Query 045136
Match_columns 304
No_of_seqs 144 out of 203
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 10:12:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045136.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045136hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04720 DUF506: Protein of un 100.0 5.1E-72 1.1E-76 508.5 21.2 218 17-259 1-218 (218)
2 TIGR01615 A_thal_3542 uncharac 100.0 7.7E-63 1.7E-67 418.7 14.4 131 131-261 1-131 (131)
3 PF00797 Acetyltransf_2: N-ace 92.8 0.38 8.1E-06 43.3 6.9 60 124-190 47-109 (240)
4 PRK15047 N-hydroxyarylamine O- 87.9 1.6 3.5E-05 41.7 6.8 59 124-189 67-127 (281)
5 PF08742 C8: C8 domain; Inter 86.5 0.72 1.6E-05 34.7 2.9 62 181-247 10-71 (74)
6 PF14475 Mso1_Sec1_bdg: Sec1-b 69.7 5.2 0.00011 28.6 2.8 20 224-243 21-40 (41)
7 smart00460 TGc Transglutaminas 62.1 42 0.00091 23.8 6.4 56 124-186 7-67 (68)
8 PF08774 VRR_NUC: VRR-NUC doma 54.8 14 0.00031 29.1 3.1 29 124-152 72-100 (100)
9 PHA02119 hypothetical protein 53.1 17 0.00037 29.3 3.2 33 128-170 53-85 (87)
10 PF01841 Transglut_core: Trans 51.1 29 0.00063 26.8 4.3 56 124-185 52-113 (113)
11 PF04546 Sigma70_ner: Sigma-70 49.4 26 0.00056 31.7 4.3 16 12-27 17-32 (211)
12 PRK14675 hypothetical protein; 46.8 82 0.0018 26.8 6.7 83 132-244 16-98 (125)
13 PF15645 Tox-PLDMTX: Dermonecr 44.7 79 0.0017 27.7 6.4 77 124-219 5-84 (135)
14 COG2162 NhoA Arylamine N-acety 44.5 58 0.0013 31.8 6.0 58 131-194 74-134 (275)
15 PHA01753 Holliday junction res 34.5 1.3E+02 0.0028 26.0 6.0 49 131-190 11-59 (121)
16 smart00832 C8 C8 domain. This 34.0 35 0.00077 26.4 2.3 63 180-247 9-73 (76)
17 PF01927 Mut7-C: Mut7-C RNAse 33.7 32 0.00069 29.5 2.2 18 132-149 10-27 (147)
18 PRK08462 biotin carboxylase; V 33.1 85 0.0018 31.0 5.4 109 130-244 15-136 (445)
19 TIGR00514 accC acetyl-CoA carb 33.1 68 0.0015 31.8 4.7 113 130-244 13-134 (449)
20 COG5005 Mu-like prophage prote 30.8 55 0.0012 29.0 3.2 61 197-259 9-70 (140)
21 TIGR01205 D_ala_D_alaTIGR D-al 30.7 2.1E+02 0.0046 26.4 7.3 98 131-246 20-126 (315)
22 PRK08463 acetyl-CoA carboxylas 30.3 71 0.0015 32.3 4.4 46 199-245 89-134 (478)
23 PF09551 Spore_II_R: Stage II 29.9 1.3E+02 0.0029 26.2 5.4 43 130-172 57-107 (130)
24 PRK08654 pyruvate carboxylase 29.4 1.1E+02 0.0023 31.6 5.5 46 199-245 90-135 (499)
25 PF07524 Bromo_TP: Bromodomain 29.3 46 0.001 25.3 2.3 21 126-146 4-24 (77)
26 COG3349 Uncharacterized conser 29.2 59 0.0013 34.0 3.6 72 134-225 15-86 (485)
27 PRK14569 D-alanyl-alanine synt 28.4 3.2E+02 0.0069 25.7 8.1 46 199-245 73-118 (296)
28 PRK07178 pyruvate carboxylase 28.4 1E+02 0.0023 31.0 5.2 108 131-245 14-134 (472)
29 PRK08591 acetyl-CoA carboxylas 28.4 1.2E+02 0.0025 30.0 5.4 44 199-243 90-133 (451)
30 PRK15068 tRNA mo(5)U34 methylt 27.7 16 0.00035 35.2 -0.6 53 197-250 39-96 (322)
31 cd00523 archeal_HJR Holliday j 27.0 2.1E+02 0.0045 24.4 6.0 49 131-190 9-57 (123)
32 PF09369 DUF1998: Domain of un 26.8 56 0.0012 25.1 2.3 25 92-130 60-84 (84)
33 PRK01372 ddl D-alanine--D-alan 25.6 4E+02 0.0087 24.5 8.2 47 200-247 74-120 (304)
34 TIGR01369 CPSaseII_lrg carbamo 24.5 2E+02 0.0042 32.5 6.8 108 132-248 30-150 (1050)
35 PRK12413 phosphomethylpyrimidi 24.3 1.6E+02 0.0035 26.5 5.2 46 178-223 97-145 (253)
36 PRK04280 arginine repressor; P 24.2 45 0.00098 29.2 1.5 83 131-214 21-120 (148)
37 smart00576 BTP Bromodomain tra 24.1 66 0.0014 24.8 2.3 22 125-146 3-24 (77)
38 PF08584 Ribonuc_P_40: Ribonuc 24.1 68 0.0015 30.5 2.9 30 178-208 67-96 (284)
39 PRK05586 biotin carboxylase; V 24.0 1.3E+02 0.0028 29.9 4.9 44 199-243 90-133 (447)
40 PF13837 Myb_DNA-bind_4: Myb/S 23.1 19 0.00041 27.3 -0.9 24 130-153 36-61 (90)
41 PF01870 Hjc: Archaeal hollida 21.5 1.5E+02 0.0033 24.0 3.9 16 131-146 3-18 (88)
No 1
>PF04720 DUF506: Protein of unknown function (DUF506) ; InterPro: IPR006502 This family of uncharacterised plant proteins are defined by a region found toward the C terminus. This region is strongly conserved (greater than 30 % sequence identity between most pairs of members) but flanked by highly divergent regions including stretches of low-complexity sequence.
