~~--~~v~l~~~~~~~p~~i~ 353 (374)
T PRK14941 281 ---GDIKISVEGSVLKVMAENTNEGESAQEELPCSYTGE-DITIGFNSKFIEAALAHLDE--EEIIIELSSPTTAVIFK 353 (374)
T ss_pred ---CceEEEEECCEEEEEEECcccccceEEEEEeEeCCC-cEEEEEcHHHHHHHHhcCCC--CEEEEEECCCCCCEEEe
Confidence 248899999999998887533 2455677664333 79999999999999999964 7899999864 35554
No 26
>PRK14940 DNA polymerase III subunit beta; Provisional
Probab=99.87 E-value=5.5e-20 Score=171.59 Aligned_cols=215 Identities=14% Similarity=0.138 Sum_probs=174.6
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEe--eeeccceEEEEechHHHHHHhc
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV--GYGNSSINIIVAARKFIDILRS 83 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~--~~~~~~G~~~v~~k~l~~iik~ 83 (314)
+|++..|.++|+++..+++.+..+|+|+||++++++|+|++.|||+.+-..++.+. +.. +.|+++||+|.|.++.|.
T Consensus 129 ~i~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~-~~~~viiP~k~l~~l~kl 207 (367)
T PRK14940 129 AIPTKDLREMINQTIFAVSDDETRYFMNGVYVEFQYGNIICVATDGRRLAYIKKKGESSPQ-EFSGVIVPPKILGIINKK 207 (367)
T ss_pred EECHHHHHHHHhhEeEEEcCCCCCceeEEEEEEEeCCEEEEEEEcCceEEEEEeccCCCcc-ccceEEEcHHHHHHHHHh
Confidence 89999999999999999999999999999999999999999999999955544433 333 568899999998855555
Q ss_pred C-CCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCC-CC-CceEEEEeHHHHHHHHhhhccccccccccceeee
Q psy13355 84 L-PETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLN-SK-YDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (314)
Q Consensus 84 l-~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~-~~-~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~g 160 (314)
+ +++ +|++..+++++.+.+|+..|..+.+++ +||+++.+ +. ....+.+++..|.++++++..+++.+.. .
T Consensus 208 l~~~~-~v~i~~~~~~i~f~~~~~~~~~rlidg-~fPdy~~vip~~~~~~~~i~~~~L~~al~R~~~~~~~~~~-----~ 280 (367)
T PRK14940 208 LSPEG-NVTLCITSQNIFFFFGGYKFSSVLIEG-QFPNYKRVIPDHQERSFCVGRVELMEALKRVSLLVEQKSR-----R 280 (367)
T ss_pred cCCCC-cEEEEEeCCEEEEEECCEEEEEEEccc-cccchHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhccCCc-----e
Confidence 4 444 499999988999999999999999988 99999887 42 3678999999999999999987754332 4
Q ss_pred EEEEEECCEEEEEEeccce-EEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 161 LLLSFQKKNIIAVSSDGHR-LTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 161 v~l~~~~~~l~~~aTDg~R-l~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
|.|.+++|.+.+.+.+... -+.-+++++...+ +..+.+..+++.+.++.+.. ++|.+.+.+. -+.++.
T Consensus 281 v~l~~~~~~l~l~~~~~e~G~~~e~i~~~~~Ge-~~~I~fN~~yl~d~L~~i~~--~~v~l~~~~~~~p~~i~~ 351 (367)
T PRK14940 281 IFLTIQQGLLTLSSQENEIGDAQEEIACAYTGE-EEVIALNYLYLEEPLKVFTS--KEVQVEFTEAAKAITLRP 351 (367)
T ss_pred EEEEEeCCEEEEEEcCCCCccEEEEEEEEecCC-cEEEEECHHHHHHHHhCCCC--CEEEEEECCCCCCEEEEe
Confidence 9999999999998876432 2444566553333 78999999999999999964 7899998864 355554
No 27
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=99.86 E-value=4.8e-20 Score=163.13 Aligned_cols=162 Identities=13% Similarity=0.182 Sum_probs=138.5
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCC------CcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFS------SCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~------~~~~~iip~~~l~~l 207 (314)
++..|+++++... ....+++|+++++++.++||||||++...+.++.... .+..+.+|.+.+.++
T Consensus 8 ~~~~lk~i~~~i~---------~l~~~v~~~~~~~~l~~~atD~~Rla~~~~~~~~~~f~~~~~~~~~~~~v~l~~l~~i 78 (247)
T PRK01115 8 DAKDFKYIIDAIS---------KLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKIGVDLEDLKKI 78 (247)
T ss_pred chHHHHHHHHHHH---------HHhceEEEEECCCcEEEEEECCccEEEEEEEeCHHhCccEecCCCeEEEEEHHHHHHH
Confidence 5566777666554 2566899999999999999999999999998863211 123477888888888
Q ss_pred HhhhcCCCCcEEEEE--eCcEEEEEECC---EEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcCCC
Q psy13355 208 QRLLENKENPVELKI--SNNQIKIIFSN---IEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL 282 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~--~~~~~~~~~~~---~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~ 282 (314)
+|.+.+ ++.+.|++ +++++.|.+++ .+|.+|+++|+||+ .+++|.+++..+.+++.+|.++++|+..+++
T Consensus 79 l~~~~~-~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~Lieg~~p~-~~v~p~~~~~~i~~~~~~l~~~~~r~~~~~~--- 153 (247)
T PRK01115 79 LKRAKK-GDKLELELDEEENKLKITFGGEKTREFSLPLLDVSSEE-PPEPNLELPVKAVILGDDLKDAIKDAELVSD--- 153 (247)
T ss_pred HhhCCC-CCEEEEEEcCCCCEEEEEEecCcEEEEEEEeeccCCCC-CCCCCCcccEEEEEEHHHHHHHHHHHHhcCC---
Confidence 887754 56899999 67999999999 99999999999999 9999999999999999999999999999974
Q ss_pred CeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 283 KGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 283 ~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
.|.|.++++.+++++.+ + |++.++++.
T Consensus 154 -~v~i~~~~~~l~lsa~~-~-g~a~~~i~~ 180 (247)
T PRK01115 154 -HIELEADEDKFYIEAEG-E-GEDEVELSL 180 (247)
T ss_pred -eEEEEEeCCEEEEEEEe-C-CceEEEEec
Confidence 49999999999999998 6 999999984
No 28
>PRK14942 DNA polymerase III subunit beta; Provisional
Probab=99.77 E-value=1.2e-16 Score=149.32 Aligned_cols=216 Identities=13% Similarity=0.182 Sum_probs=175.7
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeec-cceEEEEechHHHHHHhcC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGN-SSINIIVAARKFIDILRSL 84 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~-~~G~~~v~~k~l~~iik~l 84 (314)
.++...|.+++.++..+++....+|+|+|++++.+++.|.+.|||+.+-..+..+.+... ....++||+|.+.++.|.+
T Consensus 136 ~i~~~~L~~~i~~t~fa~s~de~R~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIP~k~l~el~kll 215 (373)
T PRK14942 136 SFPSQLINDMIRKTSYAIAHEDQRFIFNGLYMIPDGTKLIFVGTDGRRLCKIERTLPSPLQFKDSIIVPAKAVREISKMI 215 (373)
T ss_pred EECHHHHHHHHhhEeEEEeccccchhheeEEEEEeCCEEEEEEechHHeEEEecccCCCCCCCceEEEehHHHHHHHHhc
Confidence 899999999999999999999999999999999999999999999998776666553221 2357999999999999999
Q ss_pred CCCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCC--CceEEEEeHHHHHHHHhhhccccccccccceeeeEE
Q psy13355 85 PETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSK--YDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLL 162 (314)
Q Consensus 85 ~~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~--~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~ 162 (314)
++++++.+..+++++.+..|+..+..+.++ +.||++..+-+ ....+.+++.+|..+++++...+ ++.. +.|.
T Consensus 216 ~~~~~v~i~~~~~~i~f~~~~~~~~srLie-G~yPdy~~vIP~~~~~~~~v~r~~l~~al~Rv~~~~-~~~~----~~v~ 289 (373)
T PRK14942 216 ATSETGNIGLIDEQIYVSANNIELLCKLIE-GNFPNYEQVIPKQTKFSVRISKEEFQVSLRQVLTAA-EEPS----RQVR 289 (373)
T ss_pred CCCCcEEEEEcCCEEEEEECCEEEEEEecc-cCCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHh-hcCC----ceEE
Confidence 754459999999999999999999888775 48999977532 35789999999999999998543 4433 3589
Q ss_pred EEEECCEEEEEEeccc-eEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEE
Q psy13355 163 LSFQKKNIIAVSSDGH-RLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKII 230 (314)
Q Consensus 163 l~~~~~~l~~~aTDg~-Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~ 230 (314)
|++++|.|.+.|.+.. .-+.-+++++...+ +..+.+.++++.+.++.+.+ ++|.+.+.+. -+.++
T Consensus 290 l~~~~~~l~isa~~~~~g~~~e~i~~~~~G~-~~~I~fN~~ylld~L~~i~~--~~v~l~~~~~~~P~~i~ 357 (373)
T PRK14942 290 LTFSKNNLNLFAQTLGASEADINMPIEYSGE-EITIAFKGEYLMDIFRSIDD--NEVKIEFSDSSSPVIFK 357 (373)
T ss_pred EEEeCCEEEEEEeCCCcceEEEEEEEEecCC-cEEEEECHHHHHHHHhcCCC--CeEEEEECCCCCCEEEE
Confidence 9999999999887743 33555566653333 79999999999999999864 7899998864 35554
No 29
>PRK14944 DNA polymerase III subunit beta; Provisional
Probab=99.75 E-value=8.7e-16 Score=143.53 Aligned_cols=220 Identities=15% Similarity=0.222 Sum_probs=174.2
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLP 85 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~ 85 (314)
.++...|.++++++..+++....+|+|+|++++.++++|.+.|||+.+-..++.+.+....+.+++||+|.+.++.|.++
T Consensus 132 ~i~~~~l~~~i~~t~fa~s~de~r~~L~Gv~~~~~~~~l~~vATDghRLa~~~~~~~~~~~~~~~iIP~k~l~el~kll~ 211 (375)
T PRK14944 132 EIKTHFFKKIIKEINISTSKNEKRPILTGLNLIYQKNLLKALATDSFRMSQKKIKLDFNYHNFNIVIPNKSLEELSKILE 211 (375)
T ss_pred EECHHHHHHHHhheeEEEccccCccceeEEEEEEECCEEEEEEEccceeEEEEeccCCCCCceEEEEECchHHHHHHHhc
Confidence 89999999999999999999999999999999999999999999999877777665432124579999999999999986
Q ss_pred C--CCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCC--CceEEEEeHHHHHHHHhhhccccccccccceeeeE
Q psy13355 86 E--TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSK--YDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGL 161 (314)
Q Consensus 86 ~--~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~--~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv 161 (314)
+ ++.|.+..+++++.++.|+..+..+.+++ .||++..+-+ ....+.+++..|.++++|+...+..+..+ -+.|
T Consensus 212 ~~~~~~v~i~~~~~~i~f~~~~~~~~srLieG-~fPdy~~viP~~~~~~~~i~r~~l~~al~Rvslls~~~~~~--~~~v 288 (375)
T PRK14944 212 YYQSKNLKIYSDSKKIFLKIDNLWFQTSLLEG-NYPQIQEIKLTNFPFSIHLNKDDLMKALERVSLLFSKEQNN--TNVV 288 (375)
T ss_pred cCCCCcEEEEEcCCEEEEEECCEEEEEEeecc-cCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHhccccCC--CceE
Confidence 3 33599999999999999999999988865 8999977532 35789999999999999998544322111 1259
Q ss_pred EEEEE-CCEEEEEEeccce-EEEEE-EecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 162 LLSFQ-KKNIIAVSSDGHR-LTYYQ-VNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 162 ~l~~~-~~~l~~~aTDg~R-l~~~~-~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
.|.+. ++.|.+.+.+... -+..+ .+++...+ +..+.+..+++.+.++.+.. ++|.+.+.+. -+.++.
T Consensus 289 ~l~~~~~~~l~iss~~~e~G~a~e~i~~~~~~Ge-~~~I~fN~~YL~d~L~~i~~--~~v~i~~~~~~~p~~i~~ 360 (375)
T PRK14944 289 KFILTKEKSIEISSSNESLGTALEKIIPLKVSAN-SFEIAFNAKYLEDILKVLSV--KEIVFYFDSPLKPFIVTT 360 (375)
T ss_pred EEEEcCCCEEEEEEcCcccCeEEEEEecccccCC-cEEEEEcHHHHHHHHhcCCC--CEEEEEECCCCCCEEEEc
Confidence 99995 7888888776543 24344 34443223 79999999999999999964 6899998864 355543
No 30
>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=99.74 E-value=3.8e-16 Score=137.96 Aligned_cols=163 Identities=17% Similarity=0.180 Sum_probs=134.5
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCC------CcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFS------SCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~------~~~~~iip~~~l~~l 207 (314)
+.+.|+++++.... +++|++|++.+++|+++|||++|++...+.++...- .+..+.||.+.+.++
T Consensus 5 ~~~~l~~~~~~l~~---------i~~~v~~~~~~~gl~~~a~d~~r~~~~~~~l~~~~F~~y~~~~~~~~~i~~k~l~~~ 75 (248)
T cd00577 5 NAKLLKKIVDALSK---------LVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKI 75 (248)
T ss_pred chHHHHHHHHHHHH---------HhcEEeEEECCCceEEEEEcCCcEEEEEEEechhhCeEEecCCceEEEEEHHHHHHH
Confidence 34566666666553 457899999999999999999999999888764210 246899999999999
Q ss_pred HhhhcCCCCcEEEEEeCc---EEEEEEC----CEEEEEEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcC
Q psy13355 208 QRLLENKENPVELKISNN---QIKIIFS----NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISND 280 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~~~~---~~~~~~~----~~~~~~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~ 280 (314)
+|.+.. .+.+.|+++++ .+.+..+ ..++.+++++++||+|.. +|.+++..+.+++++|.++++|+..+++
T Consensus 76 lk~~~~-~~~v~i~~~~~~~l~i~~~~~~~~~~~~~~~~li~~~~~~~~~-~~~~~~~~i~i~~~~L~~~i~~~~~~~~- 152 (248)
T cd00577 76 LKCAGN-EDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDIDSEQLPI-PELEYDATVTLPSDELKDIVRDLESISD- 152 (248)
T ss_pred HhhCCC-CCEEEEEecCCCeEEEEEEcCCCceEEEEEEEccccCcccCCC-CCCceeEEEEEEHHHHHHHHHHHHHcCC-
Confidence 999975 57899999988 4555555 578899999999999999 8888999999999999999999999863
Q ss_pred CCCeEEEEEECCEEEEEEecCCcceeEEEEee
Q psy13355 281 KLKGVRLVIKPNYLKITVSSSNREKASSTDLI 312 (314)
Q Consensus 281 ~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~ 312 (314)
.|.|.++++.+++++.+ +.|.+.+.+..
T Consensus 153 ---~i~i~~~~~~l~lss~~-~~~~~~~~~~~ 180 (248)
T cd00577 153 ---SVTISASKDGFKFSAEG-ELGGASVTLLP 180 (248)
T ss_pred ---EEEEEEcCCEEEEEEee-cCCceEEEEec
Confidence 59999999999999887 55666665543
No 31
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=99.73 E-value=1.6e-15 Score=141.92 Aligned_cols=218 Identities=16% Similarity=0.223 Sum_probs=173.9
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLP 85 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~ 85 (314)
.++...|.++++++..+++....+|+|+|++++.+++++.+.|||+.+-..+..+.+.. .+..++||+|.+.++.|.++
T Consensus 135 ~i~~~~L~~~i~kt~fA~s~~e~r~~L~Gv~l~~~~~~l~~vaTDg~RLA~~~~~~~~~-~~~~~iIP~k~l~el~kll~ 213 (376)
T PRK06673 135 QIETKQLIDAFKQTVFAVAKNESRPVLTGVHIELDHNKLICAATDSHRLAIRETLISTN-MKANCIVPSATINELLKLMN 213 (376)
T ss_pred EECHHHHHHHHhhEeEEEecCCCChhceeEEEEEeCCEEEEEEecCceEEEEecccCCC-CCCcEEEEHHHHHHHHHhcc
Confidence 89999999999999999999999999999999999999999999999877777665433 34579999999999999996
Q ss_pred C-CCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCC--CceEEEEeHHHHHHHHhhhccccccccccceeeeEE
Q psy13355 86 E-TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSK--YDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLL 162 (314)
Q Consensus 86 ~-~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~--~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~ 162 (314)
+ ++.|++..+++++.++.|+..+..+.+++ .||.+..+-+ ....+.+++.+|.++++++...+..... ++|.
T Consensus 214 ~~~~~v~i~~~~~~i~f~~~~~~~~srLieG-~fPdy~~vip~~~~~~v~i~r~~l~~al~Rvsi~~~~~~~----~~v~ 288 (376)
T PRK06673 214 SNLEFVSIYLSESHIIFTFGTTTLYSRLIEG-KYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLASEWAN----NNVN 288 (376)
T ss_pred CCCceEEEEEeCCEEEEEECCEEEEEEEecc-cCCChhhcCCCCCcEEEEEEHHHHHHHHHHHHHhhccCCC----CcEE
Confidence 4 23488888999999999999999988865 8999977532 3578999999999999999854432222 3599
Q ss_pred EEE-ECCEEEEEEeccce-EEEEEEecCC-CCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 163 LSF-QKKNIIAVSSDGHR-LTYYQVNIDK-KFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 163 l~~-~~~~l~~~aTDg~R-l~~~~~~~~~-~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
|++ .++.+.+.+.+... -+.-+++++. ..+++..+.+..++|.++++.+.. ++|.+.+.+. -+.++.
T Consensus 289 l~~~~~~~l~i~s~~~e~G~a~e~i~~~~~~Ge~~~~I~fN~~YLld~L~~i~~--e~v~l~~~~~~~p~li~~ 360 (376)
T PRK06673 289 LEIVNESTIQISSNASQIGKISETQQIDAIQGEKQLNISFDGRFMLDALRAIKE--ETVTLSFSGSMRPILIEA 360 (376)
T ss_pred EEEcCCCEEEEEEcCCCCCcEEEEEEeeecCCCccEEEEECHHHHHHHHhcCCC--CEEEEEECCCCCCEEEEc
Confidence 998 67888888765432 2444455542 111158999999999999999864 6899998764 355553
No 32
>PRK14946 DNA polymerase III subunit beta; Provisional
Probab=99.72 E-value=3e-15 Score=139.30 Aligned_cols=214 Identities=13% Similarity=0.159 Sum_probs=170.2
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLP 85 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~ 85 (314)
.++...|.++++++..+++....+|+|.|++++.++++|++.|||+.+-..++.+.+.. .+..++||+|.+.+++..-.
