Query 020903
Match_columns 320
No_of_seqs 163 out of 1190
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 06:03:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020903.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020903hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10353 3-methyl-adenine DNA 100.0 1.7E-88 3.6E-93 608.5 18.7 184 117-302 1-184 (187)
2 TIGR00624 tag DNA-3-methyladen 100.0 2.3E-86 4.9E-91 591.2 18.6 179 118-300 1-179 (179)
3 PF03352 Adenine_glyco: Methyl 100.0 1.4E-84 3.1E-89 579.7 15.7 179 122-302 1-179 (179)
4 COG2818 Tag 3-methyladenine DN 100.0 2.3E-84 4.9E-89 580.2 16.8 186 117-303 1-186 (188)
5 cd00056 ENDO3c endonuclease II 95.7 0.13 2.8E-06 43.8 10.2 104 150-288 1-104 (158)
6 PRK13913 3-methyladenine DNA g 95.2 0.37 8E-06 45.0 12.2 105 150-286 31-140 (218)
7 TIGR03252 uncharacterized HhH- 95.0 0.55 1.2E-05 42.9 12.3 116 149-288 18-136 (177)
8 TIGR01083 nth endonuclease III 94.7 0.44 9.5E-06 42.7 10.9 101 149-287 26-126 (191)
9 smart00478 ENDO3c endonuclease 94.6 0.36 7.7E-06 40.8 9.6 88 162-287 5-92 (149)
10 PRK10702 endonuclease III; Pro 92.1 0.9 2E-05 42.0 8.6 69 149-221 29-97 (211)
11 COG0177 Nth Predicted EndoIII- 89.7 4.8 0.0001 37.8 11.0 101 149-288 29-130 (211)
12 PRK10880 adenine DNA glycosyla 87.9 5 0.00011 40.1 10.5 68 149-221 30-97 (350)
13 PF00730 HhH-GPD: HhH-GPD supe 87.9 3.4 7.5E-05 32.9 7.8 63 157-221 4-66 (108)
14 TIGR01084 mutY A/G-specific ad 87.8 5.3 0.00012 38.5 10.3 68 149-221 26-93 (275)
15 PRK01229 N-glycosylase/DNA lya 83.8 4.5 9.7E-05 37.8 7.4 55 145-207 33-89 (208)
16 COG0122 AlkA 3-methyladenine D 76.4 29 0.00063 33.6 10.5 109 147-288 103-220 (285)
17 PF02142 MGS: MGS-like domain 67.0 6 0.00013 31.4 3.0 30 261-290 3-32 (95)
18 COG1393 ArsC Arsenate reductas 66.8 6.5 0.00014 33.4 3.3 47 157-206 47-93 (117)
19 cd00166 SAM Sterile alpha moti 63.6 18 0.00038 25.5 4.6 43 172-216 17-61 (63)
20 PF10023 DUF2265: Predicted am 62.7 18 0.0004 36.3 6.1 102 192-301 33-160 (337)
21 PRK10308 3-methyl-adenine DNA 56.8 1.2E+02 0.0026 29.3 10.3 118 138-290 102-231 (283)
22 TIGR00588 ogg 8-oxoguanine DNA 50.0 2E+02 0.0044 28.0 10.8 131 127-288 98-242 (310)
23 COG2231 Uncharacterized protei 49.7 1.5E+02 0.0033 28.3 9.4 75 129-208 14-88 (215)
24 PF00536 SAM_1: SAM domain (St 46.4 44 0.00095 24.2 4.4 43 172-216 18-62 (64)
25 PF13276 HTH_21: HTH-like doma 45.6 26 0.00057 25.4 3.1 31 260-290 23-53 (60)
26 smart00851 MGS MGS-like domain 44.2 24 0.00052 27.5 2.9 30 261-290 3-32 (90)
27 KOG1921 Endonuclease III [Repl 40.6 1.5E+02 0.0033 29.2 8.2 99 180-314 108-207 (286)
28 PF07647 SAM_2: SAM domain (St 40.2 34 0.00075 24.8 3.0 43 172-216 19-64 (66)
29 cd00532 MGS-like MGS-like doma 39.3 35 0.00075 27.9 3.2 33 258-290 12-44 (112)
30 PTZ00411 transaldolase-like pr 38.5 45 0.00097 33.3 4.4 62 210-288 115-176 (333)
31 cd01424 MGS_CPS_II Methylglyox 35.5 45 0.00098 26.8 3.3 32 258-289 13-44 (110)
32 PHA02517 putative transposase 35.2 42 0.00091 31.0 3.4 31 260-291 48-78 (277)
33 PF13068 DUF3932: Protein of u 34.0 9.5 0.00021 30.5 -0.9 32 220-251 4-36 (81)
34 cd03036 ArsC_like Arsenate Red 32.9 52 0.0011 27.0 3.3 54 150-206 38-93 (111)
35 TIGR01529 argR_whole arginine 31.8 50 0.0011 28.9 3.2 31 260-291 19-49 (146)
36 cd00052 EH Eps15 homology doma 31.5 31 0.00067 24.3 1.6 30 174-203 1-30 (67)
37 PRK12655 fructose-6-phosphate 30.2 1.2E+02 0.0026 28.5 5.6 53 210-286 65-117 (220)
38 cd01422 MGS Methylglyoxal synt 29.8 57 0.0012 27.2 3.1 33 257-289 11-46 (115)
39 PRK12346 transaldolase A; Prov 29.3 82 0.0018 31.3 4.5 62 210-288 104-165 (316)
40 PF05075 DUF684: Protein of un 28.4 92 0.002 30.8 4.7 53 146-198 115-176 (345)
41 smart00454 SAM Sterile alpha m 28.3 1.6E+02 0.0035 20.5 4.9 43 174-218 21-66 (68)
42 cd00957 Transaldolase_TalAB Tr 27.9 91 0.002 30.9 4.6 62 210-288 103-164 (313)
43 PHA02543 regA translation repr 27.6 23 0.0005 31.0 0.4 58 151-209 55-112 (125)
44 smart00027 EH Eps15 homology d 27.4 23 0.0005 27.9 0.3 34 169-202 7-40 (96)
45 PRK05269 transaldolase B; Prov 26.4 98 0.0021 30.7 4.5 62 210-288 105-166 (318)
46 PRK13344 spxA transcriptional 26.3 76 0.0017 27.2 3.3 45 158-206 47-92 (132)
47 cd01423 MGS_CPS_I_III Methylgl 26.2 73 0.0016 25.9 3.1 32 258-289 13-44 (116)
48 cd00439 Transaldolase Transald 26.0 65 0.0014 30.6 3.1 63 200-287 92-154 (252)
49 PRK12309 transaldolase/EF-hand 26.0 99 0.0021 31.5 4.5 105 160-288 66-170 (391)
50 PF13495 Phage_int_SAM_4: Phag 25.8 2.4E+02 0.0052 20.9 5.7 72 149-223 1-73 (85)
51 PF14493 HTH_40: Helix-turn-he 25.7 1.9E+02 0.0042 22.7 5.3 44 152-197 4-58 (91)
52 PF07755 DUF1611: Protein of u 25.5 60 0.0013 32.1 2.8 46 259-305 129-177 (301)
53 COG4081 Uncharacterized protei 24.8 56 0.0012 29.3 2.2 25 251-275 12-36 (148)
54 cd04883 ACT_AcuB C-terminal AC 24.5 53 0.0012 23.7 1.8 18 260-277 54-71 (72)
55 PF12401 DUF3662: Protein of u 24.4 38 0.00083 28.6 1.1 25 257-281 76-100 (116)
56 cd07153 Fur_like Ferric uptake 24.1 94 0.002 24.9 3.3 31 260-291 19-52 (116)
57 PF08439 Peptidase_M3_N: Oligo 23.6 73 0.0016 23.8 2.4 38 186-223 2-40 (70)
58 PF04433 SWIRM: SWIRM domain; 23.6 49 0.0011 25.9 1.5 14 278-291 72-85 (86)
59 PHA03308 transcriptional regul 23.3 42 0.00091 37.6 1.4 22 55-76 1253-1274(1463)
60 PRK12653 fructose-6-phosphate 23.0 1.4E+02 0.003 28.0 4.6 34 252-287 85-118 (220)
61 cd01421 IMPCH Inosine monophos 22.9 75 0.0016 29.5 2.8 31 259-289 12-42 (187)
62 COG3200 AroG 3-deoxy-D-arabino 22.3 1.9E+02 0.004 30.1 5.6 64 207-293 151-222 (445)
63 TIGR00874 talAB transaldolase. 22.1 1.4E+02 0.003 29.8 4.6 69 200-288 96-164 (317)
64 PF03960 ArsC: ArsC family; I 21.9 57 0.0012 26.4 1.6 45 158-206 43-89 (110)
65 PF00289 CPSase_L_chain: Carba 21.6 57 0.0012 27.2 1.6 21 259-279 87-107 (110)
66 cd02977 ArsC_family Arsenate R 21.5 90 0.002 24.9 2.7 46 157-206 45-92 (105)
67 PRK01172 ski2-like helicase; P 21.5 1.4E+02 0.003 31.8 4.7 37 182-223 635-671 (674)
68 cd05027 S-100B S-100B: S-100B 21.0 72 0.0016 25.4 2.0 46 172-217 8-60 (88)
69 cd00956 Transaldolase_FSA Tran 20.8 49 0.0011 30.5 1.2 55 209-287 62-116 (211)
70 PF13348 Y_phosphatase3C: Tyro 20.8 78 0.0017 23.4 2.1 19 219-237 34-52 (68)
71 cd03034 ArsC_ArsC Arsenate Red 20.2 1.1E+02 0.0024 25.1 3.0 44 158-206 46-91 (112)
No 1
>PRK10353 3-methyl-adenine DNA glycosylase I; Provisional
Probab=100.00 E-value=1.7e-88 Score=608.47 Aligned_cols=184 Identities=38% Similarity=0.782 Sum_probs=180.5
Q ss_pred CCCCCCcCCCCCchhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHh
Q 020903 117 IKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLS 196 (320)
Q Consensus 117 ~~RC~W~~~~~dply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~ 196 (320)
|.||.|++ +||+|++|||+|||+|+|||+.|||+||||+|||||||.|||+||++||+||++|||++||+|+|+||++
T Consensus 1 m~rC~W~~--~~~l~~~YHD~eWG~P~~dd~~LFE~L~Le~~QAGLSW~tIL~Kre~fr~aF~~Fd~~~VA~~~e~die~ 78 (187)
T PRK10353 1 MERCGWVS--QDPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRACFHQFDPVKVAAMQEEDVER 78 (187)
T ss_pred CCCCCCCC--CChHHHHhhhccCCCcCCCcHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHcCCCHHHHhCCCHHHHHH
Confidence 46999995 8999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccc
Q 020903 197 LKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVG 276 (320)
Q Consensus 197 Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVG 276 (320)
||+|++|||||+||+|||+|||++++|++|+|||++|||+||+++||+|++.+..++|++|++|++|||+||||||+|||
T Consensus 79 Ll~d~~IIRnr~KI~Avi~NA~~~l~i~~e~gSf~~ylW~fv~~~p~~~~~~~~~~~P~~t~~S~~lskdLKkrGFkFvG 158 (187)
T PRK10353 79 LVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEPFADFVWSFVNHQPQVTQATTLSEIPTSTPASDALSKALKKRGFKFVG 158 (187)
T ss_pred HhcCchhHHhHHHHHHHHHHHHHHHHHHHhcCCHHHHHhhccCCCcccCCccchhcCCCCCHHHHHHHHHHHHcCCcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHhccccCcccccccchh
Q 020903 277 PTVVYSFMQVSGIVNDHLLTCFRYQQ 302 (320)
Q Consensus 277 PttvYsFMQAvG~vNDHl~~C~r~~~ 302 (320)
||||||||||+||||||+++|+++..