Probab=100.00 E-value=5.1e-72 Score=508.50 Aligned_cols=218 Identities=41% Similarity=0.731 Sum_probs=185.1
Q ss_pred HHHHhhccccCCCCCCCCCCccCCCCCCCCCCCCCCCcchhhhccccHHHHHhhHHHHHHHHHHHhhccChHHHHHHHHH
Q 045136 17 LSDMFFGLPEDGELIPAGFTSVTSPENEALDDDDHEGEDEEKEHQESAEEKRNFWESQHQCLQSTLCRTSSLESKIRNAT 96 (304)
Q Consensus 17 l~~mv~~F~ee~~~~~~~~~~~~~~~~~~~~~~~dd~~d~~~~s~~~~~e~~~fw~~q~~~Lq~~l~~~s~~E~kl~~~v 96 (304)
|++||++|||+++.+.... |+++ .+++++ ++++++.++.+++..||++|.+||+.+..+++. +.+|+++|
T Consensus 1 Ls~mV~~FlE~~~~~~~~~----~~~~--~~~~~~---~~~~d~~~~~~~~~~~~e~l~~Ll~~~~~~e~~-~~~l~~~v 70 (218)
T PF04720_consen 1 LSDMVQGFLEEEESSAPSF----SFSG--NGDDSS---DEDSDSDSGSSESAEFWEELQELLQCISERESS-RRRLLADV 70 (218)
T ss_pred CHHHHHHHhccCCcccccc----cccc--cCCCCc---cccccccCcccchHHHHHHHHHHHhccccccch-HHHHHHHH
Confidence 7899999999997765432 1111 111111 222333455667899999999999999998877 56677777
Q ss_pred HHHHHHHHHHhhhCCcccccCCCCCCCcchhhhHHHHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCC
Q 045136 97 KEILKEIQLQVAAGNNVCGCGRRPVASGACRSCLMREVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKK 176 (304)
Q Consensus 97 ~~al~~~~~~~~~~~~~C~c~r~~~a~~~c~~cl~r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~ 176 (304)
.++++..+. . . . .+|++|+||.||++||.+||||+||||+|++++++|+|+||||||++.+.+.+
T Consensus 71 ~~~v~~~~~----~------~--~---~~~~~~~rr~v~~~Lr~~GydAaiCkS~W~~s~~~p~g~yeyIdV~~~~~~~~ 135 (218)
T PF04720_consen 71 RRAVEEAKD----E------I--K---RGCRSCLRRSVMSRLRALGYDAAICKSRWESSGGIPAGEYEYIDVIVSGSSSG 135 (218)
T ss_pred HHHHHHHHh----h------h--c---ccchHHHHHHHHHHHHhCCCCEEEEEecCCCCCCCCCcceeEEEEEECCCCCC
Confidence 777765554 0 0 1 26899999999999999999999999999999999999999999999877666
Q ss_pred CceEEEEecCccccceecCCCHHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCchHHHhhhcCC
Q 045136 177 GEVRVIVELNFRAEFEMARASEEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQRYMQAKWLGA 256 (304)
Q Consensus 177 ~~~r~IVD~dFR~qFeIArpT~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~yM~aKWl~~ 256 (304)
+.+||||||+||+||||||||++|+++|+.||.||||+.++|++||++||+|||+|||++|||||||||++|||+|||++
T Consensus 136 ~~~r~IVd~~fr~~FeiArpt~~Y~~ll~~lP~vfVG~~~~L~~iV~~~c~a~k~s~k~~g~~lPPWR~~~ym~aKW~~~ 215 (218)
T PF04720_consen 136 KSERYIVDPDFRSQFEIARPTPEYAALLAALPEVFVGTPERLKQIVRLMCDAAKRSFKERGMHLPPWRKNSYMQAKWLSP 215 (218)
T ss_pred cceeEEEecchHhCeeecCCCHHHHHHHHhCCCceEcCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCchHHHHHhccCC
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccc
Q 045136 257 CER 259 (304)
Q Consensus 257 ~~R 259 (304)
|+|
T Consensus 216 y~R 218 (218)
T PF04720_consen 216 YKR 218 (218)
T ss_pred CCC
Confidence 998
No 2
>TIGR01615 A_thal_3542 uncharacterized plant-specific domain TIGR01615. of a number of uncharacterized plant proteins. The domain is strongly conserved (greater than 30 % sequence identity between most pairs of members) but flanked by highly divergent regions including stretches of low-complexity sequence.