T Consensus 129 ~i~~~~l~~~i~kt~fA~s~de~r~~L~Gv~~~~~~~~l~~vATDg~RLA~~~~~~~~~-~~~~~iIP~k~l~ell~~~~ 207 (366)
T PRK14946 129 TVNAKNLKRAIKNTAFATTNNPNQPILSAINLKSEDNFLHFSATDTIRFASEKIEISNP-SRIDISISAKNLKDFIPPEL 207 (366)
T ss_pred EECHHHHHHHHhhEEEEEeCCCCcccceEEEEEEeCCEEEEEEecchheEEEEeccCCC-CcceEEEeccCHHHHhcccC
Confidence 89999999999999999999899999999999999999999999999877767665433 34679999999999943222
Q ss_pred CCCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCCCcCCCCC----ceEEEEeHHHHHHHHhhhccccccccccceeeeE
Q psy13355 86 ETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKY----DFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGL 161 (314)
Q Consensus 86 ~~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~~~~~~~~----~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv 161 (314)
++ +|.+..+++++.+++|+..+..+.+++ .||.+..+-+. ...+.+++..|.++++|+...++ +.. ++|
T Consensus 208 ~~-~v~i~~~~~~i~f~~~~~~~~srLieG-~fPdy~~viP~~~~~~~~~~i~r~~l~~al~Rvsl~a~-~~~----~~v 280 (366)
T PRK14946 208 DK-DIELFIESSKISYTYDNLTIQSRIFTI-EYKDISNVLPKDSEILYSLTIEKKEILDLIDKATIITP-GKD----NVI 280 (366)
T ss_pred CC-cEEEEEeCCEEEEEECCEEEEEEEecc-cCCCHHHhCCCCCCccEEEEEEHHHHHHHHHHhheeec-CCC----ceE
Confidence 34 499999999999999999999988865 89999776331 25799999999999999986544 332 369
Q ss_pred EEEEECCEEEEEEeccce-EEEEEEe--cCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 162 LLSFQKKNIIAVSSDGHR-LTYYQVN--IDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 162 ~l~~~~~~l~~~aTDg~R-l~~~~~~--~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
.|.++++.|.+.|.+... -+...++ .+...+ +..+.+.+++|.+.++.+. ++|.+.+.+. -+.|+.
T Consensus 281 ~l~~~~~~l~lss~~~e~G~a~e~i~~~~~~~Ge-~~~IafN~~YL~D~L~~i~---~~v~l~~~~~~~p~~i~~ 351 (366)
T PRK14946 281 NFSLSKNELKGYISQYESGQSNVKTKNVLRFSGE-LAQVNVNYKYLKDAISVFD---KVINIFINEKKTKMLIVS 351 (366)
T ss_pred EEEEcCCEEEEEEECCCCceEEEEecccccccCC-cEEEEEcHHHHHHHHHhCC---CeEEEEECCCCCCEEEEC
Confidence 999999999998877543 2344442 322223 7999999999999999985 3599998864 355543
No 33
>PRK14947 DNA polymerase III subunit beta; Provisional
Probab=99.72 E-value=1.6e-15 Score=142.08 Aligned_cols=216 Identities=10% Similarity=0.120 Sum_probs=171.2
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEE-CCEEEEEEecCeEEEEEEEEeee---eccceEEEEechHHHHHH
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKN-SEKISFLSTDTEVQITTYTAVGY---GNSSINIIVAARKFIDIL 81 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~-~~~l~l~atd~~~~~~~~~~~~~---~~~~G~~~v~~k~l~~ii 81 (314)
+++...|.+++.++..+++....+|+|+|++++.. +++|++.|||+.+-..++.+.+. ...+..++||+|.+.++.
T Consensus 129 ~i~~~~L~~~i~~t~fA~s~de~r~~L~Gv~~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~~~iIP~k~l~el~ 208 (384)
T PRK14947 129 VWSGDFLQELIDRIAFCISDEDAMEAIACLKIKPVADNAIEVCGLNGHQFALLRFLNDDIHAKLPQEGILIQKKYLLELK 208 (384)
T ss_pred EECHHHHHHHHhheeeEeeccchhhhhceEEEEEcCCCEEEEEEcCccceEEEEccccccccccCCccEEEechHHHHHH
Confidence 89999999999999999999999999999999974 67899999999987666554321 112347999999999999
Q ss_pred hcCCCCCcEEEEEeCCEEEEEECCe--EEEEecCCCCCCCCCcCCCC-----CceEEEEeHHHHHHHHhhhccccccccc
Q psy13355 82 RSLPETEKVTIYIENKHMFIKSGKS--KFTLQTLDAKEYPIMTLNSK-----YDFEFTLSQKTLKCILNMVYFSIAQQDI 154 (314)
Q Consensus 82 k~l~~~~~v~l~~~~~~l~I~~g~~--~~~l~~~~~~~fP~~~~~~~-----~~~~~~v~~~~l~~~i~~v~~a~s~~~~ 154 (314)
|.+++++ |++...++++.++.|+. .+..+.++ +.||.+..+-+ ....+.+++++|.++++|+...+ ++..
T Consensus 209 kll~~~~-v~i~~~~~~i~f~~~~~~~~~~srLie-G~fPdY~~vIP~~~~~~~~~~~i~r~~l~~al~Rvsi~s-~~~~ 285 (384)
T PRK14947 209 KWLGADE-IELSISEKRLFFRTGDGKETFSLPLSY-YQYPDYMNFLSKLQGDDVSNLEVDRKECMDALDRILIFN-TDNN 285 (384)
T ss_pred HhCCCCc-EEEEEeCCEEEEEECCcEEEEEEEeee-cccCcceeeCCCCCCCCCEEEEEEHHHHHHHHHHHHHHh-cCCC
Confidence 9998765 99999999999999965 66666665 58999977533 13689999999999999998544 3443
Q ss_pred cceeeeEEEEEECCEEEEEEeccce-EEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13355 155 RYYLNGLLLSFQKKNIIAVSSDGHR-LTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (314)
Q Consensus 155 ~~~l~gv~l~~~~~~l~~~aTDg~R-l~~~~~~~~~~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~~~~~ 231 (314)
+ +|.|.+++|.|.+.|.+... -+.-+++++...+ +..+.+..+++.+.++.+.+ ++|.+.+.+. -+.++.
T Consensus 286 ~----~v~l~~~~~~l~iss~~~e~G~a~E~i~~~~~Ge-~~~I~fN~~YL~d~L~~i~~--~~i~l~~~~~~~p~~i~~ 358 (384)
T PRK14947 286 R----CTYFDFGPGELSLSAQGQDVGSATESLEVTYSGD-IKKIAFPTKNLIEILGHFQS--DKITLTLTGAEGPCGITG 358 (384)
T ss_pred c----eEEEEEeCCEEEEEEcCCCCceEEEEEEEEecCC-cEEEEECHHHHHHHHhcCCC--CeEEEEECCCCCCEEEEc
Confidence 3 49999999999998876542 2445566653333 78999999999999999864 7899998864 466653
No 34
>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of 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, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....
Probab=99.62 E-value=1.8e-14 Score=113.20 Aligned_cols=117 Identities=15% Similarity=0.265 Sum_probs=102.8
Q ss_pred EEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13355 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (314)
Q Consensus 130 ~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k 209 (314)
+|.++.+.|.++++.+..+++.+.+.|+|.||+|+++++.|.+.|||...-...+++..... +++.+++|++.+.++.|
T Consensus 2 kf~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~i~~~i~~~~~~-~~G~~~v~ak~l~~ivk 80 (120)
T PF00712_consen 2 KFTINKEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEISIRTTIPAEIEE-EEGSILVPAKKLFDIVK 80 (120)
T ss_dssp EEEEEHHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEETEEEE-E-EEEEEEHHHHHHHHH
T ss_pred EEEEEHHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEEEEEEEeceeec-CCeEEEEEhHHHHHHHH
Confidence 68899999999999999999999999999999999999999999999998888889888642 37999999999999999
Q ss_pred hhcCCCCcEEEEEeCcEEEEEECCEEEEEEecc-ccCCCc
Q psy13355 210 LLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDY 248 (314)
Q Consensus 210 ~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~-g~yP~~ 248 (314)
-|++ ++.|++..+++.+.+++++..|....++ .+||.+
T Consensus 81 ~lp~-~~~I~i~~~~~~l~I~~~~~~f~l~~~~~~dfP~l 119 (120)
T PF00712_consen 81 KLPD-DEEITIEVEENKLTIKSGKSRFKLPTLDAEDFPEL 119 (120)
T ss_dssp HSSS-TSEEEEEEETTEEEEEETTEEEEEE-BEGGGS---
T ss_pred hCCC-CCeEEEEEeCCEEEEEECCEEEEEcCCCHHHcCCC
Confidence 9996 5899999999999999999999988877 799975
No 35
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of 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, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=99.52 E-value=1.3e-12 Score=101.93 Aligned_cols=114 Identities=20% Similarity=0.331 Sum_probs=96.6
Q ss_pred EeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeec-cceEEEEechHHHHHHhcC
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGN-SSINIIVAARKFIDILRSL 84 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~-~~G~~~v~~k~l~~iik~l 84 (314)
+++.+.|.++++++..+++.....|+|+|++++.++++|.+.|||+.+-...+.+.+... ++..++||++.+.++.|.+
T Consensus 1 ~i~~~~l~~~i~~v~fa~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIp~k~l~~l~k~l 80 (116)
T PF02767_consen 1 QIPAKELKEAIKKVAFAASKDESRPILNGVLFEIENNKLRLVATDGHRLAVREIELDEENEDEFSFIIPAKALKELKKLL 80 (116)
T ss_dssp EEEHHHHHHHHHHHGGGS-SSTTSGGGGEEEEEEETTEEEEEEEESSEEEEEEEEEEEECESEEEEEEEHHHHHHHHHHS
T ss_pred CcCHHHHHHHHhheeEEEecCCCCceeeeEEEEEECCEEEEEEeCCceEEEEEEecCcccccceEEEEechHHHHHhhhc
Confidence 468999999999999999998999999999999999999999999998888788776642 2578999999999999999
Q ss_pred CC-CCcEEEEEeCCEEEEEECCeEEEEecCCCCCCCC
Q psy13355 85 PE-TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPI 120 (314)
Q Consensus 85 ~~-~~~v~l~~~~~~l~I~~g~~~~~l~~~~~~~fP~ 120 (314)
++ ++.|+|...++++.+++++..+..+.++. +||+
T Consensus 81 ~~~~~~v~i~~~~~~i~f~~~~~~~~srli~g-~yPd 116 (116)
T PF02767_consen 81 SDEDEEVEISISDNQIIFKFDNIEITSRLIDG-EYPD 116 (116)
T ss_dssp STTSSEEEEEEESSEEEEEESSEEEEEE-BSS-----
T ss_pred ccCCceEEEEEcCCEEEEEECCEEEEEEEecc-cCCC
Confidence 88 33599999999999999999999998865 7985
No 36
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=99.45 E-value=1e-11 Score=115.71 Aligned_cols=177 Identities=14% Similarity=0.173 Sum_probs=144.8
Q ss_pred EEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13355 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (314)
Q Consensus 130 ~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~~~~~~~iip~~~l~~l~k 209 (314)
+|.+..+.|.++++.+..+++++.+.|+|.||++++++++|.+.|||..--....++... ...+.+++|++.+.++.+
T Consensus 2 k~~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~~l~~~~td~ei~~~~~i~~~v--~~~g~~~v~~k~l~dii~ 79 (364)
T COG0592 2 KFSIERENLLKALQLVSRIVESRPTIPILSNVLIEAKENGLTLTGTDLEISLEARIPAEV--EAEGEVAVPAKKLLDIIS 79 (364)
T ss_pred EEEEEHHHHHHHHHHHHhhccCCCCChhhhcEEEEEECCeEEEEEecceEEEEEEEEEEE--ecceeEEEEhHHHHHHHH
Confidence 688999999999999999999999999999999999999999999999866666677773 237999999999999999
Q ss_pred hhcCCCCcEEEEEeCcE-EEEEECCEEEEEEecc-ccCCCcccccccCcceEEEEehHHHHHHHhHHhhhhcC-C----C
Q psy13355 210 LLENKENPVELKISNNQ-IKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISND-K----L 282 (314)
Q Consensus 210 ~l~~~~~~v~i~~~~~~-~~~~~~~~~~~~~li~-g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~-~----~ 282 (314)
-|++ +..+....++.. ..+..+...|....++ ..||+|+..-+. ..+.++...|.++++|+.+..+- . .
T Consensus 80 ~L~d-e~~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~~---~~~~l~~~~Lk~ii~~~~fa~~~~e~~~~l 155 (364)
T COG0592 80 KLPD-EAVFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEEE---VEFGLPTELLKKIIKRTKFADSLLETRYEL 155 (364)
T ss_pred hCCC-CceEEEEecCCceEEEecCceEEEcCCCCHHHCCCCCCCCcC---ceEEecHHHHHHHHhheeecccchhhhhhc
Confidence 9996 233444444444 8899999999866655 799999874433 78999999999999999986422 2 2
Q ss_pred CeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 283 KGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 283 ~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
++|.|.+.++.++..+++ .+--+..+++++
T Consensus 156 ngv~~~i~~~~l~~vatd-~~rla~~~~~~~ 185 (364)
T COG0592 156 NGVLLEIEGTKLRLVATD-GHRLAVEELEIP 185 (364)
T ss_pred ccEEEEEECCEEEEEEEC-CceEEEEEeccc
Confidence 899999999999999887 555566655554
No 37
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=99.41 E-value=3.3e-10 Score=100.26 Aligned_cols=204 Identities=10% Similarity=0.090 Sum_probs=151.3
Q ss_pred Ee-ehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeee--e-----ccceEEEEechHH
Q psy13355 6 NT-EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGY--G-----NSSINIIVAARKF 77 (314)
Q Consensus 6 ~i-~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~--~-----~~~G~~~v~~k~l 77 (314)
.+ +.+.|.+.++.+..++ .+++++..+++|++.|||+..-+.+.+..+. . ..+..+.+|.+.|
T Consensus 5 ~~~~~~~lk~i~~~i~~l~---------~~v~~~~~~~~l~~~atD~~Rla~~~~~~~~~~f~~~~~~~~~~~~v~l~~l 75 (247)
T PRK01115 5 VYPDAKDFKYIIDAISKLV---------DEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKIGVDLEDL 75 (247)
T ss_pred EecchHHHHHHHHHHHHHh---------ceEEEEECCCcEEEEEECCccEEEEEEEeCHHhCccEecCCCeEEEEEHHHH
Confidence 44 4556777777776654 4999999999999999999877666665321 1 1345588999999
Q ss_pred HHHHhcCCCCCcEEEEE--eCCEEEEEECC---eEEEEecCCCCCCCCCcCCCC-CceEEEEeHHHHHHHHhhhcccccc
Q psy13355 78 IDILRSLPETEKVTIYI--ENKHMFIKSGK---SKFTLQTLDAKEYPIMTLNSK-YDFEFTLSQKTLKCILNMVYFSIAQ 151 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~--~~~~l~I~~g~---~~~~l~~~~~~~fP~~~~~~~-~~~~~~v~~~~l~~~i~~v~~a~s~ 151 (314)
.+++|.+.+++.|++.. +++++.+..++ ..|.++.+++ +||+.+.++. ....+.+++..|.++++++... ++
T Consensus 76 ~~il~~~~~~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~Lieg-~~p~~~v~p~~~~~~i~~~~~~l~~~~~r~~~~-~~ 153 (247)
T PRK01115 76 KKILKRAKKGDKLELELDEEENKLKITFGGEKTREFSLPLLDV-SSEEPPEPNLELPVKAVILGDDLKDAIKDAELV-SD 153 (247)
T ss_pred HHHHhhCCCCCEEEEEEcCCCCEEEEEEecCcEEEEEEEeecc-CCCCCCCCCCcccEEEEEEHHHHHHHHHHHHhc-CC
Confidence 99999985544599998 56899999999 8999998875 7898433332 4688999999999999999853 32
Q ss_pred ccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCC------CCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc
Q psy13355 152 QDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDK------KFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN 225 (314)
Q Consensus 152 ~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~------~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~ 225 (314)
.|.|.++++.+.+.|.+. --+...++.+. ..+++..+.+..+++.+++|.++. ++.|.|++.++
T Consensus 154 --------~v~i~~~~~~l~lsa~~~-g~a~~~i~~~~~~~~~~~g~e~~~i~fn~~YL~d~lk~~~~-~~~V~l~~~~~ 223 (247)
T PRK01115 154 --------HIELEADEDKFYIEAEGE-GEDEVELSLDSGPLIELSVEEPAKSSYSLDYLKDMVKATSA-SDEVTIEFGSD 223 (247)
T ss_pred --------eEEEEEeCCEEEEEEEeC-CceEEEEecCCCceEEEEecCceeEEEhHHHHHHhhccccC-CCeEEEEECCC
Confidence 399999999999877763 22444455321 111268899999999999998874 36899998654
Q ss_pred E-EEEE
Q psy13355 226 Q-IKII 230 (314)
Q Consensus 226 ~-~~~~ 230 (314)
. +.++
T Consensus 224 ~P~~l~ 229 (247)
T PRK01115 224 MPLKLE 229 (247)
T ss_pred CCEEEE
Confidence 3 4444
No 38
>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=99.22 E-value=9.2e-09 Score=90.68 Aligned_cols=205 Identities=14% Similarity=0.167 Sum_probs=147.8
Q ss_pred eehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEe--eee-----ccceEEEEechHHHH
Q psy13355 7 TEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV--GYG-----NSSINIIVAARKFID 79 (314)
Q Consensus 7 i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~--~~~-----~~~G~~~v~~k~l~~ 79 (314)
-+.+.|.++++.+.++. ++++++..+++|++.++|+...+.+.+.. +.. ..+..+.||.+.|.+
T Consensus 4 ~~~~~l~~~~~~l~~i~---------~~v~~~~~~~gl~~~a~d~~r~~~~~~~l~~~~F~~y~~~~~~~~~i~~k~l~~ 74 (248)
T cd00577 4 SNAKLLKKIVDALSKLV---------DEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLK 74 (248)
T ss_pred cchHHHHHHHHHHHHHh---------cEEeEEECCCceEEEEEcCCcEEEEEEEechhhCeEEecCCceEEEEEHHHHHH
Confidence 35667778888877765 48999999999999999998755544433 211 134689999999999
Q ss_pred HHhcCCCCCcEEEEEeCC---EEEEEEC----CeEEEEecCCCCCCCCCcCCCC-CceEEEEeHHHHHHHHhhhcccccc
Q psy13355 80 ILRSLPETEKVTIYIENK---HMFIKSG----KSKFTLQTLDAKEYPIMTLNSK-YDFEFTLSQKTLKCILNMVYFSIAQ 151 (314)
Q Consensus 80 iik~l~~~~~v~l~~~~~---~l~I~~g----~~~~~l~~~~~~~fP~~~~~~~-~~~~~~v~~~~l~~~i~~v~~a~s~ 151 (314)
++|.+...+.+.+..+++ .+.+.++ ...|.++.++. +||.+...+. ....+.++++.|.++++++... +
T Consensus 75 ~lk~~~~~~~v~i~~~~~~~l~i~~~~~~~~~~~~~~~~li~~-~~~~~~~~~~~~~~~i~i~~~~L~~~i~~~~~~-~- 151 (248)
T cd00577 75 ILKCAGNEDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDI-DSEQLPIPELEYDATVTLPSDELKDIVRDLESI-S- 151 (248)
T ss_pred HHhhCCCCCEEEEEecCCCeEEEEEEcCCCceEEEEEEEcccc-CcccCCCCCCceeEEEEEEHHHHHHHHHHHHHc-C-
Confidence 999998665699988776 4555665 57788887765 7898876332 3678999999999999999854 3
Q ss_pred ccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCC-------CCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeC
Q psy13355 152 QDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDK-------KFSSCSDIIIPRKTVFTLQRLLENKENPVELKISN 224 (314)
Q Consensus 152 ~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~-------~~~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~ 224 (314)
+ .|.|.++++.+.+.+.....-+.......+ ....+....+..+.+.++.|.++. .++|.|.+++
T Consensus 152 ~-------~i~i~~~~~~l~lss~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fn~~yL~~~l~~~~~-s~~v~i~~~~ 223 (248)
T cd00577 152 D-------SVTISASKDGFKFSAEGELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGS 223 (248)
T ss_pred C-------EEEEEEcCCEEEEEEeecCCceEEEEecCCCCceEEEEeCCceEEEEhHHHHHHHhhhccc-CCeEEEEEcC
Confidence 2 388998888888765442122222222221 112378899999999999999873 3789999886
Q ss_pred c-EEEEEE
Q psy13355 225 N-QIKIIF 231 (314)
Q Consensus 225 ~-~~~~~~ 231 (314)
. .+.+++
T Consensus 224 ~~p~~i~~ 231 (248)
T cd00577 224 DGPLSLEF 231 (248)
T ss_pred CCCEEEEE
Confidence 5 344433
No 39
>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of 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, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....
