Query 020904
Match_columns 320
No_of_seqs 211 out of 591
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 06:04:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02577 DNase-RNase: Bifuncti 100.0 8.5E-35 1.8E-39 248.5 14.3 125 130-258 5-129 (135)
2 COG1259 Uncharacterized conser 100.0 4.9E-33 1.1E-37 242.5 15.2 126 130-258 10-135 (151)
3 PF02151 UVR: UvrB/uvrC motif; 96.1 0.0038 8.3E-08 42.4 1.9 26 292-317 3-29 (36)
4 COG3880 Modulator of heat shoc 93.8 0.038 8.2E-07 50.0 2.2 28 290-317 135-163 (176)
5 TIGR00631 uvrb excinuclease AB 58.8 6.5 0.00014 42.3 2.3 25 293-317 625-650 (655)
6 PRK07883 hypothetical protein; 57.4 7.3 0.00016 41.0 2.4 25 293-317 408-433 (557)
7 PRK00558 uvrC excinuclease ABC 54.2 8.6 0.00019 41.0 2.3 26 292-317 203-229 (598)
8 PRK12306 uvrC excinuclease ABC 54.0 8.7 0.00019 40.4 2.3 26 292-317 193-219 (519)
9 PRK05298 excinuclease ABC subu 53.4 9.2 0.0002 40.9 2.4 26 292-317 614-640 (652)
10 PRK14666 uvrC excinuclease ABC 51.7 10 0.00022 41.3 2.4 25 293-317 203-228 (694)
11 PRK14667 uvrC excinuclease ABC 49.4 12 0.00025 39.9 2.4 25 293-317 201-226 (567)
12 PRK14672 uvrC excinuclease ABC 48.9 12 0.00026 40.8 2.4 25 293-317 207-232 (691)
13 TIGR00194 uvrC excinuclease AB 48.6 12 0.00026 39.9 2.3 25 293-317 196-221 (574)
14 PRK14670 uvrC excinuclease ABC 48.4 12 0.00027 39.7 2.4 25 293-317 179-204 (574)
15 PRK14668 uvrC excinuclease ABC 48.2 12 0.00026 39.8 2.2 26 292-317 200-226 (577)
16 PRK14671 uvrC excinuclease ABC 47.6 13 0.00028 39.9 2.4 25 293-317 217-242 (621)
17 PRK14669 uvrC excinuclease ABC 44.6 15 0.00033 39.4 2.4 25 293-317 205-230 (624)
18 PF14305 ATPgrasp_TupA: TupA-l 44.2 59 0.0013 30.5 6.0 48 172-219 172-221 (239)
19 COG0322 UvrC Nuclease subunit 40.4 19 0.00041 38.5 2.3 26 292-317 203-229 (581)
20 PF13670 PepSY_2: Peptidase pr 40.0 1.5E+02 0.0032 22.9 6.8 48 179-230 29-76 (83)
21 PF12386 Peptidase_C71: Pseudo 38.5 1E+02 0.0022 27.1 6.0 44 175-218 55-99 (142)
22 COG0556 UvrB Helicase subunit 36.3 27 0.00059 37.4 2.6 26 292-317 625-651 (663)
23 PF10130 PIN_2: PIN domain; I 34.7 31 0.00066 29.8 2.3 74 176-258 49-122 (133)
24 TIGR00638 Mop molybdenum-pteri 25.8 2.2E+02 0.0048 20.5 5.4 51 195-247 8-58 (69)
25 smart00306 HintN Hint (Hedgeho 21.4 1.1E+02 0.0025 23.2 3.2 23 106-128 51-73 (100)
26 cd00571 UreE UreE urease acces 20.4 2.1E+02 0.0046 24.6 4.9 19 181-199 115-133 (136)
No 1
>PF02577 DNase-RNase: Bifunctional nuclease; InterPro: IPR003729 This entry describes proteins of unknown function. The structure has been determined for one member of this group, the hypothetical protein TM0160 from Thermotoga maritima, which was found to consist of a duplication of two beta(3)-alpha(2) structural repeats, forming a single barrel-like beta-sheet [].; PDB: 1SJ5_A 1VJL_A.