T Consensus 159 pt~~ysfmqA~G~vndH~~~C~~~~~ 184 (187)
T PRK10353 159 TTICYSFMQACGLVNDHVVGCCCHPG 184 (187)
T ss_pred cHHHHHHHHHHCCccccccCccccCC
Confidence 99999999999999999999998843
No 2
>TIGR00624 tag DNA-3-methyladenine glycosylase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.3e-86 Score=591.24 Aligned_cols=179 Identities=37% Similarity=0.791 Sum_probs=175.9
Q ss_pred CCCCCcCCCCCchhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhh
Q 020903 118 KRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSL 197 (320)
Q Consensus 118 ~RC~W~~~~~dply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~L 197 (320)
.||.|++ +||+|++|||+|||+|+|||+.|||+||||+|||||||.|||+||++||+||+||||++||+|+|++|++|
T Consensus 1 ~rC~W~~--~~~l~~~YHD~eWG~p~~dd~~LFE~L~Le~fQAGLSW~tIL~Kr~~fr~aF~~Fd~~~VA~~~e~~ie~L 78 (179)
T TIGR00624 1 VRCGWAS--VDPLYRAYHDNEWGVPLRDSVALFERMSLEGFQAGLSWITVLRKRENYRRAFSGFDIVKVARMTDADVERL 78 (179)
T ss_pred CCCCCcC--CChHHHHhhhccCCCcCcCCHHHHHHHHHHHHhCcCCHHHHHHhHHHHHHHHcCCCHHHHhCCCHHHHHHH
Confidence 4899995 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccch
Q 020903 198 KVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGP 277 (320)
Q Consensus 198 l~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGP 277 (320)
|+|++|||||+||+|||+|||++++|++| ||++|||+||+++||+|++....++|++|++|++|||+||||||+||||
T Consensus 79 ~~d~~IIRnr~KI~Avi~NA~~~l~i~~e--sf~~ylW~fv~~~Pi~~~~~~~~~~p~~t~~S~~lskdLKkrGfkFvGp 156 (179)
T TIGR00624 79 LQDDGIIRNRGKIEATIANARAALQLEQN--DLVEFLWSFVNHQPQPRQRPTDSEIPSSTPESKAMSKELKKRGFRFVGP 156 (179)
T ss_pred hcCccchhhHHHHHHHHHHHHHHHHHHHc--cHHHHHHhccCCCCccCCccccccCCCCCHHHHHHHHHHHHcCCeecCh
Confidence 99999999999999999999999999887 9999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhccccCcccccccc
Q 020903 278 TVVYSFMQVSGIVNDHLLTCFRY 300 (320)
Q Consensus 278 ttvYsFMQAvG~vNDHl~~C~r~ 300 (320)
|||||||||+||||||+++|+++
T Consensus 157 t~~ysfmqA~G~vndH~~~C~~~ 179 (179)
T TIGR00624 157 TICYALMQATGMVDDHIQGCWVY 179 (179)
T ss_pred HHHHHHHHHHCCccccccCCcCC
Confidence 99999999999999999999975
No 3
>PF03352 Adenine_glyco: Methyladenine glycosylase; InterPro: IPR005019 This family of methyladenine glycosylases includes DNA-3-methyladenine glycosylase I (3.2.2.20 from EC) which acts as a base excision repair enzyme by severing the glycosylic bond of numerous damaged bases. The enzyme is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.; GO: 0008725 DNA-3-methyladenine glycosylase I activity, 0006284 base-excision repair; PDB: 2OFI_A 2OFK_A 2JG6_A 4AIA_E 4AI5_C 4AI4_A 1LMZ_A 1P7M_A 1NKU_A.
Probab=100.00 E-value=1.4e-84 Score=579.67 Aligned_cols=179 Identities=50% Similarity=0.935 Sum_probs=154.5
Q ss_pred CcCCCCCchhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCC
Q 020903 122 WITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNG 201 (320)
Q Consensus 122 W~~~~~dply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~ 201 (320)
|+. ++|+|++|||+|||+|+|||++|||+||||+|||||||.|||+||++||+||+||||++||+|+|+||++||+|+
T Consensus 1 W~~--~~~~~~~YHD~eWG~P~~dD~~LFe~L~Le~fQaGLsW~~Il~Kr~~~r~aF~~Fd~~~vA~~~e~~ie~l~~d~ 78 (179)
T PF03352_consen 1 WAN--SDPLYRAYHDEEWGRPVHDDRKLFEMLTLEGFQAGLSWSTILKKREAFREAFAGFDPEKVAKMDEEDIERLMQDP 78 (179)
T ss_dssp TTT--SSHHHHHHHHHTTTSS---HHHHHHHHHHHHHTTTS-HHHHHHTHHHHHHHTGGGHHHHHHT--HHHHHHHTTST
T ss_pred CCC--CChHHHHHhcccCCCcccCHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHCCCHHHHHcCCHHHHHHHhcCc
Confidence 884 799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHH
Q 020903 202 SLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVY 281 (320)
Q Consensus 202 ~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvY 281 (320)
+|||||+||+|||+||+++++|++|||||++|||+|++++||++.+++..++|++|++|++|||+||||||+||||||||
T Consensus 79 ~iIRnr~KI~Avi~NA~~~l~i~~e~gsF~~ylw~f~~~~~i~~~~~~~~~~p~~t~~s~~isk~lkk~GF~FvGpt~vy 158 (179)
T PF03352_consen 79 GIIRNRRKIRAVINNARAILKIQEEFGSFSDYLWSFVNGKPIVNHWRSPEDVPASTPLSEAISKDLKKRGFKFVGPTTVY 158 (179)
T ss_dssp TSS--HHHHHHHHHHHHHHHHHHHTTS-HHHHHHHCTTTS-EE---SSGGGS-S--HHHHHHHHHHHHTT--S--HHHHH
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHhcCCHHHHHHhcCCCcCccccccccccCcCccHHHHHHHHHHHhCcceeECHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccccCcccccccchh
Q 020903 282 SFMQVSGIVNDHLLTCFRYQQ 302 (320)
Q Consensus 282 sFMQAvG~vNDHl~~C~r~~~ 302 (320)
|||||+||||||+++|++|++
T Consensus 159 sflqA~G~vndH~~~C~~~~~ 179 (179)
T PF03352_consen 159 SFLQAIGMVNDHLVDCFRHQE 179 (179)
T ss_dssp HHHHHTTSEE-SSTTSTTS--
T ss_pred HHHHHhCCccccccCccccCC
Confidence 999999999999999999864
No 4
>COG2818 Tag 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.3e-84 Score=580.24 Aligned_cols=186 Identities=41% Similarity=0.819 Sum_probs=181.5
Q ss_pred CCCCCCcCCCCCchhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHh
Q 020903 117 IKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLS 196 (320)
Q Consensus 117 ~~RC~W~~~~~dply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~ 196 (320)
+.||.|+. +.||+|++|||+|||+|++||+.|||+||||+|||||||.|||+|||+||+||++|||++||.|+|+|||+
T Consensus 1 ~~rC~w~~-~~~ply~~YHD~eWG~p~~Dd~~LFE~l~Le~fQAGLSW~tVL~KRe~freaF~~Fd~~kVA~~~~~dver 79 (188)
T COG2818 1 MNRCAWAG-GLDPLYLAYHDTEWGVPLHDDQRLFELLCLEGFQAGLSWLTVLKKREAFREAFHGFDPEKVAAMTEEDVER 79 (188)
T ss_pred CCcccccC-CCCchhhcccccccCCCCCChHHHHHHHHHHHHhccchHHHHHHhHHHHHHHHhcCCHHHHHcCCHHHHHH
Confidence 47999996 34899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccc
Q 020903 197 LKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVG 276 (320)
Q Consensus 197 Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVG 276 (320)
||+|++|||||+||.|||+|||++++|++|||||++|||+|++++|+++++.+..++|+.|++|++|||+||||||+|||
T Consensus 80 Ll~d~gIIR~r~KI~A~i~NA~~~l~l~~e~Gsf~~flWsf~~~~~~~~~~~~~~~~pa~t~~S~~mskaLKkrGf~fvG 159 (188)
T COG2818 80 LLADAGIIRNRGKIKATINNARAVLELQKEFGSFSEFLWSFVGGKPSRNQVNDGSEVPASTELSDAMSKALKKRGFKFVG 159 (188)
T ss_pred HHhCcchhhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhcCCCcccccccchhhccccchhHHHHHHHHHHccCeecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHhccccCcccccccchhh
Q 020903 277 PTVVYSFMQVSGIVNDHLLTCFRYQQC 303 (320)
Q Consensus 277 PttvYsFMQAvG~vNDHl~~C~r~~~~ 303 (320)
|||||+||||+||||||+.+|+++..+
T Consensus 160 pTt~yafmqA~G~vndH~~~C~~~~~~ 186 (188)
T COG2818 160 PTTVYAFMQATGLVNDHAEGCPCRREI 186 (188)
T ss_pred cHHHHHHHHHHcchHHHHhcCCCcccc
Confidence 999999999999999999999988653
No 5
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=95.69 E-value=0.13 Score=43.78 Aligned_cols=104 Identities=15% Similarity=0.147 Sum_probs=80.2
Q ss_pred HHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhCC
Q 020903 150 FELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGS 229 (320)
Q Consensus 150 FE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GS 229 (320)
||.|+-.++..-.||..+.+-...|.+.|. .+|+.|+..+++++..+...-+ .+.|.+.+++=|+.+.+ .+++
T Consensus 1 ~e~Li~~il~q~~s~~~a~~~~~~l~~~~g-pt~~~l~~~~~~~l~~~~~~~G---~~~kA~~i~~~a~~~~~---~~~~ 73 (158)
T cd00056 1 FEVLVSEILSQQTTDKAVNKAYERLFERYG-PTPEALAAADEEELRELIRSLG---YRRKAKYLKELARAIVE---GFGG 73 (158)
T ss_pred CHHHHHHHHHhcccHHHHHHHHHHHHHHhC-CCHHHHHCCCHHHHHHHHHhcC---hHHHHHHHHHHHHHHHH---HcCC
Confidence 678888888888999999998888888885 7999999999999999888777 57899999888888753 4443
Q ss_pred HhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 230 FSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 230 F~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
+.. + . +.+-+.|. .++-|||-|+-.+|.-..
T Consensus 74 ~~~---------------------~--~---~~~~~~L~--~l~GIG~~tA~~~l~~~~ 104 (158)
T cd00056 74 LVL---------------------D--D---PDAREELL--ALPGVGRKTANVVLLFAL 104 (158)
T ss_pred ccC---------------------C--C---cccHHHHH--cCCCCCHHHHHHHHHHHC
Confidence 332 1 1 22334454 579999999988887554
No 6
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=95.20 E-value=0.37 Score=45.05 Aligned_cols=105 Identities=14% Similarity=0.259 Sum_probs=75.9
Q ss_pred HHHHHHHHHhccCcHHHHHHhHHHHHHHhc-----CCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHH
Q 020903 150 FELLVFSQALAELSWPAILSRRDIFRKLFD-----NFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQ 224 (320)
Q Consensus 150 FE~L~LEgfQAGLSW~tILkKRe~fR~AF~-----~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~ 224 (320)
||.|+-.+.-.-=+|..+.+-=+.++++|. .-+|+.|+.+++++|++++...|.- |+|.+.+.+=|+.++
T Consensus 31 fevLV~aILsQqT~~~~v~~a~~~L~~~~~~~~~~~~t~e~L~~a~~eeL~~~Irp~Gf~--~~KA~~Lk~la~~i~--- 105 (218)
T PRK13913 31 FEALLGAVLTQNTKFEAVEKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSGFY--NQKAKRLIDLSENIL--- 105 (218)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccccCCCHHHHHcCCHHHHHHHHHhcCCH--HHHHHHHHHHHHHHH---
Confidence 788887777666889998887777777653 2389999999999999999999954 567777877777774
Q ss_pred HhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHH
Q 020903 225 QEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQV 286 (320)
Q Consensus 225 ~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQA 286 (320)
+++|+++.+. .| + .-++|.+ .+-|||-|+-++|--
T Consensus 106 ~~~g~~~~~~------------------~~---~----~re~Ll~--l~GIG~kTAd~iLly 140 (218)
T PRK13913 106 KDFGSFENFK------------------QE---V----TREWLLD--QKGIGKESADAILCY 140 (218)
T ss_pred HHcCCchhcc------------------Cc---h----HHHHHHc--CCCccHHHHHHHHHH
Confidence 4667765321 01 0 1134443 788999998888763
No 7
>TIGR03252 uncharacterized HhH-GPD family protein. This model describes a small, well-conserved bacterial protein family. Its sequence largely consists of a domain, HhH-GPD, found in a variety of related base excision DNA repair enzymes (see pfam00730).