Probab=99.14 E-value=2.7e-10 Score=89.60 Aligned_cols=65 Identities=34% Similarity=0.468 Sum_probs=60.2
Q ss_pred ccccccCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEeec
Q psy13355 249 KYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 249 ~~v~p~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
++++|.++...+.++|.+|++||+|+.++++++++.|.|+|++++|++++.++|.|+++|++++.
T Consensus 1 ~~viP~~~~~~i~i~r~~L~~al~Rv~~~~~~~~~~v~l~~~~~~l~l~~~~~~~g~~~e~i~~~ 65 (121)
T PF02768_consen 1 RRVIPTEFETSITIDRKELLDALKRVSIISSEKNNPVKLSFSDNQLTLSSQSSEIGEAEEEIPIE 65 (121)
T ss_dssp GGGS-SSESEEEEEEHHHHHHHHHHHHHHHTTTTGEEEEEEETTEEEEEEEETTTEEEEEEEE-E
T ss_pred CccCCCCCCEEEEEEHHHHHHHHHHHHHHhhcCCceEEEEEECCEEEEEEcCCCCceEEEEEeee
Confidence 58999999999999999999999999999988889999999999999999999999999999874
No 40
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=98.79 E-value=7.7e-06 Score=72.92 Aligned_cols=205 Identities=11% Similarity=0.124 Sum_probs=143.3
Q ss_pred Eeeh-HHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEE--EEEEEEeee-----eccceEEEEechHH
Q psy13355 6 NTEK-NAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ--ITTYTAVGY-----GNSSINIIVAARKF 77 (314)
Q Consensus 6 ~i~~-~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~--~~~~~~~~~-----~~~~G~~~v~~k~l 77 (314)
+++. ..|.+.++.+..+++ .+.+++.+++|.++|.|.... +...+|.+. .+++-.+.|+-..|
T Consensus 5 ~~~~a~~~k~i~~ai~~lvd---------e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~eY~~d~~~~~gv~l~~l 75 (263)
T PLN00057 5 RLVQGSLLKKVLEAIKDLVS---------DANFDCSETGLSLQAMDSSHVALVALLLRADGFEHYRCDRNLSMGINLANM 75 (263)
T ss_pred EEcchHHHHHHHHHHHHHhh---------eeEEEEcCCeEEEEEEcCCcEEEEEEEeChhcCeEEecCCceEEEEEHHHH
Confidence 5544 688888888888775 777999999999999998854 445566532 12344688999999
Q ss_pred HHHHhcCCCCCcEEEEEe--CCEEEEEECC------eEEEEecCCC-CCCCCCcCCCCCceEEEEeHHHHHHHHhhhccc
Q psy13355 78 IDILRSLPETEKVTIYIE--NKHMFIKSGK------SKFTLQTLDA-KEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFS 148 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~--~~~l~I~~g~------~~~~l~~~~~-~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a 148 (314)
.+++|....++.++++.+ ++.+.|..+. .+|+|+.++. .+-+.+|..+- ...+.++++.|+++++-.. .
T Consensus 76 ~kiLk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~e~-~~~v~m~s~~f~~~~kdl~-~ 153 (263)
T PLN00057 76 SKILKCAGNDDIITIKADDGGDTVTFMFESPKQDRISDFELKLMDIDSEHLGIPETEY-SAIVRMPSAEFQRICKDLS-S 153 (263)
T ss_pred HHHHhccCCCCEEEEEecCCCCEEEEEEEcCCCceEEEEEEEeeecCcccCCCCCCce-eEEEEEEHHHHHHHHHHHH-H
Confidence 999999988777999865 4577775543 4599999986 34456666655 7899999999999999987 3
Q ss_pred cccccccceeeeEEEEEECCEEEEEEec-cceEEEEEEecCCC-----------CCCcceEEEehhhHHHHHhhhcCCCC
Q psy13355 149 IAQQDIRYYLNGLLLSFQKKNIIAVSSD-GHRLTYYQVNIDKK-----------FSSCSDIIIPRKTVFTLQRLLENKEN 216 (314)
Q Consensus 149 ~s~~~~~~~l~gv~l~~~~~~l~~~aTD-g~Rl~~~~~~~~~~-----------~~~~~~~iip~~~l~~l~k~l~~~~~ 216 (314)
++ +. |.++.+++.+.+.|.- .-. +...++.... ..++.....+-++|..+.|..+- ++
T Consensus 154 vs-d~-------v~i~~~~~~~~f~~~Gd~g~-~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~YL~~~~Ka~~l-s~ 223 (263)
T PLN00057 154 IG-DT-------VVISVTKEGVKFSTSGDIGT-ANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKATPL-SD 223 (263)
T ss_pred cC-CE-------EEEEEeCCEEEEEEEecCcE-EEEEEecCCCCCCccceEEEEecCceEEEEhHHHHHHhhccccC-CC
Confidence 44 32 6677777777776642 111 1222211100 11245778888999999997653 57
Q ss_pred cEEEEEeCcE---EEEEE
Q psy13355 217 PVELKISNNQ---IKIIF 231 (314)
Q Consensus 217 ~v~i~~~~~~---~~~~~ 231 (314)
.|+|+++.+. +.+..
T Consensus 224 ~V~i~~~~~~Pl~l~y~l 241 (263)
T PLN00057 224 TVTLSLSKELPVVVEYKI 241 (263)
T ss_pred eEEEEEcCCCCEEEEEEe
Confidence 9999999774 45555
No 41
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=98.79 E-value=1.2e-05 Score=71.86 Aligned_cols=206 Identities=12% Similarity=0.087 Sum_probs=142.2
Q ss_pred Eeeh-HHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeE-E-EEEEEEeee-----eccceEEEEechHH
Q psy13355 6 NTEK-NAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEV-Q-ITTYTAVGY-----GNSSINIIVAARKF 77 (314)
Q Consensus 6 ~i~~-~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~-~-~~~~~~~~~-----~~~~G~~~v~~k~l 77 (314)
+++. ..|.+++..+..+++ .+.+++.++++.++|-|... . +...+|.+. .+++-++.|+-..|
T Consensus 5 ~~~~a~~~K~i~eal~~lv~---------e~~f~~t~~Gi~lqamD~shVaLv~l~l~~~~FeeY~cd~~~~lGvn~~~l 75 (275)
T PTZ00113 5 KLNNASVLRRLFECIKDLVS---------DGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHYRCDRERALGINIASV 75 (275)
T ss_pred EeccHHHHHHHHHHHHHHhc---------eEEEEECCCeEEEEEECCCcEEEEEEEeCHHhCeEEecCCCcEEEEEHHHH
Confidence 6644 788888888888775 77799999999999999774 3 456666532 22445688999999
Q ss_pred HHHHhcCCCCCcEEEEEe--CCEEEEEECC------eEEEEecCCCC-CCCCCcCC--CCCceEEEEeHHHHHHHHhhhc
Q psy13355 78 IDILRSLPETEKVTIYIE--NKHMFIKSGK------SKFTLQTLDAK-EYPIMTLN--SKYDFEFTLSQKTLKCILNMVY 146 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~--~~~l~I~~g~------~~~~l~~~~~~-~fP~~~~~--~~~~~~~~v~~~~l~~~i~~v~ 146 (314)
..++|....++.++++.+ ++.+.|..++ .+|.++.++.+ +.+.+|.. +- ...+.++++.|+++++...
T Consensus 76 ~KILk~~~~~D~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~di~~e~~~iPe~~~e~-~~~v~m~s~~f~~i~rdl~ 154 (275)
T PTZ00113 76 TKVFKLCSNNDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMSIEQDALSIPENEEGF-DAEVTLSSKELTNICRQMN 154 (275)
T ss_pred HHHHHhCCCCCEEEEEEcCCCCEEEEEEEcCCCceEEEEEEEccccCccccCCCCCCCCc-cEEEEEEHHHHHHHHHHHH
Confidence 999999988877999763 4677776643 34899988754 34566766 44 7899999999999999886
Q ss_pred cccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCC-----------CCCCcceEEEehhhHHHHHhhhcCCC
Q psy13355 147 FSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDK-----------KFSSCSDIIIPRKTVFTLQRLLENKE 215 (314)
Q Consensus 147 ~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~-----------~~~~~~~~iip~~~l~~l~k~l~~~~ 215 (314)
- ++.. |-+..+++.+++.|.-..-=+...+.... ...++.....+.++|..+.|.-+ ..
T Consensus 155 ~-vgd~--------V~i~~~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~YL~~f~Ka~~-ls 224 (275)
T PTZ00113 155 E-FSDT--------VKIEIDSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKYLNMFAKSGC-LS 224 (275)
T ss_pred H-cCCE--------EEEEEeCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHHHHHhhcccc-CC
Confidence 3 4422 66666666666664321111122221100 01125577889999999998654 35
Q ss_pred CcEEEEEeCcE---EEEEE
Q psy13355 216 NPVELKISNNQ---IKIIF 231 (314)
Q Consensus 216 ~~v~i~~~~~~---~~~~~ 231 (314)
+.|+|++.++. +.+..
T Consensus 225 ~~V~l~l~~d~Pl~ley~i 243 (275)
T PTZ00113 225 DVVTLGLSDNRPIEVKYEI 243 (275)
T ss_pred CeEEEEEcCCCCEEEEEEe
Confidence 79999999774 55555
No 42
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.75 E-value=2.3e-05 Score=69.78 Aligned_cols=205 Identities=12% Similarity=0.136 Sum_probs=141.3
Q ss_pred Eeeh-HHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEE--EEEEEEeee-----eccceEEEEechHH
Q psy13355 6 NTEK-NAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ--ITTYTAVGY-----GNSSINIIVAARKF 77 (314)
Q Consensus 6 ~i~~-~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~--~~~~~~~~~-----~~~~G~~~v~~k~l 77 (314)
+++. ..|.++++.+...++ .+.+++.+++|.++|-|.... +...+|.+. .+++-.+.|+-..|
T Consensus 5 ~~~~a~~~k~i~eai~~lv~---------e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~~gv~l~~l 75 (259)
T TIGR00590 5 RLEQASLLKKILEAIKDLVN---------DANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTYRCDRNLALGVNLTSL 75 (259)
T ss_pred EEccHHHHHHHHHHHHHHhc---------eeeEEECCCeEEEEEEcCCcEEEEEEEcCHHhCceEecCCceEEEEEHHHH
Confidence 5544 678888888877665 778999999999999997754 445556422 12445688999999
Q ss_pred HHHHhcCCCCCcEEEEEe--CCEEEEEECC------eEEEEecCCC-CCCCCCcCCCCCceEEEEeHHHHHHHHhhhccc
Q psy13355 78 IDILRSLPETEKVTIYIE--NKHMFIKSGK------SKFTLQTLDA-KEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFS 148 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~--~~~l~I~~g~------~~~~l~~~~~-~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a 148 (314)
.+++|....++.++++.+ ++.|.|..+. .+|+++.++. .+-+.+|..+- ...+.++++.|+++++... .
T Consensus 76 ~kiLk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~e~-~~~v~m~s~~f~~~~kdl~-~ 153 (259)
T TIGR00590 76 SKILKCANNEDIVTLKAEDNADTLILVFESPKQDKISDYELKLMDIDVEHLGIPEQEY-DCVVEMPSSEFARICRDLS-Q 153 (259)
T ss_pred HHHHhccCCCCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEEeeecccccCCCCCCce-eEEEEEEHHHHHHHHHHHH-H
Confidence 999999987777899865 4677775432 4599999885 34456666665 7899999999999999887 3
Q ss_pred cccccccceeeeEEEEEECCEEEEEEecc-ceEEEEEEecCC-----------CCCCcceEEEehhhHHHHHhhhcCCCC
Q psy13355 149 IAQQDIRYYLNGLLLSFQKKNIIAVSSDG-HRLTYYQVNIDK-----------KFSSCSDIIIPRKTVFTLQRLLENKEN 216 (314)
Q Consensus 149 ~s~~~~~~~l~gv~l~~~~~~l~~~aTDg-~Rl~~~~~~~~~-----------~~~~~~~~iip~~~l~~l~k~l~~~~~ 216 (314)
++.. |.+...++.+++.|.-. -+ +...++... ...++.....+.++|..+.|..+- .+
T Consensus 154 v~d~--------v~i~~~~~~~~f~~~Gd~g~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y~l~YL~~~~Ka~~l-s~ 223 (259)
T TIGR00590 154 FSDS--------VVISCTKEGVKFSAKGDIGS-GNVKLKQTSDTDKEEEAVTIEMKEPVTLTFAIKYLNLFTKATPL-SD 223 (259)
T ss_pred cCCE--------EEEEEeCCEEEEEEEecccE-EEEEEecCCCCCCCcceEEEEecCceeeeeeHHHHHHhhhhccC-CC
Confidence 4422 66777677676665321 11 112221110 011244667888999999997653 57
Q ss_pred cEEEEEeCcE---EEEEE
Q psy13355 217 PVELKISNNQ---IKIIF 231 (314)
Q Consensus 217 ~v~i~~~~~~---~~~~~ 231 (314)
.|+|+++.+. +.+..
T Consensus 224 ~V~l~~~~~~Pl~l~y~i 241 (259)
T TIGR00590 224 RVTLSMSNDVPLVVEYKI 241 (259)
T ss_pred eEEEEEcCCCCEEEEEEe
Confidence 8999999774 44444
No 43
>PHA03383 PCNA-like protein; Provisional
Probab=98.69 E-value=2.2e-05 Score=69.82 Aligned_cols=203 Identities=11% Similarity=0.083 Sum_probs=142.0
Q ss_pred ehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEE--EEEEEEeee-----eccceEEEEechHHHHH
Q psy13355 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ--ITTYTAVGY-----GNSSINIIVAARKFIDI 80 (314)
Q Consensus 8 ~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~--~~~~~~~~~-----~~~~G~~~v~~k~l~~i 80 (314)
+...|.++++.+..+++ .+.+++..+++.++|-|...- +...+|.+. .+++-++.|+-..|..+
T Consensus 14 ~a~~~K~iieai~~lv~---------e~~f~~t~~Gi~lqamD~shVaLv~l~L~~~~F~~Y~~d~~~~iGv~~~~l~KI 84 (262)
T PHA03383 14 QGSVIKSLFDVLKEILH---------DVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEYHCDQTYEIGVNVSNMFKL 84 (262)
T ss_pred chHHHHHHHHHHHHHhc---------eEEEEECCCcEEEEEECCCcEEEEEEEeCHHhCceEecCCceEEEEEHHHHHHH
Confidence 66788888888888775 777999999999999997743 456666532 22344688999999999
Q ss_pred HhcCCCCCcEEEEE---eCCEEEEEECC------eEEEEecCCCCC-CCCCcCCCCCceEEEEeHHHHHHHHhhhccccc
Q psy13355 81 LRSLPETEKVTIYI---ENKHMFIKSGK------SKFTLQTLDAKE-YPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIA 150 (314)
Q Consensus 81 ik~l~~~~~v~l~~---~~~~l~I~~g~------~~~~l~~~~~~~-fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s 150 (314)
+|....++.++++. +++.++|..++ .+|+++.++.+. .+.+|..+- ...+.++++.|+++++.... ++
T Consensus 85 Lk~a~~~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~e~-~~~v~m~s~~f~~i~kdl~~-ig 162 (262)
T PHA03383 85 LRTAGSHDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLIEIDSSRIEVPDVEF-DTIIILPSNYFQRLCRDMSN-IT 162 (262)
T ss_pred HhccCCCCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEEEccccCcccCCCCCCCc-cEEEEEEHHHHHHHHHHHHH-cC
Confidence 99998877799885 34577766532 579999987543 244455554 78999999999999998863 44
Q ss_pred cccccceeeeEEEEEECCEEEEEE---eccceEEEEEEecC---C-----CCCCcceEEEehhhHHHHHhhhcCCCCcEE
Q psy13355 151 QQDIRYYLNGLLLSFQKKNIIAVS---SDGHRLTYYQVNID---K-----KFSSCSDIIIPRKTVFTLQRLLENKENPVE 219 (314)
Q Consensus 151 ~~~~~~~l~gv~l~~~~~~l~~~a---TDg~Rl~~~~~~~~---~-----~~~~~~~~iip~~~l~~l~k~l~~~~~~v~ 219 (314)
.. |.+..+++.+.+.+ +.|.. ....+.+. . ...++.....+.++|..+.|.-+- .+.|+
T Consensus 163 D~--------v~i~~~~~~v~f~~~~~~~Gd~-~~~~~~~~~~~~~~v~~~~~~~~~~~ysl~YL~~~~Ka~~l-s~~V~ 232 (262)
T PHA03383 163 DD--------LEITKKGKEVSFRSDYTCVTDF-ASQETIIGDSDNGQITCNESPDYTGKFSLKYLTSFTKASGM-SSSVE 232 (262)
T ss_pred Ce--------EEEEEeCCEEEEEEcccccccc-cceEEEecCCCCCceEEecCCceEEEEeHHHHHHhhccccC-CCeEE
Confidence 22 67777777777763 34431 22222110 0 011145788899999999997553 57899
Q ss_pred EEEeCcE---EEEEE
Q psy13355 220 LKISNNQ---IKIIF 231 (314)
Q Consensus 220 i~~~~~~---~~~~~ 231 (314)
|++..+. +.+..