Probab=100.00 E-value=8.5e-35 Score=248.46 Aligned_cols=125 Identities=29% Similarity=0.476 Sum_probs=105.8
Q ss_pred cccCCCCCCCcEEEEEecCCCceEEEEEecchhHHHHHHHHccCCCCCCChHHHHHHHHHHhCCeEeEEEEEeEECCEEE
Q 020904 130 GGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYF 209 (320)
Q Consensus 130 ~gaLd~~a~~PvLVL~e~dg~~r~LPI~I~eaeAiaI~~al~~~~~~RPlThDLl~evl~~lg~~v~~V~I~~l~dGvFy 209 (320)
+..++..+++|++||++++++ +.|||||+..||.+|+.++++.+++||+|||||.++++++|.++++|+|++++||+||
T Consensus 5 gi~~~~~~~~~vvlL~~~~~~-~~lpI~i~~~ea~~i~~~~~~~~~~RP~thdLl~~~l~~lg~~v~~V~I~~~~dg~f~ 83 (135)
T PF02577_consen 5 GISVDEPSGQPVVLLREEDGD-RVLPIWIGAFEAQAIALALEGEKPPRPLTHDLLSDLLEALGAEVERVVIDDLEDGVFY 83 (135)
T ss_dssp EEEEETTTTEEEEEEEETTSS-EEEEEE--HHHHHHHHHHHCT---SS--HHHHHHHHHHHTTEEEEEEEEEEEETTEEE
T ss_pred EEEEcCCCCceEEEEEEcCCC-EEEEEEECHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHcCCEEEEEEEEEEECCEEE
Confidence 445556667899999999988 6999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEehhHHhhcCccc
Q 020904 210 AQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRV 258 (320)
Q Consensus 210 A~L~l~~~g~~~~~~~IDaRPSDAIALAlR~~~PIyV~e~Vl~~agi~v 258 (320)
|+|++.+++ +++.+|+||||||+||+|+++||||+++|++++|+++
T Consensus 84 A~L~l~~~~---~~~~id~RpSDAiaLAl~~~~PI~v~~~vl~~~~~~~ 129 (135)
T PF02577_consen 84 ARLVLRQGG---EEIEIDARPSDAIALALRFGAPIYVSEEVLDEAGVPV 129 (135)
T ss_dssp EEEEEEETT---TEEEEEE-HHHHHHHHHHHT--EEEEHHHHHHH-EE-
T ss_pred EEEEEecCC---EEEEEECcHhHHHHHHHHhCCCEEEeHHHHhhcCCCC
Confidence 999999776 5899999999999999999999999999999999998
No 2
>COG1259 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.9e-33 Score=242.47 Aligned_cols=126 Identities=27% Similarity=0.452 Sum_probs=115.5
Q ss_pred cccCCCCCCCcEEEEEecCCCceEEEEEecchhHHHHHHHHccCCCCCCChHHHHHHHHHHhCCeEeEEEEEeEECCEEE
Q 020904 130 GGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYF 209 (320)
Q Consensus 130 ~gaLd~~a~~PvLVL~e~dg~~r~LPI~I~eaeAiaI~~al~~~~~~RPlThDLl~evl~~lg~~v~~V~I~~l~dGvFy 209 (320)
+.++..-.+.|++++...+++++.|||||+..||.+|+.++++..|+||+||||+.++++.++.++++|+|++++|||||
T Consensus 10 ~i~~~~~~~~~~~v~~~~~~~~~~lPI~Ig~~ea~si~~~l~~~~p~RP~tHdll~~i~~~l~~~v~kVvI~d~~d~tyy 89 (151)
T COG1259 10 GIFFVPVSSFPTVVLLLEGGDNRVLPIYIGASEALAIAKALEGVEPPRPLTHDLLVEIFEELGARVEKVVIDDLIDNTYY 89 (151)
T ss_pred EEEEecccCCceEEEEEEcCCCeEEEEEEeHHHHHHHHHhhccCCCCCCcHHHHHHHHHHHhCCcEEEEEEEEeccCeEE
Confidence 45556667778666666666668999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEehhHHhhcCccc
Q 020904 210 AQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRV 258 (320)
Q Consensus 210 A~L~l~~~g~~~~~~~IDaRPSDAIALAlR~~~PIyV~e~Vl~~agi~v 258 (320)
|+|++++++ ....+||||||||+||+|.++||||.|+|+++++++.