Probab=94.96 E-value=0.55 Score=42.93 Aligned_cols=116 Identities=10% Similarity=0.167 Sum_probs=79.7
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHH-HHhcCCChHHHhcCCHHHHHhhhcC-CCccc-chhHHHHHHHHHHHHHHHHH
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFR-KLFDNFDISSVSQFTEKKLLSLKVN-GSLLL-SEAKLRAIVENAKQMLKVQQ 225 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR-~AF~~FDp~kVA~~~e~dIe~Ll~d-~~IIR-Nr~KI~AiI~NArailkv~~ 225 (320)
-||+|+-.+.-+--+|..+.+=-+.+. ++|. .||+.|++++.++|++++.. |++.+ .+.|=+-+++=|+.++ +
T Consensus 18 pFelLVa~ILSQqTtd~nv~kA~~~L~~~~g~-~tp~~La~a~~eeL~~lI~~~pal~Gfy~~KAk~Lk~~a~~ii---e 93 (177)
T TIGR03252 18 PFALLTGMLLDQQVPMERAFAGPHKIARRMGS-LDAEDIAKYDPQAFVALFSERPAVHRFPGSMAKRVQALAQYVV---D 93 (177)
T ss_pred hHHHHHHHHHhccCcHHHHHHHHHHHHHHhCC-CCHHHHHcCCHHHHHHHHhcCccccCchHHHHHHHHHHHHHHH---H
Confidence 489999999999999999987666664 4544 89999999999999999975 45333 2345555555555553 5
Q ss_pred hhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 226 EFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 226 E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
+||+=-.-||.. .+|.. ..+-++|. .++-|||.|+--||.-.|
T Consensus 94 ~y~G~v~~L~~~--------------~~p~t----~~lre~Ll--~LpGVG~KTAnvVL~~l~ 136 (177)
T TIGR03252 94 TYDGDATAVWTE--------------GDPDG----KELLRRLK--ALPGFGKQKAKIFLALLG 136 (177)
T ss_pred HhCCChhhhhcc--------------cCCCc----HHHHHHHH--cCCCCCHHHHHHHHHHHH
Confidence 665422333432 11322 23334555 479999999999998877
No 8
>TIGR01083 nth endonuclease III. This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=94.72 E-value=0.44 Score=42.74 Aligned_cols=101 Identities=18% Similarity=0.245 Sum_probs=75.3
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhC
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFG 228 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~G 228 (320)
-||.|+-++.-.--+|..+.+--..+.+.|- +|+.|+..++++|.+++.--|.-+ .|.+.+++=|+++++ ++|
T Consensus 26 pf~~Li~~ILsqqt~~~~~~~~~~~l~~~~p--t~~~l~~~~~~~L~~~ir~~G~~~--~Ka~~i~~~a~~i~~---~~~ 98 (191)
T TIGR01083 26 PFELLVATILSAQATDKSVNKATKKLFEVYP--TPQALAQAGLEELEEYIKSIGLYR--NKAKNIIALCRILVE---RYG 98 (191)
T ss_pred HHHHHHHHHHHhhCcHHHHHHHHHHHHHHCC--CHHHHHcCCHHHHHHHHHhcCChH--HHHHHHHHHHHHHHH---HcC
Confidence 5899999999899999999988777777664 799999999999999988888654 677777777777653 333
Q ss_pred CHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHh
Q 020903 229 SFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVS 287 (320)
Q Consensus 229 SF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAv 287 (320)
+ .+|. .-+.|.+ ++-|||.|+..+|.-.
T Consensus 99 ~----------------------~~~~-------~~~~L~~--l~GIG~ktA~~ill~~ 126 (191)
T TIGR01083 99 G----------------------EVPE-------DREELVK--LPGVGRKTANVVLNVA 126 (191)
T ss_pred C----------------------CCch-------HHHHHHh--CCCCcHHHHHHHHHHH
Confidence 1 1121 1234543 7889999998887544
No 9
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=94.60 E-value=0.36 Score=40.82 Aligned_cols=88 Identities=18% Similarity=0.274 Sum_probs=65.8
Q ss_pred CcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCc
Q 020903 162 LSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHA 241 (320)
Q Consensus 162 LSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~k 241 (320)
.+|..+.+--..|.+.|- +|+.|+..++++|.+++..-+ -.+.|.+.+++.|+.+.+ ++++
T Consensus 5 ~~~~~a~~~~~~l~~~~~--~~~~l~~~~~~eL~~~l~~~g--~~~~ka~~i~~~a~~~~~---~~~~------------ 65 (149)
T smart00478 5 TSDEAVNKATERLFEKFP--TPEDLAAADEEELEELIRPLG--FYRRKAKYLIELARILVE---EYGG------------ 65 (149)
T ss_pred ccHHHHHHHHHHHHHHCC--CHHHHHCCCHHHHHHHHHHcC--ChHHHHHHHHHHHHHHHH---HHCC------------
Confidence 467888888888888887 799999999999999887755 456799999999988754 2221
Q ss_pred cccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHh
Q 020903 242 PVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVS 287 (320)
Q Consensus 242 pi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAv 287 (320)
.+| + ..+.|.+ ++-|||-|+-.||.-.
T Consensus 66 ----------~~~------~-~~~~L~~--l~GIG~~tA~~~l~~~ 92 (149)
T smart00478 66 ----------EVP------D-DREELLK--LPGVGRKTANAVLSFA 92 (149)
T ss_pred ----------Ccc------H-HHHHHHc--CCCCcHHHHHHHHHHH
Confidence 112 1 2345653 8999999998888765
No 10
>PRK10702 endonuclease III; Provisional
Probab=92.09 E-value=0.9 Score=41.97 Aligned_cols=69 Identities=13% Similarity=0.088 Sum_probs=56.3
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHH
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQML 221 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArail 221 (320)
-||.|+-++.-+--+|..|.+--+.+.+.| .+|+.+++.++++|+.++.--|.-+. |=..+++.|+.++
T Consensus 29 p~e~lvs~iLsq~t~~~~v~~~~~~L~~~~--pt~e~l~~a~~~~l~~~i~~~G~y~~--kA~~l~~~a~~i~ 97 (211)
T PRK10702 29 PFELLIAVLLSAQATDVSVNKATAKLYPVA--NTPAAMLELGVEGVKTYIKTIGLYNS--KAENVIKTCRILL 97 (211)
T ss_pred hHHHHHHHHHHhhcCHHHHHHHHHHHHHHc--CCHHHHHCCCHHHHHHHHHHcCCHHH--HHHHHHHHHHHHH
Confidence 599999999988899999988877777655 47899999999999999988886554 4455777777765
No 11
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=89.67 E-value=4.8 Score=37.77 Aligned_cols=101 Identities=24% Similarity=0.278 Sum_probs=68.0
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCC-hHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhh
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFD-ISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEF 227 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FD-p~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~ 227 (320)
-||+|+--+..|-=+=..+- .+.++.|.-|+ |+.++..++++|+.++..-|.-|| |-..|+.=|+.++ ++|
T Consensus 29 pf~lLva~iLSaqttD~~vn---~at~~Lf~~~~t~e~l~~a~~~~l~~~I~~iGlyr~--KAk~I~~~~~~l~---e~~ 100 (211)
T COG0177 29 PFELLVAVILSAQTTDEVVN---KATPALFKRYPTPEDLLNADEEELEELIKSIGLYRN--KAKNIKELARILL---EKF 100 (211)
T ss_pred cHHHHHHHHHhccCchHHHH---HHHHHHHHHcCCHHHHHcCCHHHHHHHHHhcCCcHH--HHHHHHHHHHHHH---HHc
Confidence 47877654444433333333 34555555555 999999999999999999997776 5556787777764 666
Q ss_pred CCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 228 GSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 228 GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
|+ +||.+-. +|.+ .--||+.|++-.|.-+.
T Consensus 101 ~g----------------------~vP~~~~-------eL~~--LPGVGrKTAnvVL~~a~ 130 (211)
T COG0177 101 GG----------------------EVPDTRE-------ELLS--LPGVGRKTANVVLSFAF 130 (211)
T ss_pred CC----------------------CCCchHH-------HHHh--CCCcchHHHHHHHHhhc
Confidence 65 3454321 2222 46799999999888744
No 12
>PRK10880 adenine DNA glycosylase; Provisional
Probab=87.93 E-value=5 Score=40.06 Aligned_cols=68 Identities=12% Similarity=0.178 Sum_probs=58.1
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHH
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQML 221 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArail 221 (320)
-|+.|+-|++..=-+|.+|+.--+.|.+.| .+++.+|..++++|.++..--|.- + |.+-+..-|+.+.
T Consensus 30 py~ilVseILlQQT~v~~v~~~~~rl~~~f--Pt~~~La~a~~eel~~~~~glGyy-~--RAr~L~~~A~~i~ 97 (350)
T PRK10880 30 PYKVWLSEVMLQQTQVATVIPYFERFMARF--PTVTDLANAPLDEVLHLWTGLGYY-A--RARNLHKAAQQVA 97 (350)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHC--cCHHHHHCcCHHHHHHHHHcCChH-H--HHHHHHHHHHHHH
Confidence 478899999999999999999999999987 479999999999999999988875 2 6667777777664
No 13
>PF00730 HhH-GPD: HhH-GPD superfamily base excision DNA repair protein This entry corresponds to Endonuclease III This entry corresponds to Alkylbase DNA glycosidase; InterPro: IPR003265 Endonuclease III (4.2.99.18 from EC) is a DNA repair enzyme which removes a number of damaged pyrimidines from DNA via its glycosylase activity and also cleaves the phosphodiester backbone at apurinic / apyrimidinic sites via a beta-elimination mechanism [, ]. The structurally related DNA glycosylase MutY recognises and excises the mutational intermediate 8-oxoguanine-adenine mispair []. The 3-D structures of Escherichia coli endonuclease III [] and catalytic domain of MutY [] have been determined. The structures contain two all-alpha domains: a sequence-continuous, six-helix domain (residues 22-132) and a Greek-key, four-helix domain formed by one N-terminal and three C-terminal helices (residues 1-21 and 133-211) together with the [Fe4S4] cluster. The cluster is bound entirely within the C-terminal loop by four cysteine residues with a ligation pattern Cys-(Xaa)6-Cys-(Xaa)2-Cys-(Xaa)5-Cys which is distinct from all other known Fe4S4 proteins. This structural motif is referred to as a [Fe4S4] cluster loop (FCL) []. Two DNA-binding motifs have been proposed, one at either end of the interdomain groove: the helix-hairpin-helix (HhH) and FCL motifs (see IPR003651 from INTERPRO). The primary role of the iron-sulphur cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone by forming the loop of the FCL motif [, ]. The HhH-GPD domain gets its name from its hallmark helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This domain is found in a diverse range of structurally related DNA repair proteins that include: endonuclease III, 4.2.99.18 from EC and DNA glycosylase MutY, an A/G-specific adenine glycosylase. Both of these enzymes have a C-terminal iron-sulphur cluster loop (FCL). The methyl-CPG binding protein (MBD4) also contain a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II 3.2.2.21 from EC, 8-oxoguanine DNA glycosylases and other members of the AlkA family.; GO: 0006284 base-excision repair; PDB: 3F0Z_A 3I0X_A 3F10_A 3I0W_A 3S6I_D 3N5N_Y 1PU7_A 1PU8_B 1PU6_B 1NGN_A ....
Probab=87.93 E-value=3.4 Score=32.87 Aligned_cols=63 Identities=17% Similarity=0.079 Sum_probs=53.6
Q ss_pred HHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHH
Q 020903 157 QALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQML 221 (320)
Q Consensus 157 gfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArail 221 (320)
++..-.+|..+.+-...|.+.|...+|+.|+..++++|.+++..-| -++.|-+.+++=|+.++
T Consensus 4 Il~qq~s~~~a~~~~~~l~~~~g~pt~~~l~~~~~~el~~~i~~~G--~~~~ka~~i~~~a~~~~ 66 (108)
T PF00730_consen 4 ILSQQTSIKAARKIYRRLFERYGFPTPEALAEASEEELRELIRPLG--FSRRKAKYIIELARAIL 66 (108)
T ss_dssp HHCTTS-HHHHHHHHHHHHHHHSCSSHHHHHCSHHHHHHHHHTTST--SHHHHHHHHHHHHHHHH
T ss_pred eecCcCcHHHHHHHHHHHHHHhcCCCHHHHHhCCHHHHHHHhhccC--CCHHHHHHHHHHHHHhh
Confidence 4455678999999999999999989999999999999999998866 45578888999898887
No 14
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=87.78 E-value=5.3 Score=38.46 Aligned_cols=68 Identities=10% Similarity=0.215 Sum_probs=56.9
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHH
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQML 221 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArail 221 (320)
.|+.|+-+++..=-+|.+|+.-.+.|.+.|- +|+.+|..++++|..+...-|.- + |.+.+.+=|+.+.