T Consensus 233 i~l~~d~Pl~ley~i 247 (262)
T PHA03383 233 IYLKESNPLILKYNV 247 (262)
T ss_pred EEEcCCCCEEEEEEe
Confidence 9999764 44444
No 44
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=98.57 E-value=7.1e-05 Score=66.56 Aligned_cols=201 Identities=9% Similarity=0.124 Sum_probs=134.4
Q ss_pred EEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEE--EEEEEEeee-----eccceEEEEechHH
Q psy13355 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ--ITTYTAVGY-----GNSSINIIVAARKF 77 (314)
Q Consensus 5 ~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~--~~~~~~~~~-----~~~~G~~~v~~k~l 77 (314)
.+++...|.++++.+..+++ .+.+++.++++.++|-|...- +...+|.+. .+.+-++.|+-..|
T Consensus 4 a~~~a~~lK~i~eai~~lv~---------e~~f~~~e~Gi~lqAmD~shVaLV~l~L~~~~Fe~Y~cd~~~~lGinl~~l 74 (264)
T PTZ00483 4 CRLDGMFLRRLFETLKDICT---------DVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLYRCDKPCVLGLNISFM 74 (264)
T ss_pred EEEeHHHHHHHHHHHHHHhh---------eeEEEECCCcEEEEEECCCcEEEEEEEcCHHhCeEEecCCCeEEEEEHHHH
Confidence 37787888888888887775 777999999999999997743 455666432 22333688999999
Q ss_pred HHHHhcCCCCCcEEEE-Ee---CCEEEEEE-CC----------eEEEEecCCCC-CCCCCcCCCCCceEEEEeHHHHHHH
Q psy13355 78 IDILRSLPETEKVTIY-IE---NKHMFIKS-GK----------SKFTLQTLDAK-EYPIMTLNSKYDFEFTLSQKTLKCI 141 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~-~~---~~~l~I~~-g~----------~~~~l~~~~~~-~fP~~~~~~~~~~~~~v~~~~l~~~ 141 (314)
.+++|....++.++++ .+ +..+.|+. |. +.|+|+.++.+ +.+.+|..+. ...+.++++.|+++
T Consensus 75 ~KiLk~a~~~D~l~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~e~-~~~v~m~s~~f~~i 153 (264)
T PTZ00483 75 LKILSVVKEKSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLEAQVKLINVQREHLEIPQCEY-HCKCVMNSKKFQEF 153 (264)
T ss_pred HHHHhhcCCCCEEEEEeccCCCCceEEEEEeccccccccccceEEEEEEccccCcccCCCCCCCc-cEEEEEEHHHHHHH
Confidence 9999999887778886 32 23455543 11 25999998754 3356666665 78999999999999
Q ss_pred HhhhccccccccccceeeeEEEEEECCEEEEEEe-ccceEEEEEEecCC-----CCCCcceEEEehhhHHHHHhhhcCCC
Q psy13355 142 LNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSS-DGHRLTYYQVNIDK-----KFSSCSDIIIPRKTVFTLQRLLENKE 215 (314)
Q Consensus 142 i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aT-Dg~Rl~~~~~~~~~-----~~~~~~~~iip~~~l~~l~k~l~~~~ 215 (314)
++.... ++ |. |.+..+++.+++.|. |+-. +...+..+. ...++.....+.++|..+.|.-+- .
T Consensus 154 ~kdl~~-vs-D~-------v~i~~~~~~v~f~a~Gd~~~-~~~~l~~~~~~v~~~~~~~v~~~fsl~YL~~f~Ka~~l-s 222 (264)
T PTZ00483 154 AKYLHS-IG-DT-------VSISMKKDEMRLETEGEGIK-ASKQFHNDVGDVRVTSTESLSQEFATRYLVLFSKATSL-A 222 (264)
T ss_pred HHHHHH-cC-CE-------EEEEEECCEEEEEEeecCcE-EEEEEccCCCceEEEecCcchheehHHHHHHhhccccC-C
Confidence 998763 33 22 555555555555442 2111 111111100 001244566788899999887553 5
Q ss_pred CcEEEEEeCcE
Q psy13355 216 NPVELKISNNQ 226 (314)
Q Consensus 216 ~~v~i~~~~~~ 226 (314)
+.|+|++..+.
T Consensus 223 d~V~i~l~~~~ 233 (264)
T PTZ00483 223 DEVSINLSAGI 233 (264)
T ss_pred CeEEEEEcCCC
Confidence 79999999764
No 45
>PHA03383 PCNA-like protein; Provisional
Probab=98.33 E-value=0.00014 Score=64.61 Aligned_cols=161 Identities=12% Similarity=0.240 Sum_probs=124.0
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l 207 (314)
++..|++++....-.+ .-+.|+++++++.+.|-|..+.+...+.++.. -+.+..+-+.-..+..+
T Consensus 14 ~a~~~K~iieai~~lv---------~e~~f~~t~~Gi~lqamD~shVaLv~l~L~~~~F~~Y~~d~~~~iGv~~~~l~KI 84 (262)
T PHA03383 14 QGSVIKSLFDVLKEIL---------HDVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEYHCDQTYEIGVNVSNMFKL 84 (262)
T ss_pred chHHHHHHHHHHHHHh---------ceEEEEECCCcEEEEEECCCcEEEEEEEeCHHhCceEecCCceEEEEEHHHHHHH
Confidence 6778888888765432 33889999999999999999999998887742 12244577888888888
Q ss_pred HhhhcCCCCcEEEEE---eCcEEEEEECC------EEEEEEeccccCCCccccccc-CcceEEEEehHHHHHHHhHHhhh
Q psy13355 208 QRLLENKENPVELKI---SNNQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISII 277 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~---~~~~~~~~~~~------~~~~~~li~g~yP~~~~v~p~-~~~~~~~v~~~~l~~al~rv~~~ 277 (314)
+|...+ ++.+.+.+ +++.+.|..++ ..|..++++.+-+.+. +|. +++..+.++..+|..+++-+..+
T Consensus 85 Lk~a~~-~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidi~~e~l~--iP~~e~~~~v~m~s~~f~~i~kdl~~i 161 (262)
T PHA03383 85 LRTAGS-HDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLIEIDSSRIE--VPDVEFDTIIILPSNYFQRLCRDMSNI 161 (262)
T ss_pred HhccCC-CCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEEEccccCcccCC--CCCCCccEEEEEEHHHHHHHHHHHHHc
Confidence 887664 57888875 34567666543 5789999998776653 354 78999999999999999999999
Q ss_pred hcCCCCeEEEEEECCEEEEEE---ecCCcceeEEEE
Q psy13355 278 SNDKLKGVRLVIKPNYLKITV---SSSNREKASSTD 310 (314)
Q Consensus 278 ~~~~~~~v~l~~~~~~l~l~~---~~~d~G~a~e~~ 310 (314)
++ .|.+...++++.+++ ..+|.|+++..+
T Consensus 162 gD----~v~i~~~~~~v~f~~~~~~~Gd~~~~~~~~ 193 (262)
T PHA03383 162 TD----DLEITKKGKEVSFRSDYTCVTDFASQETII 193 (262)
T ss_pred CC----eEEEEEeCCEEEEEEcccccccccceEEEe
Confidence 74 488888999999994 456888877665
No 46
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.31 E-value=0.0002 Score=63.82 Aligned_cols=161 Identities=14% Similarity=0.179 Sum_probs=122.7
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l 207 (314)
++..|+++++.....+ .-+.|+++++++.+.|-|..|.+...+.++.. .+++..+-|+-..+..+
T Consensus 8 ~a~~~k~i~eai~~lv---------~e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~~gv~l~~l~ki 78 (259)
T TIGR00590 8 QASLLKKILEAIKDLV---------NDANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTYRCDRNLALGVNLTSLSKI 78 (259)
T ss_pred cHHHHHHHHHHHHHHh---------ceeeEEECCCeEEEEEEcCCcEEEEEEEcCHHhCceEecCCceEEEEEHHHHHHH
Confidence 4567788777765332 23889999999999999999999998877731 12355678999999999
Q ss_pred HhhhcCCCCcEEEEEeC--cEEEEEECC------EEEEEEeccccCCCccccccc-CcceEEEEehHHHHHHHhHHhhhh
Q psy13355 208 QRLLENKENPVELKISN--NQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISIIS 278 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~~~--~~~~~~~~~------~~~~~~li~g~yP~~~~v~p~-~~~~~~~v~~~~l~~al~rv~~~~ 278 (314)
+|.... ++.+.+.+++ +.+.|..++ ..|..++++.+.+.++ +|. +++..+.++..+|.++++-+..++
T Consensus 79 Lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~--iP~~e~~~~v~m~s~~f~~~~kdl~~v~ 155 (259)
T TIGR00590 79 LKCANN-EDIVTLKAEDNADTLILVFESPKQDKISDYELKLMDIDVEHLG--IPEQEYDCVVEMPSSEFARICRDLSQFS 155 (259)
T ss_pred HhccCC-CCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEEeeecccccCC--CCCCceeEEEEEEHHHHHHHHHHHHHcC
Confidence 998875 5788998765 567665542 3588899886544332 333 578999999999999999999876
Q ss_pred cCCCCeEEEEEECCEEEEEEecCCcceeEEEEe
Q psy13355 279 NDKLKGVRLVIKPNYLKITVSSSNREKASSTDL 311 (314)
Q Consensus 279 ~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~ 311 (314)
+ .|.|..+++.+++++.+ |.|+++-.++
T Consensus 156 d----~v~i~~~~~~~~f~~~G-d~g~~~~~~~ 183 (259)
T TIGR00590 156 D----SVVISCTKEGVKFSAKG-DIGSGNVKLK 183 (259)
T ss_pred C----EEEEEEeCCEEEEEEEe-cccEEEEEEe
Confidence 3 48899999999999975 8898877764
No 47
>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of 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, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....
Probab=98.27 E-value=2.7e-05 Score=60.98 Aligned_cols=93 Identities=17% Similarity=0.366 Sum_probs=73.9
Q ss_pred EEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEE-EEEEEEeeeeccceEEEEechHHHHHHhc
Q psy13355 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ-ITTYTAVGYGNSSINIIVAARKFIDILRS 83 (314)
Q Consensus 5 ~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~-~~~~~~~~~~~~~G~~~v~~k~l~~iik~ 83 (314)
++++|++|++||+++.-+...++ ..+.+...+++|++++.+.+.+ ..-.++++...++.++.++++.|.++++.
T Consensus 12 i~i~r~~L~~al~Rv~~~~~~~~-----~~v~l~~~~~~l~l~~~~~~~g~~~e~i~~~~~g~~~~i~fN~~yL~d~L~~ 86 (121)
T PF02768_consen 12 ITIDRKELLDALKRVSIISSEKN-----NPVKLSFSDNQLTLSSQSSEIGEAEEEIPIEYEGEPLEIAFNPKYLLDALKA 86 (121)
T ss_dssp EEEEHHHHHHHHHHHHHHHTTTT-----GEEEEEEETTEEEEEEEETTTEEEEEEEE-EEEES-EEEEEEHHHHHHHHHC
T ss_pred EEEEHHHHHHHHHHHHHHhhcCC-----ceEEEEEECCEEEEEEcCCCCceEEEEEeeeecCCceEEEECHHHHHHHHhh
Confidence 49999999999999998776433 4889999999999999987754 66677876654677899999999999999
Q ss_pred CCCCCcEEEEEeC--CEEEEEE
Q psy13355 84 LPETEKVTIYIEN--KHMFIKS 103 (314)
Q Consensus 84 l~~~~~v~l~~~~--~~l~I~~ 103 (314)
++++. |+|...+ .-+.|+.
T Consensus 87 ~~~~~-V~l~~~~~~~p~~i~~ 107 (121)
T PF02768_consen 87 IDGEE-VTLEFSDPSSPILITP 107 (121)
T ss_dssp C-SSE-EEEEESSTTS-EEEEE
T ss_pred cCCCE-EEEEEcCCCCCEEEEe
Confidence 99875 9999864 3466765
No 48
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=98.23 E-value=0.00041 Score=61.89 Aligned_cols=161 Identities=12% Similarity=0.153 Sum_probs=122.3
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l 207 (314)
++..|+++++.....+ + =+.|+++++++++.|.|..|.+...+.++.. .+.+..+-|.-..+..+
T Consensus 8 ~a~~~k~i~~ai~~lv--d-------e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~eY~~d~~~~~gv~l~~l~ki 78 (263)
T PLN00057 8 QGSLLKKVLEAIKDLV--S-------DANFDCSETGLSLQAMDSSHVALVALLLRADGFEHYRCDRNLSMGINLANMSKI 78 (263)
T ss_pred chHHHHHHHHHHHHHh--h-------eeEEEEcCCeEEEEEEcCCcEEEEEEEeChhcCeEEecCCceEEEEEHHHHHHH
Confidence 4567777777765332 2 3889999999999999999999998877742 12245677999999999
Q ss_pred HhhhcCCCCcEEEEEeC--cEEEEEECC------EEEEEEeccccCCCccccccc-CcceEEEEehHHHHHHHhHHhhhh
Q psy13355 208 QRLLENKENPVELKISN--NQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISIIS 278 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~~~--~~~~~~~~~------~~~~~~li~g~yP~~~~v~p~-~~~~~~~v~~~~l~~al~rv~~~~ 278 (314)
+|.... ++.+.+.+++ +.+.|..++ .+|..++++...+.++ +|. +++..+.++..+|.++++-+..++
T Consensus 79 Lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~--iP~~e~~~~v~m~s~~f~~~~kdl~~vs 155 (263)
T PLN00057 79 LKCAGN-DDIITIKADDGGDTVTFMFESPKQDRISDFELKLMDIDSEHLG--IPETEYSAIVRMPSAEFQRICKDLSSIG 155 (263)
T ss_pred HhccCC-CCEEEEEecCCCCEEEEEEEcCCCceEEEEEEEeeecCcccCC--CCCCceeEEEEEEHHHHHHHHHHHHHcC
Confidence 888765 5788888664 456665543 3588999987655442 343 678999999999999999999876
Q ss_pred cCCCCeEEEEEECCEEEEEEecCCcceeEEEEe
Q psy13355 279 NDKLKGVRLVIKPNYLKITVSSSNREKASSTDL 311 (314)
Q Consensus 279 ~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~ 311 (314)
+ .|.|..+++.+.+++.+ |.|++.-.++
T Consensus 156 d----~v~i~~~~~~~~f~~~G-d~g~~~~~l~ 183 (263)
T PLN00057 156 D----TVVISVTKEGVKFSTSG-DIGTANIVLR 183 (263)
T ss_pred C----EEEEEEeCCEEEEEEEe-cCcEEEEEEe
Confidence 3 58899999999999975 8888866653
No 49
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=98.21 E-value=0.0004 Score=62.15 Aligned_cols=161 Identities=14% Similarity=0.214 Sum_probs=122.1
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l 207 (314)
++..|++++....-. +.-+.|+++++++.+.|-|..+.+...+.++.. -+.+..+-|.-..+..+
T Consensus 8 ~a~~~K~i~eal~~l---------v~e~~f~~t~~Gi~lqamD~shVaLv~l~l~~~~FeeY~cd~~~~lGvn~~~l~KI 78 (275)
T PTZ00113 8 NASVLRRLFECIKDL---------VSDGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHYRCDRERALGINIASVTKV 78 (275)
T ss_pred cHHHHHHHHHHHHHH---------hceEEEEECCCeEEEEEECCCcEEEEEEEeCHHhCeEEecCCCcEEEEEHHHHHHH
Confidence 456777777766533 334899999999999999999999998887642 12345677898888888
Q ss_pred HhhhcCCCCcEEEEEe--CcEEEEEECC------EEEEEEeccccCCCccccccc---CcceEEEEehHHHHHHHhHHhh
Q psy13355 208 QRLLENKENPVELKIS--NNQIKIIFSN------IEIISKLIDGKFLDYKYVISN---KYEKSFLVNRNKLLRSLQRISI 276 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~~--~~~~~~~~~~------~~~~~~li~g~yP~~~~v~p~---~~~~~~~v~~~~l~~al~rv~~ 276 (314)
+|...+ ++.+.+.++ ++.+.|..++ ..|..++++..-..+ =+|. +++..+.++..+|.++++-+..
T Consensus 79 Lk~~~~-~D~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~di~~e~~--~iPe~~~e~~~~v~m~s~~f~~i~rdl~~ 155 (275)
T PTZ00113 79 FKLCSN-NDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMSIEQDAL--SIPENEEGFDAEVTLSSKELTNICRQMNE 155 (275)
T ss_pred HHhCCC-CCEEEEEEcCCCCEEEEEEEcCCCceEEEEEEEccccCcccc--CCCCCCCCccEEEEEEHHHHHHHHHHHHH
Confidence 887665 678998764 4567666654 348889988654222 1442 5889999999999999999999
Q ss_pred hhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEe
Q psy13355 277 ISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDL 311 (314)
Q Consensus 277 ~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~ 311 (314)
+++ .|.|...++++.+++. +|.|+++-.+.
T Consensus 156 vgd----~V~i~~~~~~v~f~a~-Gd~g~~~i~l~ 185 (275)
T PTZ00113 156 FSD----TVKIEIDSNSIKFTTQ-GDLGDGEVVLK 185 (275)
T ss_pred cCC----EEEEEEeCCEEEEEEe-ccCcEEEEEEe
Confidence 974 4889999999999987 59999877663
No 50
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=98.13 E-value=0.00085 Score=59.73 Aligned_cols=165 Identities=13% Similarity=0.167 Sum_probs=122.6
Q ss_pred EEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhh
Q psy13355 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKT 203 (314)
Q Consensus 130 ~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~ 203 (314)
...+++..|++++....-. ..-+.|+++++++.+.|-|..+.+...+.++.. -+.+..+-|.-..