T Consensus 90 A~L~~~~~~---~~~~iDaRPSDaI~LAlr~~~PI~V~e~v~~~a~~~~ 135 (151)
T COG1259 90 ATLILEQDD---GKIQIDARPSDAIALALRVGAPIYVAEEVLDEAEIEI 135 (151)
T ss_pred EEEEEEcCC---ceEEEecccchHHHHHHHhCCCEEEehhhhhhhcCcC
Confidence 999999987 4689999999999999999999999999999999887
No 3
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=96.08 E-value=0.0038 Score=42.37 Aligned_cols=26 Identities=15% Similarity=0.230 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
.+..|++.+..|+ +||||.|+.|||-
T Consensus 3 ~i~~l~~~m~~a~~~~dfE~Aa~~Rd~ 29 (36)
T PF02151_consen 3 LIKELEEKMEEAVENEDFEKAARLRDQ 29 (36)
T ss_dssp HHHHHHHHHHHHHHTT-CHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence 3567888889888 9999999999984
No 4
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=93.83 E-value=0.038 Score=50.00 Aligned_cols=28 Identities=11% Similarity=0.261 Sum_probs=25.6
Q ss_pred hhhHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 290 TKEFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 290 ~~e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
...+.+|++.|++.| .|+||.||.|||-
T Consensus 135 ~~~I~~L~e~Lq~~i~~EefEeAA~iRDq 163 (176)
T COG3880 135 KRKIIALKEALQDLIEREEFEEAAVIRDQ 163 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999 9999999999984
No 5
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=58.80 E-value=6.5 Score=42.29 Aligned_cols=25 Identities=8% Similarity=0.181 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|.+|. +++||.||++||-
T Consensus 625 i~~l~~~M~~aa~~l~FE~Aa~~RD~ 650 (655)
T TIGR00631 625 IKQLEKEMKQAARNLEFEEAARLRDE 650 (655)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 455777666666 9999999999984
No 6
>PRK07883 hypothetical protein; Validated
Probab=57.38 E-value=7.3 Score=41.04 Aligned_cols=25 Identities=16% Similarity=0.295 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||-
T Consensus 408 ~~~l~~~M~~aa~~l~FE~Aa~~Rd~ 433 (557)
T PRK07883 408 LAALRARIDRLAAAERFEEAARLRDR 433 (557)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 456666666666 9999999999985
No 7
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=54.24 E-value=8.6 Score=40.96 Aligned_cols=26 Identities=8% Similarity=0.102 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
-++.|++.|++|. +++||.||++||-
T Consensus 203 ~i~~L~~~M~~aa~~l~FE~Aa~~RD~ 229 (598)
T PRK00558 203 VLKELEEKMEEASENLEFERAARYRDQ 229 (598)
T ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence 3466777666666 9999999999984
No 8
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=53.97 E-value=8.7 Score=40.39 Aligned_cols=26 Identities=4% Similarity=0.064 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
-++.|++.|++|. +.+||.||++||.
T Consensus 193 ~~~~L~~~M~~aa~~l~FE~Aa~~RD~ 219 (519)
T PRK12306 193 LIEKLEEEMAEKAKNQQFERALVIRDE 219 (519)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 3466776666666 9999999999985
No 9
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=53.37 E-value=9.2 Score=40.93 Aligned_cols=26 Identities=8% Similarity=0.138 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
.++.|++.|.+|. +++||.||++||-
T Consensus 614 ~~~~l~~~M~~aa~~l~fE~Aa~~Rd~ 640 (652)
T PRK05298 614 LIKELEKQMKEAAKNLEFEEAARLRDE 640 (652)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4566887777777 9999999999984
No 10
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=51.73 E-value=10 Score=41.33 Aligned_cols=25 Identities=16% Similarity=0.165 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 203 ~~~L~~~M~~AAe~l~FE~AA~lRD~ 228 (694)
T PRK14666 203 VDALRTEMEAASEALEFERAAVLRDQ 228 (694)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 466777666666 9999999999985
No 11
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=49.44 E-value=12 Score=39.85 Aligned_cols=25 Identities=4% Similarity=-0.017 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 201 ~~~L~~~M~~aa~~l~FE~Aa~~RD~ 226 (567)
T PRK14667 201 LPELYDKIEEYSQKLMFEKAAVIRDQ 226 (567)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 455666666555 9999999999985
No 12
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=48.88 E-value=12 Score=40.75 Aligned_cols=25 Identities=16% Similarity=0.228 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 207 l~~L~~~M~~AA~~l~FE~AA~lRD~ 232 (691)
T PRK14672 207 VARLEKRMKRAVRQEAFEAAARIRDD 232 (691)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 455666666666 9999999999985
No 13
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=48.60 E-value=12 Score=39.85 Aligned_cols=25 Identities=8% Similarity=0.169 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 196 ~~~L~~~M~~aa~~l~FE~Aa~~Rd~ 221 (574)
T TIGR00194 196 IKELEQKMEKASENLEFEEAARIRDQ 221 (574)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 355666666666 9999999999985
No 14
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=48.37 E-value=12 Score=39.73 Aligned_cols=25 Identities=20% Similarity=0.264 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|.+|. +.+||.||++||.