T Consensus 26 py~vlvseIL~QQT~v~~v~~~~~rl~~~fp--t~~~La~a~~eeL~~~~~~lG~y-~--RAr~L~~~A~~i~ 93 (275)
T TIGR01084 26 PYRVWLSEVMLQQTQVATVIPYFERFLERFP--TVQALANAPQDEVLKLWEGLGYY-A--RARNLHKAAQEVV 93 (275)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHhCC--CHHHHHCcCHHHHHHHHHHCCcH-H--HHHHHHHHHHHHH
Confidence 5899999999999999999999999999884 69999999999999998888875 3 4556665556553
No 15
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=83.77 E-value=4.5 Score=37.75 Aligned_cols=55 Identities=16% Similarity=0.104 Sum_probs=43.3
Q ss_pred chHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCC--cccch
Q 020903 145 DDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGS--LLLSE 207 (320)
Q Consensus 145 DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~--IIRNr 207 (320)
++.-+|+.|+..+.-+.-+|..+.+--+.+ +++.+ .+++++|++++...| .-|++
T Consensus 33 ~~~~~f~~Lv~~ILsqnT~~~~v~~a~~~L-------~~~~l-~~~~eeL~~~Ir~~Gygf~~~K 89 (208)
T PRK01229 33 DEEDLFSELSFCILTANSSAEGGIKAQKEI-------GDGFL-YLSEEELEEKLKEVGHRFYNKR 89 (208)
T ss_pred ccCChHHHHHHHHhcCcCcHHHHHHHHHhc-------CHHHc-CCCHHHHHHHHHHhhcccHHHH
Confidence 777899999999999999999998765555 34455 789999999996653 44443
No 16
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=76.37 E-value=29 Score=33.64 Aligned_cols=109 Identities=20% Similarity=0.171 Sum_probs=80.4
Q ss_pred HHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcC--------CChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHH
Q 020903 147 RKLFELLVFSQALAELSWPAILSRRDIFRKLFDN--------FDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAK 218 (320)
Q Consensus 147 r~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~--------FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NAr 218 (320)
.-+||.|+--+.+.=+|=..+-+-+..|.++|.+ =.|++|+..+++++. ++-.++.|.+.|++=|+
T Consensus 103 ~d~fe~lv~aI~~QqvS~~~A~~i~~rl~~~~g~~~~~~~~fptpe~l~~~~~~~l~------~~g~s~~Ka~yi~~~A~ 176 (285)
T COG0122 103 PDPFEALVRAILSQQVSVAAAAKIWARLVSLYGNALEIYHSFPTPEQLAAADEEALR------RCGLSGRKAEYIISLAR 176 (285)
T ss_pred CCHHHHHHHHHHHhHhhHHHHHHHHHHHHHHhCCccccccCCCCHHHHHhcCHHHHH------HhCCcHHHHHHHHHHHH
Confidence 5699999999999999999999999999999984 589999999999998 44578899999999999
Q ss_pred HHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHH-HHHhc
Q 020903 219 QMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSF-MQVSG 288 (320)
Q Consensus 219 ailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsF-MQAvG 288 (320)
++..-+ =++... .+.+ -+.+-+.|.+ |+-|||-|+--| |.+.|
T Consensus 177 ~~~~g~---~~~~~l-----------------~~~~-----~e~a~e~L~~--i~GIG~WTAe~~llf~lg 220 (285)
T COG0122 177 AAAEGE---LDLSEL-----------------KPLS-----DEEAIEELTA--LKGIGPWTAEMFLLFGLG 220 (285)
T ss_pred HHHcCC---ccHHHh-----------------ccCC-----HHHHHHHHHc--CCCcCHHHHHHHHHHcCC
Confidence 985321 011111 1111 1344455665 999999998554 45555
No 17
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=67.00 E-value=6 Score=31.44 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=26.4
Q ss_pred HHHHHHHHhcCCcccchhhHHHHHHHhccc
Q 020903 261 ELISKDLMQKGFRCVGPTVVYSFMQVSGIV 290 (320)
Q Consensus 261 ~~iSKdLKkrGFkFVGPttvYsFMQAvG~v 290 (320)
..++|.|.+.||++++.-..+.||+..|+-
T Consensus 3 ~~~a~~l~~lG~~i~AT~gTa~~L~~~Gi~ 32 (95)
T PF02142_consen 3 VPLAKRLAELGFEIYATEGTAKFLKEHGIE 32 (95)
T ss_dssp HHHHHHHHHTTSEEEEEHHHHHHHHHTT--
T ss_pred HHHHHHHHHCCCEEEEChHHHHHHHHcCCC
Confidence 568999999999999999999999999985
No 18
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=66.76 E-value=6.5 Score=33.36 Aligned_cols=47 Identities=13% Similarity=0.070 Sum_probs=38.0
Q ss_pred HHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccc
Q 020903 157 QALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLS 206 (320)
Q Consensus 157 gfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRN 206 (320)
..+.|..|..++++|..+-+... .++....+++.++.|+.++.+||-
T Consensus 47 l~~~g~~~~~li~t~~~~~r~L~---~~~~~~~~~~~~~~i~~~~~LikR 93 (117)
T COG1393 47 LSKLGDGVEELINTRGTTYRELN---LDKEDLSDEELIEALLENPSLIKR 93 (117)
T ss_pred HHHcCccHHHHHHhccchHHHcC---CcccccChHHHHHHHHhChhhccC
Confidence 46789999999999988777766 555667788889999999977763
No 19
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=63.57 E-value=18 Score=25.46 Aligned_cols=43 Identities=16% Similarity=0.179 Sum_probs=32.6
Q ss_pred HHHHHHh--cCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHH
Q 020903 172 DIFRKLF--DNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVEN 216 (320)
Q Consensus 172 e~fR~AF--~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~N 216 (320)
+.|.+.| .++|-..+..++++++..+--.. .-+|.||...|..
T Consensus 17 ~~y~~~f~~~~i~g~~L~~l~~~dL~~lgi~~--~g~r~~i~~~i~~ 61 (63)
T cd00166 17 GQYADNFRENGIDGDLLLLLTEEDLKELGITL--PGHRKKILKAIQK 61 (63)
T ss_pred HHHHHHHHHcCCCHHHHhHCCHHHHHHcCCCC--HHHHHHHHHHHHH
Confidence 5677777 56889999999999999665433 5678888777654
No 20
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=62.72 E-value=18 Score=36.26 Aligned_cols=102 Identities=23% Similarity=0.347 Sum_probs=62.9
Q ss_pred HHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHH------hhCCHhhhh--------hhccCCc-----------cccCC
Q 020903 192 KKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQ------EFGSFSKYC--------WNFVNHA-----------PVRNG 246 (320)
Q Consensus 192 ~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~------E~GSF~~yl--------WsFv~~k-----------pi~~~ 246 (320)
+-|+.+++||.+= .++++=+.-++.+.+... +.+||..|. |..+--. ||+.-
T Consensus 33 ~pv~~vl~dp~~~---~~lr~rL~~~~~iR~FA~~~L~Lpdn~sY~~YadL~Rp~vvWnV~Aap~~sl~~~~WcFPi~Gc 109 (337)
T PF10023_consen 33 RPVDDVLADPATP---PALRARLRLAQQIRRFASEELGLPDNGSYRSYADLDRPYVVWNVFAAPEFSLEPKTWCFPIVGC 109 (337)
T ss_pred CcHHHHhhCCCCC---HHHHHHHHHHHHHHHHHHHhcCCCCCCChhhhhhcCCCcEEEEEEecCcccCCcceeecccccc
Confidence 3477888888543 333333334444333332 236666653 3322111 56555
Q ss_pred CCccCCCCCCCHHHHHHHHHHHhcCC-cccchhhHHHHHHHhccccCcccccccch
Q 020903 247 FRYARQVPVKTPKAELISKDLMQKGF-RCVGPTVVYSFMQVSGIVNDHLLTCFRYQ 301 (320)
Q Consensus 247 ~~~~~~vP~~t~~S~~iSKdLKkrGF-kFVGPttvYsFMQAvG~vNDHl~~C~r~~ 301 (320)
..+-+=.- ...+...++.|++.|+ .+||++.+||= .|+.+|=+.+-+.+.
T Consensus 110 v~YrGyF~--~~~A~~~a~~L~~~GlDv~v~gV~AYST---LGwF~DPlLSt~l~~ 160 (337)
T PF10023_consen 110 VPYRGYFD--EADARAEAAELRAQGLDVYVGGVPAYST---LGWFDDPLLSTMLRY 160 (337)
T ss_pred ccccCcCC--HHHHHHHHHHHHHcCCceeEeccccccc---ccccCCcccccccCC
Confidence 44443332 3457889999999999 69999999986 489999988887653
No 21
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=56.83 E-value=1.2e+02 Score=29.30 Aligned_cols=118 Identities=17% Similarity=0.154 Sum_probs=72.1
Q ss_pred CCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhc----------CC-ChHHHhcCCHHHHHhhhcCCCcccc
Q 020903 138 EWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFD----------NF-DISSVSQFTEKKLLSLKVNGSLLLS 206 (320)
Q Consensus 138 EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~----------~F-Dp~kVA~~~e~dIe~Ll~d~~IIRN 206 (320)
.=|.-+.-..-+||.|+-.+.-.-.|=..+-+-...+-+.|. -| +|+.|++.+++++..+ ++ .
T Consensus 102 ~~GlR~p~~~d~fE~lv~aIigQqisv~~a~~~~~rlv~~~G~~l~~~~~~~~FPtpe~La~~~~~eL~~~----Gl--~ 175 (283)
T PRK10308 102 RPGLRLPGSVDAFEQGVRAILGQLVSVAMAAKLTAKVAQLYGERLDDFPEYVCFPTPERLAAADPQALKAL----GM--P 175 (283)
T ss_pred CCCCcCCCCCCHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCccccCCCCccCCCCHHHHHcCCHHHHHHC----CC--C
Confidence 335555545568998887765444444333333344444433 34 7999999999988753 33 3
Q ss_pred hhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhH-HHHHH
Q 020903 207 EAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVV-YSFMQ 285 (320)
Q Consensus 207 r~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttv-YsFMQ 285 (320)
+.|.++++.=|+++.+ |.++- +.+. + .+.+-+.|.+ ++-|||-|+ |-.|.
T Consensus 176 ~~Ra~~L~~lA~~i~~-----g~l~l-------------------~~~~-~--~~~~~~~L~~--LpGIGpwTA~~vllr 226 (283)
T PRK10308 176 LKRAEALIHLANAALE-----GTLPL-------------------TIPG-D--VEQAMKTLQT--FPGIGRWTANYFALR 226 (283)
T ss_pred HHHHHHHHHHHHHHHc-----CCCCc-------------------cccC-C--HHHHHHHHhc--CCCcCHHHHHHHHHH
Confidence 5688888888888753 33220 0011 1 1344456665 899999888 76777
Q ss_pred Hhccc
Q 020903 286 VSGIV 290 (320)
Q Consensus 286 AvG~v 290 (320)
+.|-.
T Consensus 227 ~lg~~ 231 (283)
T PRK10308 227 GWQAK 231 (283)
T ss_pred hCCCC
Confidence 77754
No 22
>TIGR00588 ogg 8-oxoguanine DNA-glycosylase (ogg). All proteins in this family for which functions are known are 8-oxo-guanaine DNA glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is distantly realted to the Nth-MutY superfamily.
Probab=49.95 E-value=2e+02 Score=28.04 Aligned_cols=131 Identities=18% Similarity=0.175 Sum_probs=77.3
Q ss_pred CCchhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcC------------C-ChHHHhcCCHHH
Q 020903 127 SDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDN------------F-DISSVSQFTEKK 193 (320)
Q Consensus 127 ~dply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~------------F-Dp~kVA~~~e~d 193 (320)
.||.+..--+.--|..+.-. -.||.|+-.+...-.|+..|.+-...+.++|-. | +|+.|+..+.+
T Consensus 98 ~D~~l~~~~~~~~GlRi~~~-d~fE~lv~~IlsQq~si~~a~~~~~rL~~~~G~~~~~~~g~~~~~FPtp~~La~~~~e- 175 (310)
T TIGR00588 98 VDKHFQYVAQKFQGVRLLRQ-DPFECLISFICSSNNNIARITRMVERLCQAFGPRLITLDGVTYHGFPSLHALTGPEAE- 175 (310)
T ss_pred cCHHHHHHHHhCCCCCCCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhCCCcccCCCcccccCCCHHHHhCCChH-
Confidence 35555444455567655444 579999999999999999999999999887652 3 36777664432
Q ss_pred HHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCc
Q 020903 194 LLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFR 273 (320)
Q Consensus 194 Ie~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFk 273 (320)
..+..-++ . .|.+.|+.=|+++. +.+|+.. ++-.+ ...| .+.+-+.|.+ ++
T Consensus 176 --~~Lr~~G~-g--~Ra~~I~~~A~~i~---~~~~~~~-~l~~l-------------~~~~-----~~~~~~~L~~--l~ 226 (310)
T TIGR00588 176 --AHLRKLGL-G--YRARYIRETARALL---EEQGGRA-WLQQI-------------RGAS-----YEDAREALCE--LP 226 (310)
T ss_pred --HHHHHcCC-H--HHHHHHHHHHHHHH---hccCCch-hHHhh-------------ccCC-----hHHHHHHHHh--CC
Confidence 22222344 2 24666776677664 3333321 11111 1111 1233445554 89
Q ss_pred ccchhhHHH-HHHHhc
Q 020903 274 CVGPTVVYS-FMQVSG 288 (320)
Q Consensus 274 FVGPttvYs-FMQAvG 288 (320)
-|||-|+-- .|.+.|
T Consensus 227 GIG~~tAd~vll~~l~ 242 (310)
T TIGR00588 227 GVGPKVADCICLMGLD 242 (310)
T ss_pred CccHHHHHHHHHHhCC
Confidence 999988854 445555
No 23
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=49.68 E-value=1.5e+02 Score=28.27 Aligned_cols=75 Identities=15% Similarity=0.229 Sum_probs=56.8
Q ss_pred chhhhhhhcCCCccccchHHHHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchh
Q 020903 129 PLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEA 208 (320)
Q Consensus 129 ply~~YHD~EWG~Pv~DDr~LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~ 208 (320)
.|+.-|+|.-|=--...+ |.++=.+.----||.-|.+.-+.++..+. +++.+|..+++++++.+..-.|--+-..