T Consensus 3 ea~~~a~~lK~i~eai~~l---------v~e~~f~~~e~Gi~lqAmD~shVaLV~l~L~~~~Fe~Y~cd~~~~lGinl~~ 73 (264)
T PTZ00483 3 ECRLDGMFLRRLFETLKDI---------CTDVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLYRCDKPCVLGLNISF 73 (264)
T ss_pred EEEEeHHHHHHHHHHHHHH---------hheeEEEECCCcEEEEEECCCcEEEEEEEcCHHhCeEEecCCCeEEEEEHHH
Confidence 3456678888888776533 234889999999999999999999999887732 1224457799999
Q ss_pred HHHHHhhhcCCCCcEEEEEe----CcEEEEEE---CC--------EEEEEEeccccCCCccccccc-CcceEEEEehHHH
Q psy13355 204 VFTLQRLLENKENPVELKIS----NNQIKIIF---SN--------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKL 267 (314)
Q Consensus 204 l~~l~k~l~~~~~~v~i~~~----~~~~~~~~---~~--------~~~~~~li~g~yP~~~~v~p~-~~~~~~~v~~~~l 267 (314)
+..++|...+ ++.+.+... ++.+.++. .+ ..|..++++-+-..+ . +|. +++..+.++..+|
T Consensus 74 l~KiLk~a~~-~D~l~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~f~l~Lidi~~e~l-~-iP~~e~~~~v~m~s~~f 150 (264)
T PTZ00483 74 MLKILSVVKE-KSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLEAQVKLINVQREHL-E-IPQCEYHCKCVMNSKKF 150 (264)
T ss_pred HHHHHhhcCC-CCEEEEEeccCCCCceEEEEEeccccccccccceEEEEEEccccCcccC-C-CCCCCccEEEEEEHHHH
Confidence 9988887765 567888632 22344322 11 258999998765444 2 343 7899999999999
Q ss_pred HHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEEEe
Q psy13355 268 LRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASSTDL 311 (314)
Q Consensus 268 ~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~~~ 311 (314)
..+++-+..+++ .|.|..+++++++++.. |.|+++-.+.
T Consensus 151 ~~i~kdl~~vsD----~v~i~~~~~~v~f~a~G-d~~~~~~~l~ 189 (264)
T PTZ00483 151 QEFAKYLHSIGD----TVSISMKKDEMRLETEG-EGIKASKQFH 189 (264)
T ss_pred HHHHHHHHHcCC----EEEEEEECCEEEEEEee-cCcEEEEEEc
Confidence 999999999974 48899999999999985 8898876653
No 51
>PHA02545 45 sliding clamp; Provisional
Probab=98.10 E-value=0.0018 Score=55.18 Aligned_cols=189 Identities=17% Similarity=0.219 Sum_probs=119.9
Q ss_pred cccEEEEEECCEEEEE-EecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCCCCCcEEEEEeCCEEEEEECCeEEEE
Q psy13355 32 LSNILVCKNSEKISFL-STDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLPETEKVTIYIENKHMFIKSGKSKFTL 110 (314)
Q Consensus 32 l~~i~i~~~~~~l~l~-atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l 110 (314)
..+|.|. .|....+ +.++.+.+.++++.+.. .--.+-+-..|+.++..+.++.++++.-+ +.+.|+.|+++.++
T Consensus 18 NpSI~l~--pGn~I~T~s~~~~~yAeAtI~d~fd--~e~~IYDL~~FLsiL~l~~~~aei~~~~~-~~i~i~~~r~ki~~ 92 (223)
T PHA02545 18 NPSIVLK--PGNFIMTKSVNGVIYAEATIEDEFD--SEFAIYDLNSFLSILSLVGDDAEITFDED-GNIVIRGGRSKIKY 92 (223)
T ss_pred CCceEec--CCCEEEEEecCceEEEEEeeccccc--ceeeEeeHHHHHHHHhccCCCCeeEEccC-ceEEecCCceEEEE
Confidence 3356665 3444444 44556678888877664 22234577789999998875533555433 88999999999999
Q ss_pred ecCCCCCC--CCC--cCCCCCceEEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEe--ccceEEEEE
Q psy13355 111 QTLDAKEY--PIM--TLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSS--DGHRLTYYQ 184 (314)
Q Consensus 111 ~~~~~~~f--P~~--~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aT--Dg~Rl~~~~ 184 (314)
+.-+++-. |.= ..+. ....|.+.+++|.++.+... ..+- .-+.|...+|++.+.++ |..--....
T Consensus 93 ~~ad~~~Iv~P~k~i~~P~-~dv~f~L~aedl~ql~kas~-~l~l-------~dl~~~~~~G~ivi~~~~~~~~~~~sn~ 163 (223)
T PHA02545 93 PYADPSTIVKPKKRVTFPV-ADVEFELKAEDLQQLLKASR-VLGL-------DDLAITNIDGKIVINLFNEDDKNDTSNS 163 (223)
T ss_pred ecCCCceEecCCcccCCCC-ccEEEEEcHHHHHHHHHHHH-hcCC-------CeEEEEeeCCEEEEEEEeccCCCCCCCc
Confidence 98887643 432 2233 37899999999999887654 3332 33888899999988876 443333222
Q ss_pred EecC-CCC--CCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEEe
Q psy13355 185 VNID-KKF--SSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKL 240 (314)
Q Consensus 185 ~~~~-~~~--~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~l 240 (314)
..++ +.. +.++.+.+..+.++ ++++ +-.|.++. .+...|+..+..+...+
T Consensus 164 ys~~vge~~g~~~F~f~~~~~Nmk----~~~g-dY~v~is~-~g~a~F~~~~~~Y~Ial 216 (223)
T PHA02545 164 YSLEVGEYDGDNEFNFIIKIENMK----LVPG-DYKVSISK-KGAAKFEGENLSYVIAL 216 (223)
T ss_pred EEEEeecccCCcceEEEEEeceeE----ecCC-CeEEEEEc-cccceeecCCeeEEEEE
Confidence 2222 111 12688888877765 4543 34555543 34567777777666544
No 52
>KOG1636|consensus
Probab=96.95 E-value=0.21 Score=42.76 Aligned_cols=203 Identities=12% Similarity=0.113 Sum_probs=125.3
Q ss_pred hHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEE--Eeee-----eccceEEEEechHHHHHH
Q psy13355 9 KNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYT--AVGY-----GNSSINIIVAARKFIDIL 81 (314)
Q Consensus 9 ~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~--~~~~-----~~~~G~~~v~~k~l~~ii 81 (314)
+.-|.+.|....-.+. -..+++.++++.++|.|...-.-+.+ ..+. ....-...++-+.+..++
T Consensus 9 ~sLlKkIlealkdlV~---------~a~fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiL 79 (260)
T KOG1636|consen 9 ASLLKKILEALKDLVN---------DANFDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKIL 79 (260)
T ss_pred HHHHHHHHHHHHHHHh---------ccCcccccCceEEEEecccceEEEEEEeeccccceeccCCccccccCHHHHHHHH
Confidence 3445555555555554 34478889999999999775333333 3222 123456778889999999
Q ss_pred hcCCCCCcEEEEEeC--CEE--EEEECC----eEEEEecCCC-CCCCCCcCCCCCceEEEEeHHHHHHHHhhhccccccc
Q psy13355 82 RSLPETEKVTIYIEN--KHM--FIKSGK----SKFTLQTLDA-KEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (314)
Q Consensus 82 k~l~~~~~v~l~~~~--~~l--~I~~g~----~~~~l~~~~~-~~fP~~~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~ 152 (314)
|-...+..+++..++ ..+ .+++.+ +.|.++.++. .++-.+|+.+- ...+++|+.+|.++.+-.... + |
T Consensus 80 kcanned~~Tlkaed~~dti~l~fe~~~~dki~dy~lKLmdiD~ehl~IPe~dy-~~~~~mPa~EF~ricrdls~f-~-D 156 (260)
T KOG1636|consen 80 KCANNEDTVTLKAEDNPDTITLMFESPKQDKIADYELKLMDIDSEHLGIPEQDY-DAVVTMPAGEFSRICRDLSTF-S-D 156 (260)
T ss_pred ccccCCCceEEEeecCCceEEEEEECCCCCcceeeEEEeeeccHHHcCCCcccc-eEEEEccHHHHHHHHHHHhhh-c-C
Confidence 988877679998764 344 444432 4577777763 36777888876 789999999999999877532 1 1
Q ss_pred cccceeeeEEEEEECCEEEEEEeccceEEEEEEecC-CCC----------CCcceEEEehhhHHHHHhhhcCCCCcEEEE
Q psy13355 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNID-KKF----------SSCSDIIIPRKTVFTLQRLLENKENPVELK 221 (314)
Q Consensus 153 ~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~-~~~----------~~~~~~iip~~~l~~l~k~l~~~~~~v~i~ 221 (314)
.|.+...+..+++.|+--+--+...+... ... ..+-...+..+++..+-|.-+= ...|+|+
T Consensus 157 -------sv~I~~tkegv~F~~~Gdig~asi~l~~~~~~d~~e~av~iE~~~pVtltfa~kYln~ftKatpL-s~rV~ls 228 (260)
T KOG1636|consen 157 -------SVVISATKEGVKFSAKGDIGTASITLSQCTAVDKPEEAVKIEMNEPVTLTFALKYLNQFTKATPL-SDRVTLS 228 (260)
T ss_pred -------eEEEEEecceeEEEecccccceeEEEccCCCCCCccceEEEEecCcchhhhHHHHHHHhhccccc-cceEEEE
Confidence 14444444445554443332222222111 100 1145566677888888877553 5789999
Q ss_pred EeCcE-EEEEE
Q psy13355 222 ISNNQ-IKIIF 231 (314)
Q Consensus 222 ~~~~~-~~~~~ 231 (314)
..... ++|++
T Consensus 229 ls~~~P~~vey 239 (260)
T KOG1636|consen 229 LSSEVPVVVEY 239 (260)
T ss_pred ecCCCcEEEEE
Confidence 88654 66655
No 53
>KOG1636|consensus
Probab=96.30 E-value=0.17 Score=43.30 Aligned_cols=143 Identities=17% Similarity=0.193 Sum_probs=99.5
Q ss_pred eeEEEEEECCEEEEEEeccceEEEEEEecCCCC------CCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EE--E
Q psy13355 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKF------SSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QI--K 228 (314)
Q Consensus 159 ~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~~------~~~~~~iip~~~l~~l~k~l~~~~~~v~i~~~~~--~~--~ 228 (314)
+-..|+...+.+.+-|-|..+.+...+.+.... +.+..+-+.-+.+..++|-..+ ++.+++...++ .+ .
T Consensus 24 ~~a~fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiLkcann-ed~~Tlkaed~~dti~l~ 102 (260)
T KOG1636|consen 24 NDANFDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKILKCANN-EDTVTLKAEDNPDTITLM 102 (260)
T ss_pred hccCcccccCceEEEEecccceEEEEEEeeccccceeccCCccccccCHHHHHHHHccccC-CCceEEEeecCCceEEEE
Confidence 335677777778888888888888887776321 1245556666666665554333 67888888754 34 4
Q ss_pred EEECC----EEEEEEecc--ccCCCcccccc-cCcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecC
Q psy13355 229 IIFSN----IEIISKLID--GKFLDYKYVIS-NKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSS 301 (314)
Q Consensus 229 ~~~~~----~~~~~~li~--g~yP~~~~v~p-~~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~ 301 (314)
|+..+ ..|..+|.+ ..+-. || .+++..++++..+|....+-++.+++ .|.+..++.++.+++..
T Consensus 103 fe~~~~dki~dy~lKLmdiD~ehl~----IPe~dy~~~~~mPa~EF~ricrdls~f~D----sv~I~~tkegv~F~~~G- 173 (260)
T KOG1636|consen 103 FESPKQDKIADYELKLMDIDSEHLG----IPEQDYDAVVTMPAGEFSRICRDLSTFSD----SVVISATKEGVKFSAKG- 173 (260)
T ss_pred EECCCCCcceeeEEEeeeccHHHcC----CCcccceEEEEccHHHHHHHHHHHhhhcC----eEEEEEecceeEEEecc-
Confidence 44432 345666655 33333 45 47899999999999999999998874 47888899999999874
Q ss_pred CcceeEEEEe
Q psy13355 302 NREKASSTDL 311 (314)
Q Consensus 302 d~G~a~e~~~ 311 (314)
|+|.+.-++.
T Consensus 174 dig~asi~l~ 183 (260)
T KOG1636|consen 174 DIGTASITLS 183 (260)
T ss_pred cccceeEEEc
Confidence 9999876653
No 54
>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 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 Saccharomyces cerevisiae (Baker's 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; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....
Probab=95.82 E-value=0.2 Score=39.49 Aligned_cols=87 Identities=10% Similarity=0.128 Sum_probs=66.0
Q ss_pred Ee-ehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeE--EEEEEEEeee-----eccceEEEEechHH
Q psy13355 6 NT-EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEV--QITTYTAVGY-----GNSSINIIVAARKF 77 (314)
Q Consensus 6 ~i-~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~--~~~~~~~~~~-----~~~~G~~~v~~k~l 77 (314)
++ +...|.+.+..++..+. .+.+++.++++.+.|.|... -+...+|.+. .+++-.+.|+-..|
T Consensus 5 ~~~~a~~~K~i~eal~~lv~---------e~~f~~~~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~igvnl~~l 75 (127)
T PF00705_consen 5 KFSDASLFKKIFEALKDLVD---------EANFEFTEDGISLQAMDPSHVALVDLELPSEAFEEYRCDKELSIGVNLSDL 75 (127)
T ss_dssp EESSHHHHHHHHHHHTTTCS---------EEEEEEESSEEEEEEE-TTSSEEEEEEEEGGGSSEEEESSSEEEEEEHHHH
T ss_pred EEcchHHHHHHHHHHHHHhh---------EEEEEEccCCEEEEEECCCcEEEEEEEechhcceEEEcCCCEEEEEEHHHH
Confidence 54 56677777777777665 67889999999999999884 4567777632 23567899999999
Q ss_pred HHHHhcCCCCCcEEEEEeC--CEEEE
Q psy13355 78 IDILRSLPETEKVTIYIEN--KHMFI 101 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~~--~~l~I 101 (314)
..++|....++.+.++.++ +.+.|
T Consensus 76 ~kiLk~~~~~D~l~l~~~~~~~~l~i 101 (127)
T PF00705_consen 76 KKILKRAKKDDSLELESDEEPDKLNI 101 (127)
T ss_dssp HHHHTTSSTTSEEEEEEESSSSEEEE
T ss_pred HHHHhhccCCCEEEEEEeCCCCEEEE
Confidence 9999999887679999864 45543
No 55
>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage.; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.
Probab=95.24 E-value=2 Score=37.92 Aligned_cols=203 Identities=14% Similarity=0.213 Sum_probs=115.1
Q ss_pred HHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEE--Ee----ee----e-ccceEEEEechHHHHH
Q psy13355 12 ILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYT--AV----GY----G-NSSINIIVAARKFIDI 80 (314)
Q Consensus 12 l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~--~~----~~----~-~~~G~~~v~~k~l~~i 80 (314)
|.++|+.++++= ..++|++.+++|.+.|.|...+..+.+ .. .. . .+.-.+.++.|.++.+
T Consensus 1 f~ral~~Lskig---------eel~ie~~~~~L~l~avNss~Sa~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~v 71 (252)
T PF04139_consen 1 FARALQCLSKIG---------EELYIEITEDGLSLRAVNSSRSAYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSV 71 (252)
T ss_dssp HHHHHHHHHTT----------SEEEEEEETTEEEEEEE-TTSSEEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHH
T ss_pred CHHHHHHHHhhC---------CeEEEEEcCCeEEEEEECccccEEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhh
Confidence 356666666643 489999999999999999886544443 21 11 1 1233577999999999
Q ss_pred HhcCCCCC----cEEEEEe--CCEEEE--EECCe---EEEEecCCCCCCCC-CcCCCCCceEEEEeHHHHHHHHhhhccc
Q psy13355 81 LRSLPETE----KVTIYIE--NKHMFI--KSGKS---KFTLQTLDAKEYPI-MTLNSKYDFEFTLSQKTLKCILNMVYFS 148 (314)
Q Consensus 81 ik~l~~~~----~v~l~~~--~~~l~I--~~g~~---~~~l~~~~~~~fP~-~~~~~~~~~~~~v~~~~l~~~i~~v~~a 148 (314)
.|.+...+ .+.|.++ ...|.+ .|... +|+++..+.+.-+. +.... ....+.+++..|.+++.....
T Consensus 72 fr~~~~~~~~Ve~c~i~i~~~~~~L~~~l~c~~gI~Kt~~l~~~~~~~~~a~~d~~~-~~n~l~~~~~~l~~~l~~f~~- 149 (252)
T PF04139_consen 72 FRSLSTLEKNVESCEISIDNDESRLIFQLFCKNGIIKTYNLPYEECESLQAVFDKES-CPNYLVISPRLLKDLLDHFPS- 149 (252)
T ss_dssp HSSCTCCHHCEEEEEEEE-TTSSEEEEEEEEGGGEEEEEEEE-CE---------GGG-SSEEEEEEHHHHHHHHTTS-T-
T ss_pred hccccccccceeEEEEEEcCCCcEEEEEEEeccceEEEEEEEEEeccccccccchhc-CCceEEEChHHHHHHHhhcCC-
Confidence 99765211 2556664 345544 45532 68887665443322 22222 257899999999999996543
Q ss_pred cccccccceeeeEEEEEECCEEEEEEe-----ccceEEEEEEecCCC------CCCcceEEEehhhHHHHHhhhcCCCCc
Q psy13355 149 IAQQDIRYYLNGLLLSFQKKNIIAVSS-----DGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTLQRLLENKENP 217 (314)
Q Consensus 149 ~s~~~~~~~l~gv~l~~~~~~l~~~aT-----Dg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l~k~l~~~~~~ 217 (314)
+.++ |-+++.++.+.+.+- |+.+....++.+... ..++..+.++-|-++.++...+..+.+
T Consensus 150 -~~ee-------itl~~~~~~v~~~s~~~~~~~~~~~l~t~v~i~~~ef~~~~~~~~~~itF~lKefka~l~~ae~~~~~ 221 (252)
T PF04139_consen 150 -STEE-------ITLEVTDDKVSFKSYTEEIQDSKQPLSTEVTISTEEFDEYNVQEDTDITFSLKEFKAILSFAESLSLP 221 (252)
T ss_dssp -T--E-------EEEEEECTCEEEEEE-----SSS---EEEEEE-GGGSSEEE--TT-EEEEEHHHHHHHHHHHHHTTEE
T ss_pred -Chhh-------EEEEecCCEEEEEeecccccccccceEEEEEEehHhcceEEcCCCCEEEEEeHHHHHHHHHHHhcCCc
Confidence 2333 666777776666542 222222333333311 123568999999999888876544568
Q ss_pred EEEEEe--CcEEEEEECC
Q psy13355 218 VELKIS--NNQIKIIFSN 233 (314)
Q Consensus 218 v~i~~~--~~~~~~~~~~ 233 (314)
+.++++ ++=+.|+.++
T Consensus 222 i~~~f~~pG~Pi~~~~~~ 239 (252)
T PF04139_consen 222 ISIYFDNPGRPILFELEQ 239 (252)
T ss_dssp EEEEESSTTS-EEEEEE-
T ss_pred EEEEECCCCCcEEEEECC
Confidence 888886 4556666544
No 56
>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 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 Saccharomyces cerevisiae (Baker's 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; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....