T Consensus 179 ~~~L~~~M~~aa~~l~FE~Aa~~RD~ 204 (574)
T PRK14670 179 LSQIEIKMKEAIQKEDFEAAIKLKET 204 (574)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 455666666666 9999999999985
No 15
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=48.19 E-value=12 Score=39.82 Aligned_cols=26 Identities=15% Similarity=0.171 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
-++.|++.+++|. +.+||.||++||.
T Consensus 200 ~~~~l~~~m~~aa~~l~FE~Aa~~Rd~ 226 (577)
T PRK14668 200 LADPLRREMEAAAQAQEFERAANLRDR 226 (577)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 3466777777666 9999999999985
No 16
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=47.60 E-value=13 Score=39.91 Aligned_cols=25 Identities=12% Similarity=0.226 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 217 ~~~L~~~M~~as~~l~FE~Aa~~RD~ 242 (621)
T PRK14671 217 IRSLTEEMQRAAAELKFEEAAELKDQ 242 (621)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 455666666555 9999999999985
No 17
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=44.58 E-value=15 Score=39.45 Aligned_cols=25 Identities=24% Similarity=0.240 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 293 FNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 293 ~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
++.|++.|++|. +.+||.||++||.
T Consensus 205 ~~~L~~~M~~aa~~l~FE~Aa~~RD~ 230 (624)
T PRK14669 205 ARSLRARMEAAALEMQFELAAKYRDL 230 (624)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 455666555555 9999999999985
No 18
>PF14305 ATPgrasp_TupA: TupA-like ATPgrasp
Probab=44.22 E-value=59 Score=30.52 Aligned_cols=48 Identities=21% Similarity=0.324 Sum_probs=40.4
Q ss_pred cCCCCCCChHHHHHHHHHHhC--CeEeEEEEEeEECCEEEEEEEEeecCc
Q 020904 172 NVQIARPTLYQVVKEMIEKMG--YEVRLVRVTKRVHEAYFAQLYLTKVGN 219 (320)
Q Consensus 172 ~~~~~RPlThDLl~evl~~lg--~~v~~V~I~~l~dGvFyA~L~l~~~g~ 219 (320)
....+||-..+=|.++.+.|. ....||-.+...+++|+..|.+..+++
T Consensus 172 ~~~~~kP~~l~emi~iA~~Ls~~f~fvRVDlY~~~~~iyFGElTf~p~~G 221 (239)
T PF14305_consen 172 DEDIPKPKNLEEMIEIAEKLSKGFPFVRVDLYNVDGKIYFGELTFTPGAG 221 (239)
T ss_pred CCCCCCChhHHHHHHHHHHHccCCCEEEEEEEEeCCcEEEEeeecCCCCc
Confidence 467899999999999999995 455566668999999999999987664
No 19
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=40.37 E-value=19 Score=38.48 Aligned_cols=26 Identities=8% Similarity=0.105 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHh-hccHHHHHhcccc
Q 020904 292 EFNLVRNMLIAAV-EERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~mL~~Ai-eEdYE~AA~LRd~ 317 (320)
-+..|++.+++|. +.+||.||++||.