T Consensus 14 ~L~~~yg~q~WWp~~~~~----EiiigAILtQNT~WknvekAlenLk~~~~-~~l~~I~~~~~~~L~elIrpsGFYnqKa 88 (215)
T COG2231 14 ELLRLYGDQGWWPADNKD----EIIIGAILTQNTSWKNVEKALENLKNEGI-LNLKKILKLDEEELAELIRPSGFYNQKA 88 (215)
T ss_pred HHHHHcCCccCCCCCCch----hHHHHHHHhccccHHHHHHHHHHHHHccc-CCHHHHhcCCHHHHHHHHhccchHHHHH
Confidence 366778888885433333 54444444445689999999999998765 6799999999999999999999876543
No 24
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=46.41 E-value=44 Score=24.19 Aligned_cols=43 Identities=21% Similarity=0.308 Sum_probs=31.4
Q ss_pred HHHHHHh-cC-CChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHH
Q 020903 172 DIFRKLF-DN-FDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVEN 216 (320)
Q Consensus 172 e~fR~AF-~~-FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~N 216 (320)
+.|...| .+ -|-..+..+++++++.|--. .+-||.||...|..
T Consensus 18 ~~y~~~F~~~~i~g~~L~~lt~~dL~~lgi~--~~ghr~ki~~~i~~ 62 (64)
T PF00536_consen 18 EQYAENFEKNYIDGEDLLSLTEEDLEELGIT--KLGHRKKILRAIQK 62 (64)
T ss_dssp GGGHHHHHHTTSSHHHHTTSCHHHHHHTT-S--SHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCchHHHHHhcCHHHHHHcCCC--CHHHHHHHHHHHHH
Confidence 5666777 34 48999999999999984322 23588899887764
No 25
>PF13276 HTH_21: HTH-like domain
Probab=45.60 E-value=26 Score=25.43 Aligned_cols=31 Identities=23% Similarity=0.164 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCCcccchhhHHHHHHHhccc
Q 020903 260 AELISKDLMQKGFRCVGPTVVYSFMQVSGIV 290 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGPttvYsFMQAvG~v 290 (320)
+..|..+|.+.|---||-.+|+-+|+..||.
T Consensus 23 ~rri~~~L~~~~~~~v~~krV~RlM~~~gL~ 53 (60)
T PF13276_consen 23 YRRIWAELRREGGIRVSRKRVRRLMREMGLR 53 (60)
T ss_pred hhHHHHHHhccCcccccHHHHHHHHHHcCCc
Confidence 4689999999965579999999999999986
No 26
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=44.20 E-value=24 Score=27.55 Aligned_cols=30 Identities=23% Similarity=0.369 Sum_probs=26.0
Q ss_pred HHHHHHHHhcCCcccchhhHHHHHHHhccc
Q 020903 261 ELISKDLMQKGFRCVGPTVVYSFMQVSGIV 290 (320)
Q Consensus 261 ~~iSKdLKkrGFkFVGPttvYsFMQAvG~v 290 (320)
..+++.|.+.||+.......+.||+..|+-
T Consensus 3 ~~~~~~l~~lG~~i~AT~gTa~~L~~~Gi~ 32 (90)
T smart00851 3 VELAKRLAELGFELVATGGTAKFLREAGLP 32 (90)
T ss_pred HHHHHHHHHCCCEEEEccHHHHHHHHCCCc
Confidence 467888999999999988889999999863
No 27
>KOG1921 consensus Endonuclease III [Replication, recombination and repair]
Probab=40.64 E-value=1.5e+02 Score=29.19 Aligned_cols=99 Identities=23% Similarity=0.276 Sum_probs=60.7
Q ss_pred CCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHH
Q 020903 180 NFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPK 259 (320)
Q Consensus 180 ~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~ 259 (320)
+.-+++|.+++|..|+.|+.-=+--. +|-.=+-.-|+.+ +++|+ ++||.+-
T Consensus 108 gLT~e~v~~~de~~l~~LI~~VgFy~--rKA~ylkkta~IL---~d~f~----------------------gDIP~~v-- 158 (286)
T KOG1921|consen 108 GLTLEAVLKIDEPTLNELIYPVGFYT--RKAKYLKKTAKIL---QDKFD----------------------GDIPDTV-- 158 (286)
T ss_pred CCCHHHHhccChHhHHhhhhhccchH--HHHHHHHHHHHHH---HHHhC----------------------CCCchhH--
Confidence 89999999999999999998877544 4443343444433 23332 4677532
Q ss_pred HHHHHHHHHhcCCcccchhhHHHHHH-HhccccCcccccccchhhhhhhhcCCcch
Q 020903 260 AELISKDLMQKGFRCVGPTVVYSFMQ-VSGIVNDHLLTCFRYQQCNADAKKDLKTK 314 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGPttvYsFMQ-AvG~vNDHl~~C~r~~~~~~~~~~~~~~~ 314 (320)
- +|- +.--|||..+|-.|| |.|-|..--++-+.|.-|+.+.=-+.+++
T Consensus 159 ~-----dLl--sLPGVGPKMa~L~m~~AWn~i~GI~VDtHVHRi~nrlgWv~~ktk 207 (286)
T KOG1921|consen 159 E-----DLL--SLPGVGPKMAHLTMQVAWNKIVGICVDTHVHRICNRLGWVDTKTK 207 (286)
T ss_pred H-----HHh--cCCCCchHHHHHHHHHHhccceeEEeehHHHHHHHHhcccccccC
Confidence 2 222 567899999999998 44544444444444555543333333333
No 28
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=40.18 E-value=34 Score=24.83 Aligned_cols=43 Identities=21% Similarity=0.289 Sum_probs=30.6
Q ss_pred HHHHHHhc--CCCh-HHHhcCCHHHHHhhhcCCCcccchhHHHHHHHH
Q 020903 172 DIFRKLFD--NFDI-SSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVEN 216 (320)
Q Consensus 172 e~fR~AF~--~FDp-~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~N 216 (320)
+.|.++|. ++|- +.++.|+++++.++.-... -+|.||-..|++
T Consensus 19 ~~y~~~f~~~~i~g~~~L~~l~~~~L~~lGI~~~--~~r~kll~~i~~ 64 (66)
T PF07647_consen 19 EQYADNFRENGIDGLEDLLQLTEEDLKELGITNL--GHRRKLLSAIQE 64 (66)
T ss_dssp GGGHHHHHHTTCSHHHHHTTSCHHHHHHTTTTHH--HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHhhCCHHHHHHcCCCCH--HHHHHHHHHHHH
Confidence 45666776 6666 7799999999987755333 467787776654
No 29
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=39.28 E-value=35 Score=27.92 Aligned_cols=33 Identities=15% Similarity=0.143 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhcCCcccchhhHHHHHHHhccc
Q 020903 258 PKAELISKDLMQKGFRCVGPTVVYSFMQVSGIV 290 (320)
Q Consensus 258 ~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG~v 290 (320)
+....+++.|.+.||+..+.-..+.||+..|+-
T Consensus 12 ~~~~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~ 44 (112)
T cd00532 12 AMLVDLAPKLSSDGFPLFATGGTSRVLADAGIP 44 (112)
T ss_pred HHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCc
Confidence 556789999999999999998999999998863
No 30
>PTZ00411 transaldolase-like protein; Provisional
Probab=38.49 E-value=45 Score=33.35 Aligned_cols=62 Identities=24% Similarity=0.424 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 210 LRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 210 I~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
.+++|..|+.+.++-++.| ++.. +-.=.||++ ...-..++.|.+.|.+.-. |.+|++.||+-
T Consensus 115 ~e~~i~~A~~l~~l~~~~g---------i~~~------rilIKIPaT-~eGi~Aa~~L~~eGI~~N~-TlvFS~~QA~a 176 (333)
T PTZ00411 115 KQAMVDKARKIIKMYEEAG---------ISKD------RILIKLAST-WEGIQAAKALEKEGIHCNL-TLLFSFAQAVA 176 (333)
T ss_pred HHHHHHHHHHHHHhhhhhc---------CCCC------cEEEEeCCC-HHHHHHHHHHHHCCCceeE-eEecCHHHHHH
Confidence 5788999999998855433 2221 223367875 6677888899999999777 78999999853
No 31
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=35.52 E-value=45 Score=26.83 Aligned_cols=32 Identities=34% Similarity=0.533 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcCCcccchhhHHHHHHHhcc
Q 020903 258 PKAELISKDLMQKGFRCVGPTVVYSFMQVSGI 289 (320)
Q Consensus 258 ~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG~ 289 (320)
+....+++.|.+.||+..+.-..+.||+..|+
T Consensus 13 ~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi 44 (110)
T cd01424 13 PEAVEIAKRLAELGFKLVATEGTAKYLQEAGI 44 (110)
T ss_pred hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCC
Confidence 45678889999999999999999999999886
No 32
>PHA02517 putative transposase OrfB; Reviewed
Probab=35.18 E-value=42 Score=30.99 Aligned_cols=31 Identities=23% Similarity=0.367 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCCcccchhhHHHHHHHhcccc
Q 020903 260 AELISKDLMQKGFRCVGPTVVYSFMQVSGIVN 291 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGPttvYsFMQAvG~vN 291 (320)
...|...|+++|+. ++..+||-+|+..||.-
T Consensus 48 ~r~I~~~L~~~g~~-vs~~tV~Rim~~~gl~~ 78 (277)
T PHA02517 48 VRKVWRQLNREGIR-VARCTVGRLMKELGLAG 78 (277)
T ss_pred HHHHHHHHHhcCcc-cCHHHHHHHHHHcCCce
Confidence 47888999999985 59999999999999964
No 33
>PF13068 DUF3932: Protein of unknown function (DUF3932)
Probab=33.97 E-value=9.5 Score=30.50 Aligned_cols=32 Identities=22% Similarity=0.566 Sum_probs=24.7
Q ss_pred HHHHHHhhC-CHhhhhhhccCCccccCCCCccC
Q 020903 220 MLKVQQEFG-SFSKYCWNFVNHAPVRNGFRYAR 251 (320)
Q Consensus 220 ilkv~~E~G-SF~~ylWsFv~~kpi~~~~~~~~ 251 (320)
+..+|.+|. ||+.|+-+||...|...+|....
T Consensus 4 vfrlqtdfsssfdrwvssfvsdhpaql~wttlk 36 (81)
T PF13068_consen 4 VFRLQTDFSSSFDRWVSSFVSDHPAQLEWTTLK 36 (81)
T ss_pred hhhhhcchhhHHHHHHHHHhcCCccccchhHHH
Confidence 456777776 69999999999888777775443
No 34
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=32.89 E-value=52 Score=26.98 Aligned_cols=54 Identities=19% Similarity=0.207 Sum_probs=35.1
Q ss_pred HHHHHHHHHhccCcHHHHHHhHH-HHHHHhcCCChHHHhcCCHHH-HHhhhcCCCcccc
Q 020903 150 FELLVFSQALAELSWPAILSRRD-IFRKLFDNFDISSVSQFTEKK-LLSLKVNGSLLLS 206 (320)
Q Consensus 150 FE~L~LEgfQAGLSW~tILkKRe-~fR~AF~~FDp~kVA~~~e~d-Ie~Ll~d~~IIRN 206 (320)
.+.|.--..+.|..|..++++|. .|++.= .+ +++..+++++ ++.|+++|.+|+-
T Consensus 38 ~~el~~~~~~~~~~~~~l~~~~~~~~~~l~--~~-~~~~~~s~~e~~~~l~~~p~LikR 93 (111)
T cd03036 38 KEELKKWLEKSGLPLKKFFNTSGKSYRELG--LK-DKLPSLSEEEALELLSSDGMLIKR 93 (111)
T ss_pred HHHHHHHHHHcCCCHHHHHhcCCchHHhCC--cc-cccccCCHHHHHHHHHhCcCeeeC
Confidence 33344445667888999999996 555542 22 3456777555 5666778888873
No 35
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=31.76 E-value=50 Score=28.90 Aligned_cols=31 Identities=23% Similarity=0.210 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcCCcccchhhHHHHHHHhcccc
Q 020903 260 AELISKDLMQKGFRCVGPTVVYSFMQVSGIVN 291 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGPttvYsFMQAvG~vN 291 (320)
.+.|...|+++||. |.-.|+|-.|...|++-
T Consensus 19 qeeL~~~L~~~G~~-vsqaTIsRdL~elglvk 49 (146)
T TIGR01529 19 QEELVALLKAEGIE-VTQATVSRDLRELGAVK 49 (146)
T ss_pred HHHHHHHHHHhCCC-cCHHHHHHHHHHcCCEE
Confidence 46888899999999 88899999999999973
No 36
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=31.55 E-value=31 Score=24.32 Aligned_cols=30 Identities=10% Similarity=0.226 Sum_probs=24.7
Q ss_pred HHHHhcCCChHHHhcCCHHHHHhhhcCCCc
Q 020903 174 FRKLFDNFDISSVSQFTEKKLLSLKVNGSL 203 (320)
Q Consensus 174 fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~I 203 (320)
|+++|.-||.+.=-.++.+++..++...++
T Consensus 1 ~~~~F~~~D~~~~G~i~~~el~~~l~~~g~ 30 (67)
T cd00052 1 YDQIFRSLDPDGDGLISGDEARPFLGKSGL 30 (67)
T ss_pred ChHHHHHhCCCCCCcCcHHHHHHHHHHcCC
Confidence 578999999988778899999988876554
No 37
>PRK12655 fructose-6-phosphate aldolase; Reviewed
Probab=30.17 E-value=1.2e+02 Score=28.50 Aligned_cols=53 Identities=28% Similarity=0.391 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHH
Q 020903 210 LRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQV 286 (320)
Q Consensus 210 I~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQA 286 (320)
.+.+++.|+.+.++. .+ -.=.||++. .--...+.|++.|.+--+ |.||+..||
T Consensus 65 ~e~mi~eA~~l~~~~------~n----------------v~IKIP~T~-~Gl~Ai~~L~~~GI~vn~-T~vfs~~Qa 117 (220)
T PRK12655 65 AQGMVEEAKRLRNAI------PG----------------IVVKIPVTA-EGLAAIKKLKKEGIPTLG-TAVYSAAQG 117 (220)
T ss_pred HHHHHHHHHHHHHhC------CC----------------EEEEeCCCH-HHHHHHHHHHHCCCceeE-eEecCHHHH
Confidence 466777788876652 11 112578765 456677889999999887 889999999
No 38
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=29.79 E-value=57 Score=27.18 Aligned_cols=33 Identities=15% Similarity=0.104 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHhc--CCcccchhhHHHHHHH-hcc
Q 020903 257 TPKAELISKDLMQK--GFRCVGPTVVYSFMQV-SGI 289 (320)
Q Consensus 257 t~~S~~iSKdLKkr--GFkFVGPttvYsFMQA-vG~ 289 (320)
.+....+++.|.+. ||+.+.....+.||+. .|+
T Consensus 11 K~~~~~~a~~~~~ll~Gf~i~AT~gTa~~L~~~~Gi 46 (115)
T cd01422 11 KEDLVEFVKQHQELLSRHRLVATGTTGLLIQEATGL 46 (115)
T ss_pred hHHHHHHHHHHHHHhcCCEEEEechHHHHHHHhhCC
Confidence 46677899999999 9999999999999999 886
No 39
>PRK12346 transaldolase A; Provisional
Probab=29.34 E-value=82 Score=31.33 Aligned_cols=62 Identities=21% Similarity=0.359 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 210 LRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 210 I~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
.+++|..|+.+.++-++.| ++ ..+-.=.||+ |...-+-++.|++.|.+.-. |.+||+-|+.-
T Consensus 104 ~e~~i~~A~~l~~l~~~~g---------i~------~~~i~IKIPa-T~eGi~A~~~L~~~GI~~n~-TliFS~~Qa~~ 165 (316)
T PRK12346 104 REKSIEKARHLVDLYQQQG---------ID------KSRILIKLAS-TWEGIRAAEELEKEGINCNL-TLLFSFAQARA 165 (316)
T ss_pred HHHHHHHHHHHHHHhhhcC---------CC------CCcEEEEeCC-CHHHHHHHHHHHHCCCceeE-EEecCHHHHHH
Confidence 5789999999998855432 11 1122346786 45566777889999999877 78999999864
No 40
>PF05075 DUF684: Protein of unknown function (DUF684); InterPro: IPR007767 This family contains uncharacterised proteins from Caenorhabditis elegans.