Probab=93.15 E-value=3.4 Score=32.45 Aligned_cols=89 Identities=9% Similarity=0.128 Sum_probs=65.4
Q ss_pred eHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEeccceEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13355 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (314)
Q Consensus 134 ~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aTDg~Rl~~~~~~~~~~------~~~~~~~iip~~~l~~l 207 (314)
++..|++++....--+ .-+.|+++++++.+.|.|..|.+...+.++.. .+.+..+-|+-+.+..+
T Consensus 8 ~a~~~K~i~eal~~lv---------~e~~f~~~~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~igvnl~~l~ki 78 (127)
T PF00705_consen 8 DASLFKKIFEALKDLV---------DEANFEFTEDGISLQAMDPSHVALVDLELPSEAFEEYRCDKELSIGVNLSDLKKI 78 (127)
T ss_dssp SHHHHHHHHHHHTTTC---------SEEEEEEESSEEEEEEE-TTSSEEEEEEEEGGGSSEEEESSSEEEEEEHHHHHHH
T ss_pred chHHHHHHHHHHHHHh---------hEEEEEEccCCEEEEEECCCcEEEEEEEechhcceEEEcCCCEEEEEEHHHHHHH
Confidence 5777777777765432 23889999999999999999999988776631 12367899999999988
Q ss_pred HhhhcCCCCcEEEEEeCc--EE--EEEEC
Q psy13355 208 QRLLENKENPVELKISNN--QI--KIIFS 232 (314)
Q Consensus 208 ~k~l~~~~~~v~i~~~~~--~~--~~~~~ 232 (314)
+|.... ++.+.++++++ .+ .|+..
T Consensus 79 Lk~~~~-~D~l~l~~~~~~~~l~i~~~~~ 106 (127)
T PF00705_consen 79 LKRAKK-DDSLELESDEEPDKLNIVFENE 106 (127)
T ss_dssp HTTSST-TSEEEEEEESSSSEEEEEEEET
T ss_pred HhhccC-CCEEEEEEeCCCCEEEEEEEcC
Confidence 887765 57899998864 44 44544
No 57
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 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 Saccharomyces cerevisiae (Baker's 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; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=92.44 E-value=0.87 Score=35.82 Aligned_cols=53 Identities=9% Similarity=0.234 Sum_probs=42.6
Q ss_pred ccc-CcceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEEecCCcceeEEE
Q psy13355 252 ISN-KYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASST 309 (314)
Q Consensus 252 ~p~-~~~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~~~~d~G~a~e~ 309 (314)
+|. +++..+.++..+|.++++-+..+++ .|.|...++++.+++.+ |.|+++-.
T Consensus 2 iP~~e~~~~v~m~S~~f~~~~kdl~~v~d----~v~i~~~~~~~~f~~~G-d~~~~~v~ 55 (128)
T PF02747_consen 2 IPDLEYDATVTMPSSEFKKICKDLSSVGD----TVTISADKDSVIFSAEG-DIGSAEVE 55 (128)
T ss_dssp ---SS-SEEEEEEHHHHHHHHHHHHTTCS----EEEEEEETTEEEEEEEE-SSEEEEEE
T ss_pred CCCccceEEEEEEHHHHHHHHHHHHhcCC----EEEEEEeCCEEEEEEEe-ccCcEEEE
Confidence 354 6789999999999999999999974 59999999999999874 88876543
No 58
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 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 Saccharomyces cerevisiae (Baker's 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; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=82.27 E-value=22 Score=27.79 Aligned_cols=86 Identities=8% Similarity=0.096 Sum_probs=60.7
Q ss_pred eEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEe-----------ee-eccceEEE
Q psy13355 4 VVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV-----------GY-GNSSINII 71 (314)
Q Consensus 4 ~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~-----------~~-~~~~G~~~ 71 (314)
.|+++..+|.++++-+..+-+ +|.|.+.++++.|.+....-.....+.. .. ..++-+..
T Consensus 10 ~v~m~S~~f~~~~kdl~~v~d---------~v~i~~~~~~~~f~~~Gd~~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~ 80 (128)
T PF02747_consen 10 TVTMPSSEFKKICKDLSSVGD---------TVTISADKDSVIFSAEGDIGSAEVEFKETESSEDDEELIEIEVKEPVSSS 80 (128)
T ss_dssp EEEEEHHHHHHHHHHHHTTCS---------EEEEEEETTEEEEEEEESSEEEEEEEEEEEEETTCTCESEEEESSEEEEE
T ss_pred EEEEEHHHHHHHHHHHHhcCC---------EEEEEEeCCEEEEEEEeccCcEEEEEeeccccccccccceeeeccceeeE
Confidence 358899999999999887553 8899999999999987533223333221 01 11333457
Q ss_pred EechHHHHHHhcCCCCCcEEEEEeCCE
Q psy13355 72 VAARKFIDILRSLPETEKVTIYIENKH 98 (314)
Q Consensus 72 v~~k~l~~iik~l~~~~~v~l~~~~~~ 98 (314)
.+-+.|..+.|..+-.+.|+|...++.
T Consensus 81 fsl~YL~~~~Ka~~ls~~V~l~l~~~~ 107 (128)
T PF02747_consen 81 FSLDYLNDFSKAAPLSDEVTLELGEDM 107 (128)
T ss_dssp EEHHHHHHHGGGGGTTSEEEEEEETTS
T ss_pred EeHHHHHhhhccccCCceEEEEEcCCC
Confidence 888999999998875556999987653
No 59
>TIGR02174 CXXU_selWTH selT/selW/selH selenoprotein domain. This model represents a domain found in both bacteria and animals, including animal proteins SelT, SelW, and SelH, all of which are selenoproteins. In a CXXC motif near the N-terminus of the domain, selenocysteine may replace the second Cys. Proteins with this domain may include an insert of about 70 amino acids. This model is broader than the current SelW model pfam05169 in Pfam.
Probab=66.30 E-value=28 Score=24.23 Aligned_cols=46 Identities=15% Similarity=0.134 Sum_probs=33.1
Q ss_pred HHHHhhhcCCCCcEEEEE---eCcEEEEEECCEEEEEEeccccCCCccccc
Q psy13355 205 FTLQRLLENKENPVELKI---SNNQIKIIFSNIEIISKLIDGKFLDYKYVI 252 (314)
Q Consensus 205 ~~l~k~l~~~~~~v~i~~---~~~~~~~~~~~~~~~~~li~g~yP~~~~v~ 252 (314)
.+|...+++ ..+.+.. ..+.+.+..++..+.+++.+|.||+.+.++
T Consensus 20 q~L~~~Fp~--~~v~~~~~~~~~G~Fev~~~g~~v~sk~~~~~fp~~~~~~ 68 (72)
T TIGR02174 20 QELLEEFPD--LEIEGENTPPTTGAFEVTVNGQLVWSKLRGGGFPEPEELK 68 (72)
T ss_pred HHHHHHCCC--CeeEEeeecCCCcEEEEEECCEEEEEeccCCCCCCHHHHH
Confidence 455555654 2444443 256788888999999999999999987765
No 60
>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus. REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.
Probab=63.47 E-value=1.1e+02 Score=27.32 Aligned_cols=216 Identities=16% Similarity=0.147 Sum_probs=116.5
Q ss_pred EEechHHHHHHhcCCCCCcEEEEEeCCEEEE--EECCeEEEEecCCCCCCCCCcC-----------CCCCceEEEEeHHH
Q psy13355 71 IVAARKFIDILRSLPETEKVTIYIENKHMFI--KSGKSKFTLQTLDAKEYPIMTL-----------NSKYDFEFTLSQKT 137 (314)
Q Consensus 71 ~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I--~~g~~~~~l~~~~~~~fP~~~~-----------~~~~~~~~~v~~~~ 137 (314)
+-+++.|..+++.+.-...+++++..+.+++ ..+++-.-...++.+-|-++.. .++....|.|+-..
T Consensus 6 ~~~~~~l~~lL~~I~~~~~a~v~is~~Gi~~~vE~~~~~qa~a~l~k~LF~~Y~~~~~~~~~~~~~~~~~~~~F~I~L~~ 85 (275)
T PF02144_consen 6 TSNVRHLYQLLKCIAFKNKATVEISEDGIKFTVEDSKSIQASAFLDKSLFSEYTFNPPPDADDDDEEEEDEVSFGINLSA 85 (275)
T ss_dssp ES-THHHHHHHHTT-SSSEEEEEEETTEEEEEEEETTTEEEEEEEEGGGSSEEEE------------SSS-EEEEEEHHH
T ss_pred ECCHHHHHHHHHhcccCCeEEEEEcCCEEEEEEECCcEEEEEEEEChhhceEEEEeccccccccccCCCCceEEEEEhHH
Confidence 3467899999999976556888887665544 4444322222334444544433 11236899999999
Q ss_pred HHHHHhhhcccccccccc------------ceeeeEEEEEE--CCEEEEEEeccceEEEEEEe---cCC-------CCCC
Q psy13355 138 LKCILNMVYFSIAQQDIR------------YYLNGLLLSFQ--KKNIIAVSSDGHRLTYYQVN---IDK-------KFSS 193 (314)
Q Consensus 138 l~~~i~~v~~a~s~~~~~------------~~l~gv~l~~~--~~~l~~~aTDg~Rl~~~~~~---~~~-------~~~~ 193 (314)
|.+.|.-........... -....+.|... +.-|.+.=.|+--...+.+. .+. ...-
T Consensus 86 LlecL~ifg~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsY~g~G~pL~l~led~gv~t~c~i~T~~~~~~~d~~f~~~~~ 165 (275)
T PF02144_consen 86 LLECLNIFGSSDSSSSSSSSGGDPSRNNASGEPTSCRLSYPGEGSPLVLILEDSGVTTTCEIRTYEPDDPLDFPFDRSDV 165 (275)
T ss_dssp HHHHHTTT-SS--TT-----------------EEEEEEEESSSCCEEEEEEEETTEEEEEEEEEE-----------TTTE
T ss_pred HHHHHHHhCCCCCccccccccccccccccccCCceEEEEEcCCCCeEEEEEEeCCEEEEEEEEEecCCcccCcccccccc
Confidence 999998776443321100 01122344433 34566655554333333221 111 0112
Q ss_pred cceEEEehhhHHHHHhhhcCC-CCcEEEEEeC---cEEEEEECCEEEEEEeccccCCCccccccc-Cc----ceEEEEeh
Q psy13355 194 CSDIIIPRKTVFTLQRLLENK-ENPVELKISN---NQIKIIFSNIEIISKLIDGKFLDYKYVISN-KY----EKSFLVNR 264 (314)
Q Consensus 194 ~~~~iip~~~l~~l~k~l~~~-~~~v~i~~~~---~~~~~~~~~~~~~~~li~g~yP~~~~v~p~-~~----~~~~~v~~ 264 (314)
...+++..++|.++.+-|... .+.++|+++. .++.|++.+- +-+ ..=+||+=+.++.. +. ......-+
T Consensus 166 ~~kiimks~~L~~al~eL~~~~~~~l~i~~s~~~~p~f~l~s~G~-~G~--s~v~fp~~~~~le~f~~~~~~~~~~~~Y~ 242 (275)
T PF02144_consen 166 VNKIIMKSDWLRDALSELDWSNSEELTIYISPPDKPHFRLSSKGP-LGS--SKVDFPNDSDVLETFECYDGEEPVISRYK 242 (275)
T ss_dssp EEEEEEEHHHHHHHHHTT-TS-CSEEEEEE-S-SSSSEEEEEEET-TEE--EEEEE-TTSTSEEEEEE----S-EEEEEE
T ss_pred eeEEEEEhHHHHHHHHHHhhccCCeEEEEEEeCCCCEEEEEEEcC-CCe--EEEEECCCCCceeEEEEeccCceEEEEEe
Confidence 467999999999999999875 6789999887 4666655431 111 22367776666543 21 23333345
Q ss_pred HHHHHHHhHHhhhhcCCCCeEEEEEECCE
Q psy13355 265 NKLLRSLQRISIISNDKLKGVRLVIKPNY 293 (314)
Q Consensus 265 ~~l~~al~rv~~~~~~~~~~v~l~~~~~~ 293 (314)
-.++..+.|+.-+++ .+.+.++.++
T Consensus 243 f~~i~~~~kAl~~ss----Kv~ir~d~~G 267 (275)
T PF02144_consen 243 FSLIKKAMKALKISS----KVSIRIDENG 267 (275)
T ss_dssp HHHHCCHHHHHTTSS----EEEEEEESSS
T ss_pred HHHHHHHHHHhhhcc----EEEEEeCCCc
Confidence 555666666666654 4788887643
No 61
>COG3526 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]
Probab=62.09 E-value=26 Score=25.20 Aligned_cols=48 Identities=19% Similarity=0.199 Sum_probs=38.2
Q ss_pred HHHHHhhhcCCCCcEEEEEe-CcEEEEEECCEEEEEEeccccCCCcccc
Q psy13355 204 VFTLQRLLENKENPVELKIS-NNQIKIIFSNIEIISKLIDGKFLDYKYV 251 (314)
Q Consensus 204 l~~l~k~l~~~~~~v~i~~~-~~~~~~~~~~~~~~~~li~g~yP~~~~v 251 (314)
.++++..+.++-++|.+.-+ ++.+.+..++..+.-|--+|.||+-..+
T Consensus 26 aQElL~TF~~dlgeV~L~PgTGG~FeI~~dg~~iWeRKrdGGFP~ak~L 74 (99)
T COG3526 26 AQELLSTFADDLGEVALIPGTGGVFEITCDGVLIWERKRDGGFPEAKVL 74 (99)
T ss_pred HHHHHHHHHhhhheEEEecCCCceEEEEECCEEEEEeeccCCCCchHHH
Confidence 46788888764467888765 5778999999999999999999986543
No 62
>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3.1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other []. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This entry represents the uncharacterised N-terminal domain of bacterial RNase HIII.; PDB: 3ASM_A 2D0C_A 2D0B_A 2D0A_A.
Probab=57.15 E-value=70 Score=22.95 Aligned_cols=65 Identities=5% Similarity=0.004 Sum_probs=44.7
Q ss_pred CeEeEEeehHHHHHHHHHhhccccCCCCccccccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHH
Q psy13355 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (314)
Q Consensus 1 Mk~~~~i~~~~l~~al~~v~~~~~~~~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~i 80 (314)
|.+|++++.+.+.+..+......-.+.+ .++.+.++-+++++++. ..|.+++.++.-...
T Consensus 1 ~~~vlkl~~~~i~~l~~~y~~~~~~~~~----p~~~f~aK~~~~tIt~Y----------------~SGKV~FQG~~Ae~~ 60 (81)
T PF11858_consen 1 SNIVLKLTSEQIEKLKKYYKPYLTSSKP----PYAVFQAKYNGVTITAY----------------KSGKVVFQGKNAEQE 60 (81)
T ss_dssp -EEEEE--HHHHHHHHHHSTT-B-SS------TTEEEEEEETTEEEEEE----------------TTSEEEEESTTHHHH
T ss_pred CCEEEECCHHHHHHHHHHHHHhcccCCC----CCEEEEEeCCCeEEEEE----------------eCCeEEEECCCHHHH
Confidence 4567788999988888888544432211 38889998887777776 478888888888888
Q ss_pred HhcCC
Q psy13355 81 LRSLP 85 (314)
Q Consensus 81 ik~l~ 85 (314)
...+.
T Consensus 61 A~~~~ 65 (81)
T PF11858_consen 61 AAKWG 65 (81)
T ss_dssp HHTTS
T ss_pred HHHhC
Confidence 88883
No 63
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=56.36 E-value=41 Score=20.23 Aligned_cols=36 Identities=8% Similarity=0.196 Sum_probs=26.8
Q ss_pred cceEEEEechHHHHHHhcCCCCCcEEEEE-eCCEEEEEE
Q psy13355 66 SSINIIVAARKFIDILRSLPETEKVTIYI-ENKHMFIKS 103 (314)
Q Consensus 66 ~~G~~~v~~k~l~~iik~l~~~~~v~l~~-~~~~l~I~~ 103 (314)
+.|.+.+|+ .+.+.+..-+++. +.+.. .++.+.|..
T Consensus 5 ~kgri~iP~-~~r~~l~~~~gd~-~~i~~~~~~~l~l~p 41 (43)
T TIGR01439 5 KKGQIVIPK-EIREKLGLKEGDR-LEVIRVEDGEIILRP 41 (43)
T ss_pred cCCeEEecH-HHHHHcCcCCCCE-EEEEEeCCCEEEEEE
Confidence 689999995 5777777666664 88884 467787764
No 64
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. 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 [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=54.64 E-value=35 Score=23.91 Aligned_cols=48 Identities=23% Similarity=0.313 Sum_probs=33.0
Q ss_pred HHHHhhhcCCCCcEEEEEe-CcEEEEEECCEEEEEEeccccCCCccccc
Q psy13355 205 FTLQRLLENKENPVELKIS-NNQIKIIFSNIEIISKLIDGKFLDYKYVI 252 (314)
Q Consensus 205 ~~l~k~l~~~~~~v~i~~~-~~~~~~~~~~~~~~~~li~g~yP~~~~v~ 252 (314)
.+|...+++.-.+|++... .+.+.+..++-.+++++-.|.||+.+.++
T Consensus 22 ~~l~~~fp~~~~~v~~~~~~~G~FEV~v~g~lI~SK~~~g~fP~~~~i~ 70 (76)
T PF10262_consen 22 QELLQTFPDRIAEVELSPGSTGAFEVTVNGELIFSKLESGRFPDPDEIV 70 (76)
T ss_dssp HHHHHHSTTTCSEEEEEEESTT-EEEEETTEEEEEHHHHTSSS-HHHHH
T ss_pred HHHHHHCCCcceEEEEEeccCCEEEEEEccEEEEEehhcCCCCCHHHHH
Confidence 3444445531135666553 57788899999999999999999988765
No 65
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=53.95 E-value=47 Score=20.80 Aligned_cols=36 Identities=19% Similarity=0.344 Sum_probs=24.2
Q ss_pred cceEEEEechHHHHHHhcCCCCCcEEEEEeCC-EEEEEE
Q psy13355 66 SSINIIVAARKFIDILRSLPETEKVTIYIENK-HMFIKS 103 (314)
Q Consensus 66 ~~G~~~v~~k~l~~iik~l~~~~~v~l~~~~~-~l~I~~ 103 (314)
..+.+.+|.. +.+-+ .+..+++|.+..+++ .+.|+-
T Consensus 5 ~s~~v~iPk~-~~~~l-~l~~Gd~v~i~~~~~g~i~i~p 41 (47)
T PF04014_consen 5 NSGQVTIPKE-IREKL-GLKPGDEVEIEVEGDGKIVIRP 41 (47)
T ss_dssp TCSEEEE-HH-HHHHT-TSSTTTEEEEEEETTSEEEEEE
T ss_pred CCceEECCHH-HHHHc-CCCCCCEEEEEEeCCCEEEEEE
Confidence 5678999965 44444 455555699998876 788764
No 66
>PF10106 DUF2345: Uncharacterized protein conserved in bacteria (DUF2345); InterPro: IPR018769 This entry represents the C-terminal domain of a subset of the Rhs element Vgr protein family found only in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often encoded far from the type VI secretion locus.