T Consensus 203 v~~~L~~~M~~As~~l~FE~Aa~~RD~ 229 (581)
T COG0322 203 VLQELEEKMEEASENLDFERAARLRDQ 229 (581)
T ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHH
Confidence 3466777777777 9999999999985
No 20
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=40.04 E-value=1.5e+02 Score=22.90 Aligned_cols=48 Identities=19% Similarity=0.124 Sum_probs=34.0
Q ss_pred ChHHHHHHHHHHhCCeEeEEEEEeEECCEEEEEEEEeecCccceEEEEeCCh
Q 020904 179 TLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRP 230 (320)
Q Consensus 179 lThDLl~evl~~lg~~v~~V~I~~l~dGvFyA~L~l~~~g~~~~~~~IDaRP 230 (320)
++.+=+...++..|++|.+|.+++ +|.|-.+....+|. .-.+.+|.+.
T Consensus 29 ~~~~~~~~~l~~~G~~v~~ve~~~--~g~yev~~~~~dG~--~~ev~vD~~t 76 (83)
T PF13670_consen 29 LSIEQAVAKLEAQGYQVREVEFDD--DGCYEVEARDKDGK--KVEVYVDPAT 76 (83)
T ss_pred CCHHHHHHHHHhcCCceEEEEEcC--CCEEEEEEEECCCC--EEEEEEcCCC
Confidence 457777788888999999998864 78899996665443 2445555543
No 21
>PF12386 Peptidase_C71: Pseudomurein endo-isopeptidase Pei; InterPro: IPR022119 This peptidase has the catalytic triad C-H-D at the C-terminal end, a triad similar to that in thiol proteases and animal transglutaminases. It catalyses the in vitro lysis of M. marburgensis cells under reducing conditions and exhibits characteristics of metal-activated peptidases.
Probab=38.52 E-value=1e+02 Score=27.12 Aligned_cols=44 Identities=23% Similarity=0.361 Sum_probs=35.0
Q ss_pred CCCCChHHHHHHHHHHhCCeEeEEEEEeE-ECCEEEEEEEEeecC
Q 020904 175 IARPTLYQVVKEMIEKMGYEVRLVRVTKR-VHEAYFAQLYLTKVG 218 (320)
Q Consensus 175 ~~RPlThDLl~evl~~lg~~v~~V~I~~l-~dGvFyA~L~l~~~g 218 (320)
..--..-+||..+++.||+.|.-+.+--. .+|++|..+.|.-.+
T Consensus 55 iNCtD~~Qlf~~v~~~lGY~Vq~~HVk~rc~~g~wygH~~LRv~~ 99 (142)
T PF12386_consen 55 INCTDACQLFYRVIESLGYDVQFEHVKCRCNSGKWYGHYRLRVKH 99 (142)
T ss_pred CCchhHHHHHHHHHHhcCceEEEEEEEEEecCCceeeEEEEEecc
Confidence 34455678999999999998877766433 699999999998765
No 22
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=36.26 E-value=27 Score=37.44 Aligned_cols=26 Identities=15% Similarity=0.152 Sum_probs=19.1
Q ss_pred hHHHHHH-HHHHHhhccHHHHHhcccc
Q 020904 292 EFNLVRN-MLIAAVEERYRDAEKASEF 317 (320)
Q Consensus 292 e~e~Lr~-mL~~AieEdYE~AA~LRd~ 317 (320)
.++.|++ |.++|-+-+||+||+|||-
T Consensus 625 ~I~~Le~~M~~aA~~l~FE~Aa~lRD~ 651 (663)
T COG0556 625 LIKKLEKEMKEAAKNLEFEEAARLRDE 651 (663)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 3455665 4445559999999999984
No 23
>PF10130 PIN_2: PIN domain; InterPro: IPR019298 This entry represents a set of bacterial and archaeal proteins that are predicted to be RNases (from similarities to 5'-exonucleases).