Probab=28.43 E-value=92 Score=30.80 Aligned_cols=53 Identities=11% Similarity=0.141 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHHhccC-------cHHHHHHhHHHHHHHhcCCChHHH--hcCCHHHHHhhh
Q 020903 146 DRKLFELLVFSQALAEL-------SWPAILSRRDIFRKLFDNFDISSV--SQFTEKKLLSLK 198 (320)
Q Consensus 146 Dr~LFE~L~LEgfQAGL-------SW~tILkKRe~fR~AF~~FDp~kV--A~~~e~dIe~Ll 198 (320)
+..|-.+|.||+|.+|| .+..|+.+-..+.+..+.|.-+.. ..|=++.++.++
T Consensus 115 ~~vl~q~l~lEafa~Gl~~~~n~~~~~~L~e~~~~~~~~~~~w~~~Y~~~~~yWp~~v~~~v 176 (345)
T PF05075_consen 115 DGVLGQLLFLEAFASGLFKDKNMYDPDRLIEKIEEINEKMDKWKEEYKKDESYWPDNVKKFV 176 (345)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHH
Confidence 45588999999999999 678888888777777776655542 233344454444
No 41
>smart00454 SAM Sterile alpha motif. Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerisation.
Probab=28.28 E-value=1.6e+02 Score=20.51 Aligned_cols=43 Identities=21% Similarity=0.287 Sum_probs=31.3
Q ss_pred HHHHh--cCCChHHHhcCC-HHHHHhhhcCCCcccchhHHHHHHHHHH
Q 020903 174 FRKLF--DNFDISSVSQFT-EKKLLSLKVNGSLLLSEAKLRAIVENAK 218 (320)
Q Consensus 174 fR~AF--~~FDp~kVA~~~-e~dIe~Ll~d~~IIRNr~KI~AiI~NAr 218 (320)
|.+.| .+++-..+..++ +++++++--.. +-+|.||...|..-|
T Consensus 21 y~~~f~~~~i~g~~ll~~~~~~~l~~lgi~~--~~~r~~ll~~i~~l~ 66 (68)
T smart00454 21 YADNFRKNGIDGALLLLLTSEEDLKELGITK--LGHRKKILKAIQKLK 66 (68)
T ss_pred HHHHHHHCCCCHHHHHhcChHHHHHHcCCCc--HHHHHHHHHHHHHHH
Confidence 66666 577878888998 88888876522 358888887776643
No 42
>cd00957 Transaldolase_TalAB Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The catalytic mechanism is similar to other class I aldolases. The enzyme is found in the non-oxidative branch of the pentose phosphate pathway and forms a dimer in solution.
Probab=27.90 E-value=91 Score=30.88 Aligned_cols=62 Identities=23% Similarity=0.427 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 210 LRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 210 I~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
-+++|..|+.+.++-++.| ++.. +-.=.||++. ..-.-++.|++.|.+.-. |.+||+-||.-
T Consensus 103 ~~~~i~~A~~l~~~~~~~g---------i~~~------~i~IKIPaT~-eGi~A~~~L~~~GI~vn~-TlvFS~~Qa~~ 164 (313)
T cd00957 103 TNATIAKARKLIKLYEEAG---------IDKE------RILIKIAATW-EGIQAAKQLEKEGIHCNL-TLLFSFAQAVA 164 (313)
T ss_pred HHHHHHHHHHHHHHhHhcC---------CCCC------cEEEEeCCCH-HHHHHHHHHHHCCCceee-eeecCHHHHHH
Confidence 4788999999988855543 1211 2234678755 466667899999999776 88999999864
No 43
>PHA02543 regA translation repressor protein; Provisional
Probab=27.63 E-value=23 Score=31.01 Aligned_cols=58 Identities=19% Similarity=0.245 Sum_probs=44.0
Q ss_pred HHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhH
Q 020903 151 ELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAK 209 (320)
Q Consensus 151 E~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~K 209 (320)
|+|.|.|-|++|++..|++ |...-+...+++.-.|..=+.-+--..+++-++|+++.|
T Consensus 55 eLl~lDG~~~~~~~eDi~R-rn~Ia~LL~~Wgl~~iv~~~~~~~~~~~n~frVishkqK 112 (125)
T PHA02543 55 ELLALDGRQVDLTEEDIQR-RNNIAKLLEDWGLIEIVDPDQMEEVSPTNNFRVISHKQK 112 (125)
T ss_pred HHHhhcCcccCCCHHHHHH-HHHHHHHHHhCCceEEeccchhcccCCcCceEEEEeccc
Confidence 7899999999999999986 566677788887766654433233356778888988876
No 44
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=27.40 E-value=23 Score=27.93 Aligned_cols=34 Identities=9% Similarity=0.246 Sum_probs=28.2
Q ss_pred HhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCC
Q 020903 169 SRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGS 202 (320)
Q Consensus 169 kKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~ 202 (320)
.-...|+++|.-||...=-.++-+++.++|..-+
T Consensus 7 ~~~~~l~~~F~~~D~d~~G~Is~~el~~~l~~~~ 40 (96)
T smart00027 7 EDKAKYEQIFRSLDKNQDGTVTGAQAKPILLKSG 40 (96)
T ss_pred HHHHHHHHHHHHhCCCCCCeEeHHHHHHHHHHcC
Confidence 4567899999999988777889999999987655
No 45
>PRK05269 transaldolase B; Provisional
Probab=26.42 E-value=98 Score=30.67 Aligned_cols=62 Identities=19% Similarity=0.375 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 210 LRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 210 I~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
.+++|..|+.+.++-++.| ++.. +-.=.||++ +....-++.|.+.|.+.-. |.+|++.||.-
T Consensus 105 ~~~~i~~A~~l~~~~~~~g---------i~~~------~v~IKIPaT-~eGi~A~~~L~~~GI~vn~-TlvFs~~Qa~~ 166 (318)
T PRK05269 105 TEATIAKARKLIALYEEAG---------ISKD------RILIKIAST-WEGIRAAEQLEKEGINCNL-TLLFSFAQARA 166 (318)
T ss_pred HHHHHHHHHHHHHHhhhcC---------CCCC------cEEEEeCCC-HHHHHHHHHHHHcCCceeE-eEecCHHHHHH
Confidence 5788999999988855422 1211 123467976 5566777899999999777 88999999864
No 46
>PRK13344 spxA transcriptional regulator Spx; Reviewed
Probab=26.27 E-value=76 Score=27.16 Aligned_cols=45 Identities=22% Similarity=0.328 Sum_probs=31.8
Q ss_pred HhccCcHHHHHHhHHHHHHHhcCCChHHHhcCC-HHHHHhhhcCCCcccc
Q 020903 158 ALAELSWPAILSRRDIFRKLFDNFDISSVSQFT-EKKLLSLKVNGSLLLS 206 (320)
Q Consensus 158 fQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~-e~dIe~Ll~d~~IIRN 206 (320)
.+.|+.|..++++|..+.+.-. .+. ..++ ++-++.|+++|.+|+-
T Consensus 47 ~~~~~~~~~lin~~~~~~k~L~-~~~---~~ls~~e~i~ll~~~P~LikR 92 (132)
T PRK13344 47 TKTENGIESIVSSKNRYAKALD-CDI---EELSVNEVIDLIQENPRILKS 92 (132)
T ss_pred HHhCCCHHHhhccCcHHHHhCC-cch---hcCCHHHHHHHHHhCccceeC
Confidence 3468899999999987776532 332 4566 4456777789998873
No 47
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=26.19 E-value=73 Score=25.94 Aligned_cols=32 Identities=19% Similarity=0.336 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcCCcccchhhHHHHHHHhcc
Q 020903 258 PKAELISKDLMQKGFRCVGPTVVYSFMQVSGI 289 (320)
Q Consensus 258 ~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG~ 289 (320)
+....+++.|.+.||+..+.-..+.||...|+
T Consensus 13 ~~~~~~a~~l~~~G~~i~aT~gTa~~L~~~gi 44 (116)
T cd01423 13 PELLPTAQKLSKLGYKLYATEGTADFLLENGI 44 (116)
T ss_pred hhHHHHHHHHHHCCCEEEEccHHHHHHHHcCC
Confidence 45678899999999999999999999999897
No 48
>cd00439 Transaldolase Transaldolase. Enzymes found in the non-oxidative branch of the pentose phosphate pathway, that catalyze the reversible transfer of a dihydroxyacetone group from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. They are members of the class I aldolases, who are characterized by using a Schiff-base mechanism for stabilization of the reaction intermediates.
Probab=26.05 E-value=65 Score=30.65 Aligned_cols=63 Identities=24% Similarity=0.298 Sum_probs=43.3
Q ss_pred CCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhh
Q 020903 200 NGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTV 279 (320)
Q Consensus 200 d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPtt 279 (320)
++++..+ .+++|..|+.+.++..+ .+ ..=.||++. ..-+..+.|++.|.+--. |.
T Consensus 92 ~~~~~~d---~~~mi~~A~~l~~~~~~----~n----------------v~IKIPaT~-~Gl~A~~~L~~~GI~vn~-T~ 146 (252)
T cd00439 92 SARLADD---TQGMVEAAKYLSKVVNR----RN----------------IYIKIPATA-EGIPAIKDLIAAGISVNV-TL 146 (252)
T ss_pred eccccCC---HHHHHHHHHHHHHhcCc----cc----------------EEEEeCCCH-HHHHHHHHHHHCCCceee-ee
Confidence 4444444 46788889888776221 01 123578754 566777889999999877 88
Q ss_pred HHHHHHHh
Q 020903 280 VYSFMQVS 287 (320)
Q Consensus 280 vYsFMQAv 287 (320)
||++.|+.