Probab=52.96 E-value=42 Score=27.28 Aligned_cols=42 Identities=12% Similarity=0.252 Sum_probs=20.0
Q ss_pred ccEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEec
Q psy13355 33 SNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAA 74 (314)
Q Consensus 33 ~~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~ 74 (314)
.++++-+..|.+.+.|-+.++.+...-...+....+.+.+.+
T Consensus 72 ~Gi~liA~~G~v~iqAq~~~~~l~A~k~i~i~S~~~~I~i~A 113 (155)
T PF10106_consen 72 GGIKLIAAQGKVEIQAQSDDMELTAKKDITITSTEGKIVITA 113 (155)
T ss_pred cceeEEEcCCcEEEEEcCCchhhhccCcEEEEECCCcEEEEe
Confidence 355555555555555554444443333333331245555555
No 67
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=52.66 E-value=69 Score=24.01 Aligned_cols=54 Identities=6% Similarity=0.033 Sum_probs=39.6
Q ss_pred EEEehHHHHHHHhHHhhhhcCCCCeEEEEEEC--CEEEEEEecCCcceeEEEEeec
Q psy13355 260 FLVNRNKLLRSLQRISIISNDKLKGVRLVIKP--NYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 260 ~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~--~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
-..+..++..+++++.-+....+..+.|.+++ |.+.+.-.|.+.|+.=-+||.+
T Consensus 32 ~~~~~e~l~~~v~~ln~~~~~~~~~l~F~vde~~~~~vVkViD~~T~eVIRqIP~E 87 (107)
T PF03646_consen 32 KEPSKEELEEAVEKLNEFLQALNTSLRFSVDEESGRVVVKVIDKETGEVIRQIPPE 87 (107)
T ss_dssp ----HHHHHHHHHHHHHHHTTSS--EEEEEEEETTEEEEEEEETTT-SEEEEE-HH
T ss_pred ccCCHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECCCCcEEEeCCcH
Confidence 67889999999999998876666778888874 6899999999999998888854
No 68
>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage.; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.
Probab=47.43 E-value=1.9e+02 Score=25.20 Aligned_cols=188 Identities=12% Similarity=0.216 Sum_probs=103.3
Q ss_pred HHHHhcCCCCCcEEEEEeCCEEEEEE---CCeEEEEecCCCCCCCCC--cCCCCCceEEEEeHHHHHHHHhhhccccccc
Q psy13355 78 IDILRSLPETEKVTIYIENKHMFIKS---GKSKFTLQTLDAKEYPIM--TLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (314)
Q Consensus 78 ~~iik~l~~~~~v~l~~~~~~l~I~~---g~~~~~l~~~~~~~fP~~--~~~~~~~~~~~v~~~~l~~~i~~v~~a~s~~ 152 (314)
+.-+.++.++ |.|+..++.|.+++ .++.|---.+.+.=|-.+ .........+.+..+.+..+++... ..
T Consensus 5 l~~Lskigee--l~ie~~~~~L~l~avNss~Sa~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~vfr~~~----~~ 78 (252)
T PF04139_consen 5 LQCLSKIGEE--LYIEITEDGLSLRAVNSSRSAYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSVFRSLS----TL 78 (252)
T ss_dssp HHHHHTT-SE--EEEEEETTEEEEEEE-TTSSEEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHHHSSCT----CC
T ss_pred HHHHHhhCCe--EEEEEcCCeEEEEEECccccEEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhhhcccc----cc
Confidence 3445667543 99999888888775 344443334455555555 1222125678899988888887321 00
Q ss_pred cccceeeeEEEEEEC--CEEEE--EEeccceEEEEEEecCCC------C---CCcceEEEehhhHHHHHhhhcCCCCcEE
Q psy13355 153 DIRYYLNGLLLSFQK--KNIIA--VSSDGHRLTYYQVNIDKK------F---SSCSDIIIPRKTVFTLQRLLENKENPVE 219 (314)
Q Consensus 153 ~~~~~l~gv~l~~~~--~~l~~--~aTDg~Rl~~~~~~~~~~------~---~~~~~~iip~~~l~~l~k~l~~~~~~v~ 219 (314)
-.......+.++. ++|.+ ....|.+ -.+.+++.+. . ...-.+.++++.+.+++..++...++|+
T Consensus 79 --~~~Ve~c~i~i~~~~~~L~~~l~c~~gI~-Kt~~l~~~~~~~~~a~~d~~~~~n~l~~~~~~l~~~l~~f~~~~eeit 155 (252)
T PF04139_consen 79 --EKNVESCEISIDNDESRLIFQLFCKNGII-KTYNLPYEECESLQAVFDKESCPNYLVISPRLLKDLLDHFPSSTEEIT 155 (252)
T ss_dssp --HHCEEEEEEEE-TTSSEEEEEEEEGGGEE-EEEEEE-CE---------GGGSSEEEEEEHHHHHHHHTTS-TT--EEE
T ss_pred --ccceeEEEEEEcCCCcEEEEEEEeccceE-EEEEEEEEeccccccccchhcCCceEEEChHHHHHHHhhcCCChhhEE
Confidence 0122334444432 33333 3444321 2223333321 0 1246799999999999999986568999
Q ss_pred EEEeCcEEEEEEC------C-EEEE--EEeccccCCCcccccccCcceEEEEehHHHHHHHhHHhhhh
Q psy13355 220 LKISNNQIKIIFS------N-IEII--SKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIIS 278 (314)
Q Consensus 220 i~~~~~~~~~~~~------~-~~~~--~~li~g~yP~~~~v~p~~~~~~~~v~~~~l~~al~rv~~~~ 278 (314)
+.+..+++.++.= + -.+. ..+-..+|=+|.- ..+..+++.-++|+..+.-+..+.
T Consensus 156 l~~~~~~v~~~s~~~~~~~~~~~l~t~v~i~~~ef~~~~~----~~~~~itF~lKefka~l~~ae~~~ 219 (252)
T PF04139_consen 156 LEVTDDKVSFKSYTEEIQDSKQPLSTEVTISTEEFDEYNV----QEDTDITFSLKEFKAILSFAESLS 219 (252)
T ss_dssp EEEECTCEEEEEE-----SSS---EEEEEE-GGGSSEEE------TT-EEEEEHHHHHHHHHHHHHTT
T ss_pred EEecCCEEEEEeecccccccccceEEEEEEehHhcceEEc----CCCCEEEEEeHHHHHHHHHHHhcC
Confidence 9999998888651 1 1222 2233355555543 223789999999999998887654
No 69
>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus. REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.
Probab=42.82 E-value=2.5e+02 Score=25.09 Aligned_cols=180 Identities=11% Similarity=0.180 Sum_probs=105.2
Q ss_pred EEEEEECCEEEEEEecCe-EEEEEEEEee------e------------eccceEEEEechHHHHHHhcCCCCC-------
Q psy13355 35 ILVCKNSEKISFLSTDTE-VQITTYTAVG------Y------------GNSSINIIVAARKFIDILRSLPETE------- 88 (314)
Q Consensus 35 i~i~~~~~~l~l~atd~~-~~~~~~~~~~------~------------~~~~G~~~v~~k~l~~iik~l~~~~------- 88 (314)
+.+++..++|+|+.-+.. +.+.+.++.+ . ..+...+.|+-..|++-+.-+....
T Consensus 25 a~v~is~~Gi~~~vE~~~~~qa~a~l~k~LF~~Y~~~~~~~~~~~~~~~~~~~~F~I~L~~LlecL~ifg~~~~~~~~~~ 104 (275)
T PF02144_consen 25 ATVEISEDGIKFTVEDSKSIQASAFLDKSLFSEYTFNPPPDADDDDEEEEDEVSFGINLSALLECLNIFGSSDSSSSSSS 104 (275)
T ss_dssp EEEEEETTEEEEEEEETTTEEEEEEEEGGGSSEEEE------------SSS-EEEEEEHHHHHHHHTTT-SS--TT----
T ss_pred EEEEEcCCEEEEEEECCcEEEEEEEEChhhceEEEEeccccccccccCCCCceEEEEEhHHHHHHHHHhCCCCCcccccc
Confidence 889999999999987755 5777777631 1 1245678999999999998775432
Q ss_pred ---------------cEEEEEe--CC--EEEEEECC--eEEEEecCCCCCCCCCcCCCC-CceEEEEeHHHHHHHHhhhc
Q psy13355 89 ---------------KVTIYIE--NK--HMFIKSGK--SKFTLQTLDAKEYPIMTLNSK-YDFEFTLSQKTLKCILNMVY 146 (314)
Q Consensus 89 ---------------~v~l~~~--~~--~l~I~~g~--~~~~l~~~~~~~fP~~~~~~~-~~~~~~v~~~~l~~~i~~v~ 146 (314)
.+.|... |. .|.+.-++ .+..+.++.+++--+++.-.. ...++.+.++.|++++.-..
T Consensus 105 ~~~~~~~~~~~~~~~~~~lsY~g~G~pL~l~led~gv~t~c~i~T~~~~~~~d~~f~~~~~~~kiimks~~L~~al~eL~ 184 (275)
T PF02144_consen 105 SGGDPSRNNASGEPTSCRLSYPGEGSPLVLILEDSGVTTTCEIRTYEPDDPLDFPFDRSDVVNKIIMKSDWLRDALSELD 184 (275)
T ss_dssp -------------EEEEEEEESSSCCEEEEEEEETTEEEEEEEEEE-----------TTTEEEEEEEEHHHHHHHHHTT-
T ss_pred ccccccccccccCCceEEEEEcCCCCeEEEEEEeCCEEEEEEEEEecCCcccCcccccccceeEEEEEhHHHHHHHHHHh
Confidence 2455554 33 34455555 367888887775555555332 35789999999999999876
Q ss_pred cccccccccceeeeEEEEEEC---CEEEEEEeccceEEEEEEecCCCCC--CcceEE---------EehhhHHHHHhhhc
Q psy13355 147 FSIAQQDIRYYLNGLLLSFQK---KNIIAVSSDGHRLTYYQVNIDKKFS--SCSDII---------IPRKTVFTLQRLLE 212 (314)
Q Consensus 147 ~a~s~~~~~~~l~gv~l~~~~---~~l~~~aTDg~Rl~~~~~~~~~~~~--~~~~~i---------ip~~~l~~l~k~l~ 212 (314)
..-+ +. +.+.+.+ ..+.+.+. |. +...+++++...+ +.++.- -+-+.++.+.|.++
T Consensus 185 ~~~~-~~-------l~i~~s~~~~p~f~l~s~-G~-~G~s~v~fp~~~~~le~f~~~~~~~~~~~~Y~f~~i~~~~kAl~ 254 (275)
T PF02144_consen 185 WSNS-EE-------LTIYISPPDKPHFRLSSK-GP-LGSSKVDFPNDSDVLETFECYDGEEPVISRYKFSLIKKAMKALK 254 (275)
T ss_dssp TS-C-SE-------EEEEE-S-SSSSEEEEEE-ET-TEEEEEEE-TTSTSEEEEEE----S-EEEEEEHHHHCCHHHHHT
T ss_pred hccC-Ce-------EEEEEEeCCCCEEEEEEE-cC-CCeEEEEECCCCCceeEEEEeccCceEEEEEeHHHHHHHHHHhh
Confidence 4412 21 4555555 57888887 44 3334444432111 122222 55666777777776
Q ss_pred CCCCcEEEEEeCc
Q psy13355 213 NKENPVELKISNN 225 (314)
Q Consensus 213 ~~~~~v~i~~~~~ 225 (314)
- ...|.|..+.+
T Consensus 255 ~-ssKv~ir~d~~ 266 (275)
T PF02144_consen 255 I-SSKVSIRIDEN 266 (275)
T ss_dssp T-SSEEEEEEESS
T ss_pred h-ccEEEEEeCCC
Confidence 4 46788888854
No 70
>PRK07738 flagellar protein FlaG; Provisional
Probab=42.70 E-value=72 Score=24.69 Aligned_cols=53 Identities=8% Similarity=0.069 Sum_probs=44.4
Q ss_pred EEehHHHHHHHhHHhhhhcCCCCeEEEEEEC--CEEEEEEecCCcceeEEEEeec
Q psy13355 261 LVNRNKLLRSLQRISIISNDKLKGVRLVIKP--NYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 261 ~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~--~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
.+++.++.++++++.-+....+..+.|.+.+ |.+.+.--+.+.|+.=-+||.+
T Consensus 42 ~~s~eel~~aveklN~~l~~~~~~L~F~vdeet~~~vVkVvD~~T~EVIRQIPpE 96 (117)
T PRK07738 42 EVSKEDLEEVVDGMNELLEPSQTSLKFELHEKLNEYYVQVVDERTNEVIREIPPK 96 (117)
T ss_pred cCCHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECCCCeeeeeCCCH
Confidence 5677899999999988876666789999986 5899999999999988888864
No 71
>PRK08868 flagellar protein FlaG; Provisional
Probab=41.70 E-value=68 Score=25.76 Aligned_cols=56 Identities=11% Similarity=0.084 Sum_probs=46.1
Q ss_pred eEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECC--EEEEEEecCCcceeEEEEeec
Q psy13355 258 KSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPN--YLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 258 ~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~--~l~l~~~~~d~G~a~e~~~~~ 313 (314)
..-.+++.++.++++++.-+...-+..+.|.++++ ++.|.--+.+.|+.--+||.+
T Consensus 64 ~~~e~~~eel~~aVeklNe~~~~~n~~L~F~vdeetgr~VVkViD~~T~EVIRQIP~E 121 (144)
T PRK08868 64 QRQELNREELEKMVEQMNEFVKSINKGLSFRVDEESGRDVVTIYEASTGDIIRQIPDE 121 (144)
T ss_pred hhcccCHHHHHHHHHHHHHHHHhhcCceEEEEecCCCCEEEEEEECCCCceeeeCCCH
Confidence 44566889999999999887766667889999864 888999999999988888864
No 72
>PF09116 gp45-slide_C: gp45 sliding clamp, C terminal; InterPro: IPR015200 This domain is essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. It adopts a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo two-fold symmetry []. ; PDB: 1B8H_A 1B77_B 3U61_F 3U60_G 3U5Z_R 1CZD_B.
Probab=40.57 E-value=1.7e+02 Score=22.49 Aligned_cols=96 Identities=15% Similarity=0.164 Sum_probs=55.5
Q ss_pred eEEEEeHHHHHHHHhhhccccccccccceeeeEEEEEECCEEEEEEe---ccc----eEEEEEEecCCCCCCcceEEEeh
Q psy13355 129 FEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSS---DGH----RLTYYQVNIDKKFSSCSDIIIPR 201 (314)
Q Consensus 129 ~~~~v~~~~l~~~i~~v~~a~s~~~~~~~l~gv~l~~~~~~l~~~aT---Dg~----Rl~~~~~~~~~~~~~~~~~iip~ 201 (314)
..|.+.+++|.++.+... ..+ +.-+.|..++|+|.+.++ |+. ..+..-.+.++. .++.+.+..
T Consensus 2 V~F~L~~edl~ql~kas~-~l~-------l~dl~~~~~~gkivv~~~~~~~~~~tsn~ysv~vge~~~~--~~F~f~~k~ 71 (112)
T PF09116_consen 2 VEFELKAEDLQQLMKASR-TLG-------LPDLCFVNDDGKIVVTDFNKDDKNDTSNSYSVEVGEYDGD--NNFCFCFKM 71 (112)
T ss_dssp EEEEE-HHHHHHHHHHHH-HCT---------EEEEEEETTEEEEEEE-TTSTTS-S-SEEEEEEE--SS----EEEEEEG
T ss_pred eEEEecHHHHHHHHHHHH-hcC-------CCeEEEEecCCEEEEEccccccccCCCCceEEEEeccCCC--ccEEEEEEe
Confidence 478899999999887654 233 233788888997777775 332 112221222221 259999998
Q ss_pred hhHHHHHhhhcCCCCcEEEEEeCcEEEEEECCEEEEEEe
Q psy13355 202 KTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKL 240 (314)
Q Consensus 202 ~~l~~l~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~l 240 (314)
.-++ ++++ +-.|.|+- .+...|+..+..+..-+
T Consensus 72 eNmk----~~~g-dY~V~is~-~~aa~F~g~~~~Y~IAl 104 (112)
T PF09116_consen 72 ENMK----MLPG-DYKVKISK-KGAAKFEGDNASYVIAL 104 (112)
T ss_dssp GG--------SS--EEEEEEE-EEEEEEEESSEEEEEEB
T ss_pred ceeE----eecC-CeEEEEEh-hhhhhccCCCceEEEEE
Confidence 8876 5554 44566654 56678888888766544
No 73
>PTZ00179 60S ribosomal protein L9; Provisional
Probab=35.15 E-value=2.7e+02 Score=23.41 Aligned_cols=47 Identities=4% Similarity=0.061 Sum_probs=32.3
Q ss_pred CCccccccEEEEEECCEEEEEEecCeEEEEEEE---EeeeeccceEEEEe
Q psy13355 27 NILPILSNILVCKNSEKISFLSTDTEVQITTYT---AVGYGNSSINIIVA 73 (314)
Q Consensus 27 ~~~pil~~i~i~~~~~~l~l~atd~~~~~~~~~---~~~~~~~~G~~~v~ 73 (314)
.+..+-++|.++.+++.+++.|--++++....- ......+.+.+.+.