Probab=34.72 E-value=31 Score=29.84 Aligned_cols=74 Identities=11% Similarity=0.142 Sum_probs=42.5
Q ss_pred CCCChHHHHHHHHHHhCCeEeEEEEEeEECCEEEEEEEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEehhHHhhcC
Q 020904 176 ARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDG 255 (320)
Q Consensus 176 ~RPlThDLl~evl~~lg~~v~~V~I~~l~dGvFyA~L~l~~~g~~~~~~~IDaRPSDAIALAlR~~~PIyV~e~Vl~~ag 255 (320)
.+-++-+-+..++..+- ..|.|. ..+.|. . +..+.. .....+|-.=-.-||||+..+|||+..++=+-..|
T Consensus 49 k~~l~~~~~~~~l~~l~---~~I~iv--~~~~~~-~-~~~~A~--~~~~~~D~~D~p~vALaL~l~~~IWT~Dkdl~~~G 119 (133)
T PF10130_consen 49 KSKLSEEELEEVLNILF---SRIKIV--PEEIYS-E-NIEEAR--EIIRDRDPDDWPFVALALQLNAPIWTEDKDLFGSG 119 (133)
T ss_pred HhCCCHHHHHHHHHHHH---hheEEe--cHHHhH-H-HHHHHH--HHhcCCCcchHHHHHHHHHcCCCeecCcHHHHhcC
Confidence 34466677777777652 233332 344443 1 111110 01223455555579999999999999998776666
Q ss_pred ccc
Q 020904 256 MRV 258 (320)
Q Consensus 256 i~v 258 (320)
+.-
T Consensus 120 l~~ 122 (133)
T PF10130_consen 120 LAT 122 (133)
T ss_pred cch
Confidence 553
No 24
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=25.79 E-value=2.2e+02 Score=20.46 Aligned_cols=51 Identities=8% Similarity=-0.050 Sum_probs=39.1
Q ss_pred EeEEEEEeEECCEEEEEEEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEe
Q 020904 195 VRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVN 247 (320)
Q Consensus 195 v~~V~I~~l~dGvFyA~L~l~~~g~~~~~~~IDaRPSDAIALAlR~~~PIyV~ 247 (320)
.....|.++..+...+++.+.-+++ ..+...+-+..+-.|+++-|-|+|+.
T Consensus 8 ~l~g~I~~i~~~g~~~~v~l~~~~~--~~l~a~i~~~~~~~l~l~~G~~v~~~ 58 (69)
T TIGR00638 8 QLKGKVVAIEDGDVNAEVDLLLGGG--TKLTAVITLESVAELGLKPGKEVYAV 58 (69)
T ss_pred EEEEEEEEEEECCCeEEEEEEECCC--CEEEEEecHHHHhhCCCCCCCEEEEE
Confidence 4556777777777788888887553 25666777888899999999999875
No 25
>smart00306 HintN Hint (Hedgehog/Intein) domain N-terminal region. Hedgehog/Intein domain, N-terminal region. Domain has been split to accommodate large insertions of endonucleases.
Probab=21.37 E-value=1.1e+02 Score=23.17 Aligned_cols=23 Identities=17% Similarity=0.290 Sum_probs=17.1
Q ss_pred ecCcceEEEeccCceeEEeecCC
Q 020904 106 SGADGFMIKMRDGRHLRCVHNNP 128 (320)
Q Consensus 106 s~~~~~~~~m~~g~~~~~~~~~~ 128 (320)
....-+.|+.++|+.++|..+|+
T Consensus 51 ~~~~~~~i~~~~g~~i~~T~~H~ 73 (100)
T smart00306 51 GEKKFYRIKTENGREITLTPDHL 73 (100)
T ss_pred cceeEEEEEECCCCEEEECCCCE
Confidence 34455668889999999997653
No 26
>cd00571 UreE UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-terminal region of UreE contains a histidine rich nickel binding site.
Probab=20.37 E-value=2.1e+02 Score=24.57 Aligned_cols=19 Identities=26% Similarity=0.489 Sum_probs=14.7
Q ss_pred HHHHHHHHHHhCCeEeEEE
Q 020904 181 YQVVKEMIEKMGYEVRLVR 199 (320)
Q Consensus 181 hDLl~evl~~lg~~v~~V~ 199 (320)
-..+.++++++|..+.++.
T Consensus 115 D~~l~~ml~~lg~~~~~~~ 133 (136)
T cd00571 115 DHVLEDMLRKLGVRYERVE 133 (136)
T ss_pred CHHHHHHHHHcCCeeEEEe
Confidence 4567799999998877654
Done!