T Consensus 147 vfs~~Qa~ 154 (252)
T cd00439 147 IFSIAQYE 154 (252)
T ss_pred ecCHHHHH
Confidence 99999985
No 49
>PRK12309 transaldolase/EF-hand domain-containing protein; Provisional
Probab=25.99 E-value=99 Score=31.52 Aligned_cols=105 Identities=15% Similarity=0.289 Sum_probs=61.0
Q ss_pred ccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccC
Q 020903 160 AELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVN 239 (320)
Q Consensus 160 AGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~ 239 (320)
.|++|..++ +.+..+.+-.|.-+-....+ .. -.+--||++-.+ .+++|..|+.+.++-++.| ++
T Consensus 66 ~~~~~~~~~--~~a~d~l~v~~g~~i~~~i~-G~-Vs~EVdprl~~d---~~~~i~~A~~l~~~~~~~g---------i~ 129 (391)
T PRK12309 66 SDAPVEDVV--ALAFDRLAVAFGLKILKIVP-GR-VSTEVDARLSYD---TEATIAKARKLISLYEDAG---------IS 129 (391)
T ss_pred cCCCHHHHH--HHHHHHHHHHHHHHHHhcCC-CC-EEEEEecccccC---HHHHHHHHHHHHHHhhhhc---------CC
Confidence 466776653 23444444444322221111 11 111234444443 5788999999988754433 11
Q ss_pred CccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHhc
Q 020903 240 HAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSG 288 (320)
Q Consensus 240 ~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAvG 288 (320)
.. +-.=.||++ .....-++.|++.|.+.-. |.+|++.||+-
T Consensus 130 ~~------~v~IKIPaT-~eGi~A~~~L~~~GI~~n~-TlvFS~~QA~a 170 (391)
T PRK12309 130 RD------RVLIKIAST-WEGIKAAEVLEKEGIHCNL-TLLFGFHQAIA 170 (391)
T ss_pred CC------cEEEEeCCC-HHHHHHHHHHHHCCCceee-eeecCHHHHHH
Confidence 11 123367976 5567777889999999877 88999999864
No 50
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=25.79 E-value=2.4e+02 Score=20.93 Aligned_cols=72 Identities=14% Similarity=0.063 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhccCcHHHHHHhHHHHHHHhcCCChHHHhcCCHHHHHhhhcCCCcccchhH-HHHHHHHHHHHHHH
Q 020903 149 LFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVSQFTEKKLLSLKVNGSLLLSEAK-LRAIVENAKQMLKV 223 (320)
Q Consensus 149 LFE~L~LEgfQAGLSW~tILkKRe~fR~AF~~FDp~kVA~~~e~dIe~Ll~d~~IIRNr~K-I~AiI~NArailkv 223 (320)
|++.+....-..|+|=.||-.-+-.++.-..-|+-..+..++.++|+..+..-.. .++ =.++|+++...++.
T Consensus 1 Ll~~f~~~l~~~~~s~~Ti~~Y~~~l~~f~~~~~~~~~~~it~~~i~~y~~~l~~---~~~~s~~T~~~~~~~l~~ 73 (85)
T PF13495_consen 1 LLEEFLEYLRLKGLSEKTIKNYRYHLKRFLRFLGNKPPDEITPEDIEQYLNYLQN---ERGLSPSTINQYLSALRS 73 (85)
T ss_dssp -HHHHHHHHHHTT--HHHHHHHHHHHHHHHTTSSS--GGG--HHHHHHHHHHHHT---TT---HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcccCccchhHHHHHHHHHHHHHH---hcCCCHHHHHHHHHHHHH
Confidence 4455555666699999999999999998777777688999999999888764221 222 23566666665554
No 51
>PF14493 HTH_40: Helix-turn-helix domain
Probab=25.74 E-value=1.9e+02 Score=22.73 Aligned_cols=44 Identities=16% Similarity=0.209 Sum_probs=29.5
Q ss_pred HHHHHHHhccCcHHHHHHhH-----------HHHHHHhcCCChHHHhcCCHHHHHhh
Q 020903 152 LLVFSQALAELSWPAILSRR-----------DIFRKLFDNFDISSVSQFTEKKLLSL 197 (320)
Q Consensus 152 ~L~LEgfQAGLSW~tILkKR-----------e~fR~AF~~FDp~kVA~~~e~dIe~L 197 (320)
..+++.||.|+|=..|-++| ..+-.....||+..+ +++++++.+
T Consensus 4 ~~T~~l~~~G~si~eIA~~R~L~~sTI~~HL~~~~~~g~~~~~~~~--l~~e~~~~I 58 (91)
T PF14493_consen 4 QITYELFQKGLSIEEIAKIRGLKESTIYGHLAELIESGEPLDIEEL--LSEEEIKQI 58 (91)
T ss_pred HHHHHHHHcCCCHHHHHHHcCCCHHHHHHHHHHHHHhCCCCCHHHh--CCHHHHHHH
Confidence 36888999999988888877 344555555666665 555554433
No 52
>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins. The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.
Probab=25.49 E-value=60 Score=32.09 Aligned_cols=46 Identities=22% Similarity=0.188 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhcCCc--ccchhhHHHHHH-HhccccCcccccccchhhhh
Q 020903 259 KAELISKDLMQKGFR--CVGPTVVYSFMQ-VSGIVNDHLLTCFRYQQCNA 305 (320)
Q Consensus 259 ~S~~iSKdLKkrGFk--FVGPttvYsFMQ-AvG~vNDHl~~C~r~~~~~~ 305 (320)
.+-.|.+.|+++|++ |+| |..-..|| ..|++-|.++.+|..+....
T Consensus 129 Tal~L~~~l~~~G~~a~fva-TGQTGimia~~Gv~iDav~~DFvaGavE~ 177 (301)
T PF07755_consen 129 TALELRRALRERGINAGFVA-TGQTGIMIAGYGVPIDAVPSDFVAGAVEA 177 (301)
T ss_dssp HHHHHHHHHHHTT--EEEEE--SHHHHHCHSEC--GGGSBGGGHHHHHHH
T ss_pred HHHHHHHHHHHcCCCceEEe-cCCceEEEecCCeeccchhhhhHHHHHHH
Confidence 468899999999875 444 44444566 34588999999998877553
No 53
>COG4081 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.78 E-value=56 Score=29.33 Aligned_cols=25 Identities=28% Similarity=0.501 Sum_probs=21.9
Q ss_pred CCCCCCCHHHHHHHHHHHhcCCccc
Q 020903 251 RQVPVKTPKAELISKDLMQKGFRCV 275 (320)
Q Consensus 251 ~~vP~~t~~S~~iSKdLKkrGFkFV 275 (320)
-++|.+.+.+.-+|..||++||.-.
T Consensus 12 PeiP~qissaiYls~klkkkgf~v~ 36 (148)
T COG4081 12 PEIPPQISSAIYLSHKLKKKGFDVT 36 (148)
T ss_pred CCCCccchHHHHHHHHhhccCccEE
Confidence 3679999999999999999999853
No 54
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.46 E-value=53 Score=23.74 Aligned_cols=18 Identities=28% Similarity=0.508 Sum_probs=16.1
Q ss_pred HHHHHHHHHhcCCcccch
Q 020903 260 AELISKDLMQKGFRCVGP 277 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGP 277 (320)
.+.+.+.|++.||++.+|
T Consensus 54 ~~~~~~~L~~~G~~v~~~ 71 (72)
T cd04883 54 PRPIIEDLRRAGYEVLWP 71 (72)
T ss_pred HHHHHHHHHHCCCeeeCC
Confidence 458889999999999998
No 55
>PF12401 DUF3662: Protein of unknown function (DUF2662) ; InterPro: IPR022128 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00498 from PFAM. ; PDB: 2LC0_A.
Probab=24.39 E-value=38 Score=28.55 Aligned_cols=25 Identities=24% Similarity=0.496 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHhcCCcccchhhHH
Q 020903 257 TPKAELISKDLMQKGFRCVGPTVVY 281 (320)
Q Consensus 257 t~~S~~iSKdLKkrGFkFVGPttvY 281 (320)
..+++.+.+....+||.|+||++|.
T Consensus 76 ~el~~~l~~~a~~qgy~~~G~v~V~ 100 (116)
T PF12401_consen 76 RELADYLAEHAREQGYTFVGPVTVE 100 (116)
T ss_dssp HHHHHHHHHHHHHHT-B-SS--EEE
T ss_pred HHHHHHHHHHHHHCCCeecCCEEEE
Confidence 3677777888889999999999875
No 56
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=24.13 E-value=94 Score=24.91 Aligned_cols=31 Identities=32% Similarity=0.514 Sum_probs=25.5
Q ss_pred HHHHHHHHHhcCCcccchhhHHH---HHHHhcccc
Q 020903 260 AELISKDLMQKGFRCVGPTVVYS---FMQVSGIVN 291 (320)
Q Consensus 260 S~~iSKdLKkrGFkFVGPttvYs---FMQAvG~vN 291 (320)
++.|...|+++|. -++++|+|- +|...|+|.
T Consensus 19 a~ei~~~l~~~~~-~i~~~TVYR~L~~L~~~Gli~ 52 (116)
T cd07153 19 AEEIYERLRKKGP-SISLATVYRTLELLEEAGLVR 52 (116)
T ss_pred HHHHHHHHHhcCC-CCCHHHHHHHHHHHHhCCCEE
Confidence 5788899999875 699999998 677888763
No 57
>PF08439 Peptidase_M3_N: Oligopeptidase F; InterPro: IPR013647 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found towards the N terminus of metallopeptidases belonging to MEROPS peptidase subfamily M3B (oligopeptidase F, clan MA). An example protein is Lactococcus lactisPepF []. The function of this N-terminal domain is unknown.; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2QR4_B 3CE2_A.
Probab=23.60 E-value=73 Score=23.83 Aligned_cols=38 Identities=26% Similarity=0.163 Sum_probs=27.9
Q ss_pred HhcCCHHHHHhhh-cCCCcccchhHHHHHHHHHHHHHHH
Q 020903 186 VSQFTEKKLLSLK-VNGSLLLSEAKLRAIVENAKQMLKV 223 (320)
Q Consensus 186 VA~~~e~dIe~Ll-~d~~IIRNr~KI~AiI~NArailkv 223 (320)
+.+++++.|++++ +++.+-..+.-|+-++.+++-+|.=
T Consensus 2 l~~l~e~~l~~~~~~~~~l~~y~~~l~~i~r~k~H~Ls~ 40 (70)
T PF08439_consen 2 LLSLPEEKLESLIKEDPELKEYRFYLEEIRRYKKHTLSE 40 (70)
T ss_dssp HCTS-HHHHHHHHHH-CCCGGGHHHHHHHHGGGGG---H
T ss_pred hhhCCHHHHHHHHhcCccHHHHHHHHHHHHHhCCcCCCH
Confidence 5688999999999 5999999988888888877766543
No 58
>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins. It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes. The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (IPR000433 from INTERPRO), the Myb DNA-binding domain (IPR001005 from INTERPRO), the HORMA domain (IPR003511 from INTERPRO), the amino-oxidase domain, the chromo domain (IPR000953 from INTERPRO), and the JAB1/PAD1 domain.; GO: 0005515 protein binding; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2L3D_A ....
Probab=23.58 E-value=49 Score=25.87 Aligned_cols=14 Identities=29% Similarity=0.755 Sum_probs=12.3
Q ss_pred hhHHHHHHHhcccc
Q 020903 278 TVVYSFMQVSGIVN 291 (320)
Q Consensus 278 ttvYsFMQAvG~vN 291 (320)
.-||.||...|+||
T Consensus 72 ~ri~~FL~~~G~IN 85 (86)
T PF04433_consen 72 RRIYDFLERWGLIN 85 (86)
T ss_dssp HHHHHHHHHTTSSS
T ss_pred HHHHHHHHHcCccC
Confidence 35799999999998
No 59
>PHA03308 transcriptional regulator ICP4; Provisional
Probab=23.30 E-value=42 Score=37.58 Aligned_cols=22 Identities=45% Similarity=0.591 Sum_probs=15.2
Q ss_pred hcCccccccccCCCCccccccc
Q 020903 55 RNNASVDSSCSSESSTSSAASA 76 (320)
Q Consensus 55 ~~~~s~~~s~ss~~s~~~~~~~ 76 (320)
-..-|..+||||.+|+++++|+
T Consensus 1253 ssssssssscsssssss~ssss 1274 (1463)
T PHA03308 1253 SSSSSSSSSCSSSSSSSDSSSS 1274 (1463)
T ss_pred cccccccccccccCCCCCcccc
Confidence 3456677889888777666663
No 60
>PRK12653 fructose-6-phosphate aldolase; Reviewed
Probab=23.02 E-value=1.4e+02 Score=28.00 Aligned_cols=34 Identities=32% Similarity=0.363 Sum_probs=28.1
Q ss_pred CCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHh
Q 020903 252 QVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVS 287 (320)
Q Consensus 252 ~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAv 287 (320)
.||++.+ --...+.|++.|.+--+ |.||+..||.
T Consensus 85 KIP~T~~-Gl~A~~~L~~~GI~vn~-T~vfs~~Qa~ 118 (220)
T PRK12653 85 KVPVTAE-GLAAIKMLKAEGIPTLG-TAVYGAAQGL 118 (220)
T ss_pred EeCCCHH-HHHHHHHHHHcCCCeeE-EEecCHHHHH
Confidence 5787655 67777889999999776 8899999996
No 61
>cd01421 IMPCH Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-ribonucleotide. The IMPCH domain then converts the formyl-5-aminoimidazole-4-carboxamide-ribonucleotide to inosine monophosphate. This is the final step in de novo purine production.