T Consensus 7 ~pI~IP~~V~V~i~~~~ItVkGpkG~Ls~~~~~~~~~i~i~~~~~~I~v~ 56 (189)
T PTZ00179 7 DTITIPEDVTVSVKDRIVTVKGKRGTLTKDLRHLQLDFRVNKKNRTFTAV 56 (189)
T ss_pred ccEeCCCCCEEEEeCCEEEEECCCcEEEEEcCCCCcEEEEEecCCEEEEE
Confidence 456678899999999999999999988754332 12222245566664
No 74
>COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion]
Probab=33.27 E-value=80 Score=24.54 Aligned_cols=50 Identities=8% Similarity=0.026 Sum_probs=40.9
Q ss_pred hHHHHHHHhHHhhhhcCCCCeEEEEEEC--CEEEEEEecCCcceeEEEEeec
Q psy13355 264 RNKLLRSLQRISIISNDKLKGVRLVIKP--NYLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 264 ~~~l~~al~rv~~~~~~~~~~v~l~~~~--~~l~l~~~~~d~G~a~e~~~~~ 313 (314)
+.+|..+.++..-+...-+..+.|.+.+ |.+.++..+.+.|+.-.+||.+
T Consensus 48 ~e~L~~~v~~ink~~k~~nt~l~F~~dd~lg~~vVkI~d~~TgeVIRqIPpe 99 (120)
T COG1334 48 KEKLALIVEDINKLLKSLNTHLNFSYDDELGELVVKIIDKDTGEVIRQIPPE 99 (120)
T ss_pred HHHHHHHHHHHHHHHHhhcCceEEEEecccCcEEEEEEECCCCcchhhCChH
Confidence 3479999999987764445678898876 6899999999999999999864
No 75
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=28.19 E-value=48 Score=19.21 Aligned_cols=25 Identities=24% Similarity=0.246 Sum_probs=22.5
Q ss_pred EeehHHHHHHHHHhhccccCCCCcc
Q psy13355 6 NTEKNAILHPLQMVISIVEKKNILP 30 (314)
Q Consensus 6 ~i~~~~l~~al~~v~~~~~~~~~~p 30 (314)
++.++++.++..++.....++...|
T Consensus 4 ~i~~~~~~d~a~rv~~f~~~ngRlP 28 (33)
T PF09373_consen 4 TISKEEYLDMASRVNNFYESNGRLP 28 (33)
T ss_pred eecHHHHHHHHHHHHHHHHHcCCCC
Confidence 6799999999999999999887776
No 76
>PRK08452 flagellar protein FlaG; Provisional
Probab=28.16 E-value=1.6e+02 Score=22.96 Aligned_cols=52 Identities=13% Similarity=0.029 Sum_probs=42.2
Q ss_pred EehHHHHHHHhHHhhhhcCCCCeEEEEEECC--EEEEEEecCCcceeEEEEeec
Q psy13355 262 VNRNKLLRSLQRISIISNDKLKGVRLVIKPN--YLKITVSSSNREKASSTDLIY 313 (314)
Q Consensus 262 v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~--~l~l~~~~~d~G~a~e~~~~~ 313 (314)
..+.+|.++++++.-....-+..+.|.+.++ .+.|.-.+.+.|+.--+||.+
T Consensus 50 ~~~e~l~~~ve~lN~~~~~~~~~L~F~~de~~~~~vVkVvD~~T~eVIRqIP~E 103 (124)
T PRK08452 50 QLKKKLEELTEKLNEEMKRLDTNIRFGYNDKIKGLVVSVKEANGGKVIREIPSK 103 (124)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCceEEEEcCCCCcEEEEEEECCCCceeeeCCCH
Confidence 3567899999999887655567789999764 899999999999988888864
No 77
>PF11012 DUF2850: Protein of unknown function (DUF2850); InterPro: IPR021271 This family of proteins with unknown function appear to be restricted to Vibrionaceae.
Probab=26.03 E-value=2.4e+02 Score=20.16 Aligned_cols=39 Identities=5% Similarity=0.082 Sum_probs=31.2
Q ss_pred EEEEeCcEEEEEECCEEEEEEeccccCCCcccccccCcc
Q psy13355 219 ELKISNNQIKIIFSNIEIISKLIDGKFLDYKYVISNKYE 257 (314)
Q Consensus 219 ~i~~~~~~~~~~~~~~~~~~~li~g~yP~~~~v~p~~~~ 257 (314)
...++++.+.++.|+....-++....+-..+++-|..+.
T Consensus 36 ~F~fDG~~l~~~~G~~~~~y~~~~~~~s~mkr~~p~hy~ 74 (79)
T PF11012_consen 36 SFEFDGKTLEYRTGSGTYRYQISGENNSEMKRISPAHYQ 74 (79)
T ss_pred EEEECCCEEEEEECCeEEEEEEcCCCchheEEcCCCCCC
Confidence 466889999999999988888888777677777776554
No 78
>PRK09974 putative regulator PrlF; Provisional
Probab=25.46 E-value=1.8e+02 Score=22.26 Aligned_cols=37 Identities=16% Similarity=0.065 Sum_probs=29.7
Q ss_pred cceEEEEechHHHHHHhcCCCCCcEEEEEe-CCEEEEEEC
Q psy13355 66 SSINIIVAARKFIDILRSLPETEKVTIYIE-NKHMFIKSG 104 (314)
Q Consensus 66 ~~G~~~v~~k~l~~iik~l~~~~~v~l~~~-~~~l~I~~g 104 (314)
..|.++||+ .+.+.+.--+++. |.|... ++.+.|+-.
T Consensus 16 sKGQvTIPk-~IR~~Lgl~~Gdk-I~f~i~~dG~V~i~~~ 53 (111)
T PRK09974 16 DRGQTTVPA-PVRKALKLKKRDS-IHYEILPGGQVFICRL 53 (111)
T ss_pred cCCCEeccH-HHHHHcCCCCCCE-EEEEEeCCCEEEEEEC
Confidence 789999994 6888888777775 999865 788888754
No 79
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=25.43 E-value=1.8e+02 Score=18.19 Aligned_cols=37 Identities=22% Similarity=0.193 Sum_probs=25.5
Q ss_pred ceEEEEehHHHHHHHhHHhhhhcCCCCeEEEEEECCEEEEEE
Q psy13355 257 EKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITV 298 (314)
Q Consensus 257 ~~~~~v~~~~l~~al~rv~~~~~~~~~~v~l~~~~~~l~l~~ 298 (314)
...+.+....+.++|+++.- .....+++.++.+.++.
T Consensus 15 ~vsl~~~~~~~~~~L~~ll~-----~t~l~y~~~~~~i~I~~ 51 (52)
T PF07660_consen 15 KVSLDVKNMSLEEALDQLLK-----GTGLTYKISGNTIVISP 51 (52)
T ss_dssp E--EE-EEE-HHHHHHHHTT-----TSTEEEEEETTEEEEEE
T ss_pred ceeEEcCCcCHHHHHHHHHc-----cCCcEEEEECCEEEEEE
Confidence 45667777889999998873 34688888889888764
No 80
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=25.21 E-value=1.7e+02 Score=20.41 Aligned_cols=34 Identities=9% Similarity=0.150 Sum_probs=24.4
Q ss_pred eEEEEechHHHHHHhcCCCCCcEEEEEeCCEEEEEE
Q psy13355 68 INIIVAARKFIDILRSLPETEKVTIYIENKHMFIKS 103 (314)
Q Consensus 68 G~~~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I~~ 103 (314)
-.+.+| +.+.+-+.--+++. |.++.+++.+.|+-
T Consensus 10 ~~vtIP-k~i~~~lgl~~Gd~-v~v~~~~~~iii~~ 43 (74)
T TIGR02609 10 LVVTLP-KEVLESLGLKEGDT-LYVDEEEGGLKLKR 43 (74)
T ss_pred eEEEEC-HHHHHHcCcCCCCE-EEEEEECCEEEEEE
Confidence 356788 56778787666664 99988888777743
No 81
>PRK09798 antitoxin MazE; Provisional
Probab=24.38 E-value=1.6e+02 Score=21.10 Aligned_cols=35 Identities=11% Similarity=0.235 Sum_probs=25.2
Q ss_pred EEEEechHHHHHHhcCCCCCcEEEEEeCCEEEEEECC
Q psy13355 69 NIIVAARKFIDILRSLPETEKVTIYIENKHMFIKSGK 105 (314)
Q Consensus 69 ~~~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I~~g~ 105 (314)
.+.|| +.+++-+.--.++ .|.++++++.+.|+--+
T Consensus 14 ~vRIP-k~~l~~l~l~~g~-~vei~v~~~~iiI~p~~ 48 (82)
T PRK09798 14 AVRIP-ATLMQALNLNIDD-EVKIDLVDGKLIIEPVR 48 (82)
T ss_pred eEEcC-HHHHHHcCCCCCC-EEEEEEECCEEEEEECC
Confidence 35677 4677777644455 59999999999998643
No 82
>COG4253 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.66 E-value=2.1e+02 Score=25.71 Aligned_cols=89 Identities=9% Similarity=0.166 Sum_probs=38.3
Q ss_pred cEEEEEECCEEEEEEecCeEEEEEEEEeeeeccceEEEEechHHHHHHhcCCCCCcEEEE-----Ee-CCEEEEEECCeE
Q psy13355 34 NILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLPETEKVTIY-----IE-NKHMFIKSGKSK 107 (314)
Q Consensus 34 ~i~i~~~~~~l~l~atd~~~~~~~~~~~~~~~~~G~~~v~~k~l~~iik~l~~~~~v~l~-----~~-~~~l~I~~g~~~ 107 (314)
++++-+..|.+.+.|-..++.+..+-.......++++.+.+++ .|+...++.-|++. .. .+...++.++..
T Consensus 125 GlkliA~qG~v~vQAq~d~i~llA~k~I~~~s~~~~V~i~Ak~---~i~l~agGayitl~~g~Ie~g~~G~~~~KaA~h~ 201 (278)
T COG4253 125 GLKLIAAQGPVDVQAQKDDIELLAKKAITLTSTQDEIDITAKK---RITLNAGGAYITLDGGNIEVGTPGEFTVKAAGHS 201 (278)
T ss_pred ceeEEecCCceEEEecccchhhhhccceEEEecccEEEEEeee---EEEEecCccEEEEcCCeEEecCCcceEEecCCcc
Confidence 4444444444444444444433333333333234677777754 23333344223332 11 234445554444
Q ss_pred EEEecCCCCCCCCCcCCC
Q psy13355 108 FTLQTLDAKEYPIMTLNS 125 (314)
Q Consensus 108 ~~l~~~~~~~fP~~~~~~ 125 (314)
|-=|.--+.++|.++...
T Consensus 202 ~~Gp~~~~~~~p~~~~~~ 219 (278)
T COG4253 202 FVGPASRPADLPALPASA 219 (278)
T ss_pred ccCCCCCCccCccCcccc
Confidence 433333344556555543
No 83
>PRK11347 antitoxin ChpS; Provisional
Probab=22.84 E-value=1.3e+02 Score=21.68 Aligned_cols=42 Identities=12% Similarity=0.330 Sum_probs=29.3
Q ss_pred EEEEechHHHHHHhcCCCCCcEEEEEeCCEEEEEECCeEEEEec
Q psy13355 69 NIIVAARKFIDILRSLPETEKVTIYIENKHMFIKSGKSKFTLQT 112 (314)
Q Consensus 69 ~~~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~ 112 (314)
.+.+|+ .+.+-+.--.++ .|.+++.++.+.|+--+-+|++.-
T Consensus 13 ~vriPk-~il~~l~l~~G~-~v~i~v~~~~iii~p~~~~~tL~e 54 (83)
T PRK11347 13 GMVIPN-IVMKELNLQPGQ-SVEAQVSNNQLILTPISRRYSLDE 54 (83)
T ss_pred eEEeCH-HHHHHcCCCCCC-EEEEEEECCEEEEEECCCCCCHHH
Confidence 467784 667777655555 599999998999987655565543
No 84
>TIGR03653 arch_L6P archaeal ribosomal protein L6P. Members of this protein family are the archaeal ribosomal protein L6P. The top-scoring proteins not selected by this model are eukaryotic cytosolic ribosomal protein L9. Bacterial ribosomal protein L6 scores lower and is described by a distinct model.
Probab=22.65 E-value=4.4e+02 Score=21.73 Aligned_cols=46 Identities=11% Similarity=0.176 Sum_probs=30.3
Q ss_pred CccccccEEEEEECCEEEEEEecCeEEEEE-EEEeeeeccceEEEEe
Q psy13355 28 ILPILSNILVCKNSEKISFLSTDTEVQITT-YTAVGYGNSSINIIVA 73 (314)
Q Consensus 28 ~~pil~~i~i~~~~~~l~l~atd~~~~~~~-~~~~~~~~~~G~~~v~ 73 (314)
+..+-.++.+..+++.+++.|--+++.... .-...+..+.+.+.+.
T Consensus 3 pI~IP~~V~v~i~~~~i~vkGp~G~L~~~~~~~~v~i~~~~~~i~v~ 49 (170)
T TIGR03653 3 EIEIPEGVSVTIEGNIVTVKGPKGEVTRELWYPGIEISVEDGKVVIE 49 (170)
T ss_pred eEecCCCCEEEEeCCEEEEECCCeEEEEEEeCCcEEEEEeCCEEEEE
Confidence 345567888999999999999888877554 2222332245666665
No 85
>PF10106 DUF2345: Uncharacterized protein conserved in bacteria (DUF2345); InterPro: IPR018769 This entry represents the C-terminal domain of a subset of the Rhs element Vgr protein family found only in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often encoded far from the type VI secretion locus.
Probab=21.25 E-value=4.4e+02 Score=21.23 Aligned_cols=28 Identities=14% Similarity=0.197 Sum_probs=21.4
Q ss_pred ccccEEEEEECCEEEEEEecCeEEEEEE
Q psy13355 31 ILSNILVCKNSEKISFLSTDTEVQITTY 58 (314)
Q Consensus 31 il~~i~i~~~~~~l~l~atd~~~~~~~~ 58 (314)
.-+.|.+.+..+++.+.|.++.+.++..
T Consensus 61 a~~~islfa~~~Gi~liA~~G~v~iqAq 88 (155)
T PF10106_consen 61 AGEGISLFAQKGGIKLIAAQGKVEIQAQ 88 (155)
T ss_pred hhceEEEEEcccceeEEEcCCcEEEEEc
Confidence 3457778887788888888888877765
No 86
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=20.77 E-value=4.4e+02 Score=21.88 Aligned_cols=62 Identities=18% Similarity=0.119 Sum_probs=34.0
Q ss_pred CCCCCcEEEEEe-CCEEEEEECCeEEEEecCCCCCC----CCCcCCCCCceEEEEeHHHHHHHHhhhc
Q psy13355 84 LPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEY----PIMTLNSKYDFEFTLSQKTLKCILNMVY 146 (314)
Q Consensus 84 l~~~~~v~l~~~-~~~l~I~~g~~~~~l~~~~~~~f----P~~~~~~~~~~~~~v~~~~l~~~i~~v~ 146 (314)
+|.++.++|+.. ++..++...+.-|++.+-+.+-. |.-...++ ...-....+.+.++|+.+.
T Consensus 20 ~~~~~~~~~~q~lgg~~t~~~~g~~~r~~~~~~da~g~~~~~~~~~~~-~~~~~~~ee~V~eaL~tV~ 86 (174)
T TIGR03406 20 LPAGTEVTITQALGGNFTVVVEGNMARIDGKDADALGKEPPPPLDLPE-NADGEDNEDQVWEQLRTVY 86 (174)
T ss_pred cCCCCEEEEEEccCCeEEEEEcCeEEEecCcChhhhcCCCCCcCCCCc-CccccccHHHHHHHHcCCC
Confidence 344445777765 66666666666777777765533 22122222 2223344466777777765
No 87
>PF07833 Cu_amine_oxidN1: Copper amine oxidase N-terminal domain; InterPro: IPR012854 Amine oxidases (AO) are enzymes that catalyse the oxidation of a wide range of biogenic amines including many neurotransmitters, histamine and xenobiotic amines. There are two classes of amine oxidases: flavin-containing (1.4.3.4 from EC) and copper-containing (1.4.3.6 from EC). Copper-containing AO act as a disulphide-linked homodimer. They catalyse the oxidation of primary amines to aldehydes, with the subsequent release of ammonia and hydrogen peroxide, which requires one copper ion per subunit and topaquinone as cofactor []: RCH2NH2 + H2O + O2 = RCHO + NH3 + H2O2 Copper-containing amine oxidases are found in bacteria, fungi, plants and animals. In prokaryotes, the enzyme enables various amine substrates to be used as sources of carbon and nitrogen [, ]. In eukaryotes they have a broader range of functions, including cell differentiation and growth, wound healing, detoxification and cell signalling []. The copper amine oxidases occur as mushroom-shaped homodimers of 70-95 kDa, each monomer containing a copper ion and a covalently bound redox cofactor, topaquinone (TPQ). TPQ is formed by post-translational modification of a conserved tyrosine residue. The copper ion is coordinated with three histidine residues and two water molecules in a distorted square pyramidal geometry, and has a dual function in catalysis and TPQ biogenesis. The catalytic domain is the largest of the 3-4 domains found in copper amine oxidases, and consists of a beta sandwich of 18 strands in two sheets. The active site is buried and requires a conformational change to allow the substrate access. The two N-terminal domains share a common structural fold, its core consisting of a five-stranded antiparallel beta sheet twisted around an alpha helix. The D1 domains from the two subunits comprise the stalk, of the mushroom-shaped dimer, and interact with each other but do not pack tightly against each other [, ]. This entry represents a domain found at the N-terminal of certain copper amine oxidases, as well as in related proteins such as cell wall hydrolase and N-acetylmuramoyl-L-alanine amidase. This domain consists of a five-stranded antiparallel beta-sheet twisted around an alpha helix [, ]. ; PDB: 1SPU_A 2WGQ_A 2WO0_A 1JRQ_A 1QAF_B 1D6U_B 1QAL_A 2WOF_A 1OAC_B 1QAK_A ....
Probab=20.54 E-value=2.1e+02 Score=20.07 Aligned_cols=71 Identities=15% Similarity=0.108 Sum_probs=33.8
Q ss_pred ceEEEEechHHHHHHhcCCCCCcEEEEEeCCEEEEEECCeEEEEecC------CCCCC--CCCcCCCCCceEEEEeHHHH
Q psy13355 67 SINIIVAARKFIDILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTL------DAKEY--PIMTLNSKYDFEFTLSQKTL 138 (314)
Q Consensus 67 ~G~~~v~~k~l~~iik~l~~~~~v~l~~~~~~l~I~~g~~~~~l~~~------~~~~f--P~~~~~~~~~~~~~v~~~~l 138 (314)
.|.+.||.+.+.+.+.. . |+..-+++.+.|+.++..+.+..- +.... +.-+... ...+-+|.+.+
T Consensus 2 ~g~~~vPl~~i~~~lg~----~-v~~d~~~~~v~i~~~~~~i~~~~~~~~~~~ng~~~~l~~~~~~~--~g~~yvp~~~l 74 (93)
T PF07833_consen 2 DGKTYVPLRFIAEALGA----K-VSWDNKTKTVTITKGKKSIKLKVGSNEATVNGKKITLSAPPVII--NGRTYVPLRFL 74 (93)
T ss_dssp ----EEEHHHHHHHHT-----E-EEEETTTTEEEEEETTEEEEE-TT-SEEEETTEEEE-SS-BEEE--TTEEEEETTHH
T ss_pred CcEEEEEHHHHHHHcCC----E-EEEEcCCcEEEEEeeeceeeecCCCceeeeeccccccccCCEEe--CCEEEEEHHHH
Confidence 68899998888777742 1 333223445666666655555421 11111 2122121 35667777777
Q ss_pred HHHHhh
Q psy13355 139 KCILNM 144 (314)
Q Consensus 139 ~~~i~~ 144 (314)
.+++..
T Consensus 75 ~~~~g~ 80 (93)
T PF07833_consen 75 SEAFGY 80 (93)
T ss_dssp HHHHT-
T ss_pred HHHhCC
Confidence 777763
Done!