Probab=22.94 E-value=75 Score=29.52 Aligned_cols=31 Identities=19% Similarity=0.314 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhcCCcccchhhHHHHHHHhcc
Q 020903 259 KAELISKDLMQKGFRCVGPTVVYSFMQVSGI 289 (320)
Q Consensus 259 ~S~~iSKdLKkrGFkFVGPttvYsFMQAvG~ 289 (320)
....+++.|.+.||+.+..-..+.||+..|+
T Consensus 12 ~l~~lAk~L~~lGf~I~AT~GTAk~L~e~GI 42 (187)
T cd01421 12 GLVEFAKELVELGVEILSTGGTAKFLKEAGI 42 (187)
T ss_pred cHHHHHHHHHHCCCEEEEccHHHHHHHHcCC
Confidence 4678999999999999998899999999997
No 62
>COG3200 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=22.28 E-value=1.9e+02 Score=30.06 Aligned_cols=64 Identities=23% Similarity=0.472 Sum_probs=43.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhhC--CHh------hhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchh
Q 020903 207 EAKLRAIVENAKQMLKVQQEFG--SFS------KYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPT 278 (320)
Q Consensus 207 r~KI~AiI~NArailkv~~E~G--SF~------~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPt 278 (320)
...+.-...||-+.|.|.+.|+ +++ +|--.||...|.--.| ..++++|+..|
T Consensus 151 P~R~l~aY~qsaAtlNLlRafa~gG~A~L~~vh~W~l~Fv~~sp~~~rY---------~~la~~I~~~l----------- 210 (445)
T COG3200 151 PERLLKAYAQSAATLNLLRAFASGGLADLENVHRWNLGFVKNSPQGARY---------EALADRISETL----------- 210 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHhhhcCCchHHHH---------HHHHHHHHHHH-----------
Confidence 3445556788888888888764 343 3666788776654333 35677776644
Q ss_pred hHHHHHHHhccccCc
Q 020903 279 VVYSFMQVSGIVNDH 293 (320)
Q Consensus 279 tvYsFMQAvG~vNDH 293 (320)
.||+|+|+.+++
T Consensus 211 ---~FM~A~Gv~~~~ 222 (445)
T COG3200 211 ---AFMRACGVTNDP 222 (445)
T ss_pred ---HHHHHhCCCCCc
Confidence 699999998655
No 63
>TIGR00874 talAB transaldolase. This family includes the majority of known and predicted transaldolase sequences, including E. coli TalA and TalB. It excluded two other families. The first includes E. coli transaldolase-like protein TalC. The second family includes the putative transaldolases of Helicobacter pylori and Mycobacterium tuberculosis.
Probab=22.10 E-value=1.4e+02 Score=29.75 Aligned_cols=69 Identities=23% Similarity=0.399 Sum_probs=47.8
Q ss_pred CCCcccchhHHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhh
Q 020903 200 NGSLLLSEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTV 279 (320)
Q Consensus 200 d~~IIRNr~KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPtt 279 (320)
||++-.+ .+++|..|+.+.++-++.| ++ ..+-.=.||++ .....-.+.|.+.|.+.-. |.
T Consensus 96 dprls~d---~~~~i~~A~~l~~l~~~~g---------i~------~~~v~IKIPaT-~eGi~A~~~L~~~GI~vN~-Tl 155 (317)
T TIGR00874 96 DARLSFD---TEATVEKARHLIKLYEDAG---------VD------KKRILIKIAST-WEGIRAAEELEKEGIHCNL-TL 155 (317)
T ss_pred ecccccC---HHHHHHHHHHHHHHhHhcC---------CC------CCcEEEEeCCC-HHHHHHHHHHHHCCCceee-ee
Confidence 4444443 4789999999988855433 12 11233468976 5566667889999999776 78
Q ss_pred HHHHHHHhc
Q 020903 280 VYSFMQVSG 288 (320)
Q Consensus 280 vYsFMQAvG 288 (320)
+||+-||.-
T Consensus 156 iFS~~Qa~a 164 (317)
T TIGR00874 156 LFSFVQAIA 164 (317)
T ss_pred ecCHHHHHH
Confidence 999999864
No 64
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=21.89 E-value=57 Score=26.44 Aligned_cols=45 Identities=13% Similarity=0.130 Sum_probs=30.1
Q ss_pred HhccCcHHHHHHhH-HHHHHHhcCCChHHHhcCCHHHH-HhhhcCCCcccc
Q 020903 158 ALAELSWPAILSRR-DIFRKLFDNFDISSVSQFTEKKL-LSLKVNGSLLLS 206 (320)
Q Consensus 158 fQAGLSW~tILkKR-e~fR~AF~~FDp~kVA~~~e~dI-e~Ll~d~~IIRN 206 (320)
.+.|..|..+++++ ..|++.. -.....++++++ +-|+++|.+|+.
T Consensus 43 ~~~~~~~~~lin~~~~~~k~l~----~~~~~~~s~~e~i~~l~~~p~LikR 89 (110)
T PF03960_consen 43 SKLGNGPDDLINTRSKTYKELG----KLKKDDLSDEELIELLLENPKLIKR 89 (110)
T ss_dssp HHHTSSGGGGB-TTSHHHHHTT----HHHCTTSBHHHHHHHHHHSGGGB-S
T ss_pred HHhcccHHHHhcCccchHhhhh----hhhhhhhhhHHHHHHHHhChhheeC
Confidence 45677899999988 4555554 455678888887 455568888764
No 65
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=21.55 E-value=57 Score=27.17 Aligned_cols=21 Identities=14% Similarity=0.311 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhcCCcccchhh
Q 020903 259 KAELISKDLMQKGFRCVGPTV 279 (320)
Q Consensus 259 ~S~~iSKdLKkrGFkFVGPtt 279 (320)
+...+++.+.+.|.+|+||..
T Consensus 87 e~~~fa~~~~~~gi~fiGp~~ 107 (110)
T PF00289_consen 87 ENAEFAEACEDAGIIFIGPSP 107 (110)
T ss_dssp THHHHHHHHHHTT-EESSS-H
T ss_pred HHHHHHHHHHHCCCEEECcCh
Confidence 356888888899999999974
No 66
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=21.51 E-value=90 Score=24.88 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=31.7
Q ss_pred HHhccCcHHHHHHhH-HHHHHHhcCCChHHHhcCCHHHH-HhhhcCCCcccc
Q 020903 157 QALAELSWPAILSRR-DIFRKLFDNFDISSVSQFTEKKL-LSLKVNGSLLLS 206 (320)
Q Consensus 157 gfQAGLSW~tILkKR-e~fR~AF~~FDp~kVA~~~e~dI-e~Ll~d~~IIRN 206 (320)
.-+.|..+..++++| ..|++.... ....++++++ +.|+++|.+|+.
T Consensus 45 ~~~~~~~~~~li~~~~~~~~~l~~~----~~~~ls~~e~~~~l~~~p~LikR 92 (105)
T cd02977 45 LAKLGLGVEDLFNTRGTPYRKLGLA----DKDELSDEEALELMAEHPKLIKR 92 (105)
T ss_pred HHhcCCCHHHHHhcCCchHHHcCCc----cccCCCHHHHHHHHHhCcCeeeC
Confidence 355678899999999 666665332 2356776655 666778888764
No 67
>PRK01172 ski2-like helicase; Provisional
Probab=21.48 E-value=1.4e+02 Score=31.76 Aligned_cols=37 Identities=14% Similarity=0.274 Sum_probs=32.4
Q ss_pred ChHHHhcCCHHHHHhhhcCCCcccchhHHHHHHHHHHHHHHH
Q 020903 182 DISSVSQFTEKKLLSLKVNGSLLLSEAKLRAIVENAKQMLKV 223 (320)
Q Consensus 182 Dp~kVA~~~e~dIe~Ll~d~~IIRNr~KI~AiI~NArailkv 223 (320)
++..|+.++++++++++. -...+.+.||+.|+.++.|
T Consensus 635 ~~~di~~~~~~~~~~i~~-----~~~~~~~~i~~~~~~~~~~ 671 (674)
T PRK01172 635 TVDDIARSSPERIKKIYG-----FSDTLANAIVNRAMKISSM 671 (674)
T ss_pred CHHHHHhCCHHHHHHHhc-----cCHHHHHHHHHHHHHHHHH
Confidence 688899999999999965 4668999999999999887
No 68
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=20.96 E-value=72 Score=25.40 Aligned_cols=46 Identities=11% Similarity=0.159 Sum_probs=34.1
Q ss_pred HHHHHHhcCCC-hHHHh-cCCHHHHHhhhcC-----CCcccchhHHHHHHHHH
Q 020903 172 DIFRKLFDNFD-ISSVS-QFTEKKLLSLKVN-----GSLLLSEAKLRAIVENA 217 (320)
Q Consensus 172 e~fR~AF~~FD-p~kVA-~~~e~dIe~Ll~d-----~~IIRNr~KI~AiI~NA 217 (320)
..+++||.-|| .+.=- .++.+++..+|.. -+-.-++..|..++..+
T Consensus 8 ~~l~~aF~~fD~~dgdG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~ 60 (88)
T cd05027 8 VALIDVFHQYSGREGDKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETL 60 (88)
T ss_pred HHHHHHHHHhcccCCCcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHh
Confidence 56789999997 67666 4899999999987 45444566677777643
No 69
>cd00956 Transaldolase_FSA Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-phosphate, fructose 1,6-phosphate, or dihydroxyacetone phosphate. The enzymes belong to the transaldolase family that serves in transfer reactions in the pentose phosphate cycle, and are more distantly related to fructose 1,6-bisphosphate aldolase.
Probab=20.82 E-value=49 Score=30.48 Aligned_cols=55 Identities=20% Similarity=0.355 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHhhCCHhhhhhhccCCccccCCCCccCCCCCCCHHHHHHHHHHHhcCCcccchhhHHHHHHHh
Q 020903 209 KLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVS 287 (320)
Q Consensus 209 KI~AiI~NArailkv~~E~GSF~~ylWsFv~~kpi~~~~~~~~~vP~~t~~S~~iSKdLKkrGFkFVGPttvYsFMQAv 287 (320)
-.+.+++-|+.+.++. | . ..=+||.+. ..-...+.|++.|.+ +|-|+||+..||.
T Consensus 62 ~~e~~i~~a~~l~~~~---~---~----------------~~iKIP~T~-~gl~ai~~L~~~gi~-v~~T~V~s~~Qa~ 116 (211)
T cd00956 62 DAEGMVAEARKLASLG---G---N----------------VVVKIPVTE-DGLKAIKKLSEEGIK-TNVTAIFSAAQAL 116 (211)
T ss_pred CHHHHHHHHHHHHHhC---C---C----------------EEEEEcCcH-hHHHHHHHHHHcCCc-eeeEEecCHHHHH
Confidence 3566777788876541 1 1 112578776 456677789999977 7889999999985
No 70
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=20.76 E-value=78 Score=23.45 Aligned_cols=19 Identities=16% Similarity=0.370 Sum_probs=14.3
Q ss_pred HHHHHHHhhCCHhhhhhhc
Q 020903 219 QMLKVQQEFGSFSKYCWNF 237 (320)
Q Consensus 219 ailkv~~E~GSF~~ylWsF 237 (320)
++-.|.++|||+.+|+=..
T Consensus 34 ~l~~i~~~yGs~e~Yl~~~ 52 (68)
T PF13348_consen 34 ALDAIDERYGSVENYLREE 52 (68)
T ss_dssp HHHHHHHHHSSHHHHHHHT
T ss_pred HHHHHHHHcCCHHHHHHHc
Confidence 3445678899999999543
No 71
>cd03034 ArsC_ArsC Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the detoxification of arsenic, using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX). ArsC contains a single catalytic cysteine, within a thioredoxin fold, that forms a covalent thiolate-As(V) intermediate, which is reduced by GRX through a mixed GSH-arsenate intermediate. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases.
Probab=20.22 E-value=1.1e+02 Score=25.13 Aligned_cols=44 Identities=11% Similarity=0.154 Sum_probs=30.7
Q ss_pred HhccCcHHHHHHhHH-HHHHHhcCCChHHHhcCCHHH-HHhhhcCCCcccc
Q 020903 158 ALAELSWPAILSRRD-IFRKLFDNFDISSVSQFTEKK-LLSLKVNGSLLLS 206 (320)
Q Consensus 158 fQAGLSW~tILkKRe-~fR~AF~~FDp~kVA~~~e~d-Ie~Ll~d~~IIRN 206 (320)
.+.|..+..++++|. .|++.-.+. ..+++++ ++.|.++|.+|+.
T Consensus 46 ~~~~~~~~~lin~~~~~y~~l~~~~-----~~ls~~e~i~ll~~~P~LikR 91 (112)
T cd03034 46 AKLGISPRDLLRTKEAPYKELGLAD-----PELSDEELIDAMAAHPILIER 91 (112)
T ss_pred HHcCCCHHHHHhcCCchHHHcCCCc-----cCCCHHHHHHHHHhCcCcccC
Confidence 345788889998885 566653332 4778776 6777788988874
Done!