Probab=100.00 E-value=7.7e-63 Score=418.67 Aligned_cols=131 Identities=54% Similarity=1.000 Sum_probs=126.3
Q ss_pred HHHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCccccceecCCCHHHHHHHHhCCCc
Q 045136 131 MREVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMARASEEYNRLVRRLPEL 210 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT~~Y~~ll~~LP~v 210 (304)
||.||++||.+||||+||||+|++++++|+|+||||||++.+.+.++++|||||+|||+||||||||++|+++|++||.|
T Consensus 1 ~r~v~~~Lr~~Gy~AaiCkS~W~~s~~~p~G~yeyidV~~~~~~~~~~~R~iVd~dFr~~FeiARpt~~Y~~ll~~LP~v 80 (131)
T TIGR01615 1 RRIVMSLLRSLGYDAAICKSKWDSSGDIPAGKYEYIDVVDGDGSKKQEMRVIIDLDFRSEFEIARPTEEYKRLLESLPEV 80 (131)
T ss_pred ChhHHHHHHHCCCCeeeEEeecCCCCCCCCCceeeEEEEecCCCCCCcceEEEeccchhhceecCCCHHHHHHHHhCCcc
Confidence 47899999999999999999999999999999999999998765556789999999999999999999999999999999
Q ss_pred eeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCchHHHhhhcCCcccCC
Q 045136 211 FVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQRYMQAKWLGACERTT 261 (304)
Q Consensus 211 FVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~yM~aKWl~~~~R~~ 261 (304)
|||+.++|++||++||+|||+|||++|||||||||++|||+|||+||+|++
T Consensus 81 FVG~~~rL~~iV~~mc~Aak~Slk~~gmhlPPWRk~~ym~aKWl~~~~R~~ 131 (131)
T TIGR01615 81 FVGTTERLRQLVRLMCDAAKKSLKKKGMPLPPWRKNRYMQSKWLGPYKRTS 131 (131)
T ss_pred eECCHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCchHHHHHhccCCccCCC
Confidence 999999999999999999999999999999999999999999999999985
No 3
>PF00797 Acetyltransf_2: N-acetyltransferase; InterPro: IPR001447 Arylamine N-acetyltransferase (NAT) is a cytosolic enzyme of approximately 30 kDa. It facilitates the transfer of an acetyl group from acetyl coenzyme A on to a wide range of arylamine, N-hydroxyarylamines and hydrazines. Acetylation of these compounds generally results in inactivation. NAT is found in many species from Mycobacteria (Mycobacterium tuberculosis, Mycobacterium smegmatis etc) to Homo sapiens (Human). It was the first enzyme to be observed to have polymorphic activity amongst human individuals. NAT is responsible for the inactivation of Isoniazid (a drug used to treat tuberculosis) in humans. The NAT protein has also been shown to be involved in the breakdown of folic acid. NAT catalyses the reaction: Acetyl-coA + arylamine = coA + N-acetylarylamine NAT is the target of a common genetic polymorphism of clinical relevance in humans. The N-acetylation polymorphism is determined by low or high NAT activity in liver. NAT has been implicated in the action and toxicity of amine-containing drugs, and in the susceptibility to cancer and systematic lupus erythematosus. Two highly similar human genes for NAT, termed NAT1 and NAT2, encode genetically invariant and variant NAT proteins, respectively. ; GO: 0016407 acetyltransferase activity, 0008152 metabolic process; PDB: 1W6F_A 1W5R_A 1GX3_D 2PQT_A 2IJA_A 1W4T_A 2BSZ_B 3D9W_B 3LTW_A 3LNB_A ....
Probab=92.76 E-value=0.38 Score=43.27 Aligned_cols=60 Identities=22% Similarity=0.334 Sum_probs=43.8
Q ss_pred cchhhhHHHHHHHHHHhcCCceeeeecc--CCCCCC-CCCcceeEEEEEeCCCCCCCceEEEEecCcccc
Q 045136 124 GACRSCLMREVSGRLGNAGYNSAICKSK--WRSSPD-IPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAE 190 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GYdAaiCkSk--W~~s~~-~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~q 190 (304)
|-|- =+-..+...|+++||++.++.++ +..... .+.+.|--|.|.+. +.+|+||+.|=..
T Consensus 47 G~C~-elN~lf~~lL~~lGf~v~~~~arv~~~~~~~~~~~~~H~~liV~~~------~~~ylvDvGfG~~ 109 (240)
T PF00797_consen 47 GYCF-ELNGLFYWLLRELGFDVTLVSARVYSPGGPDYWPPRTHLVLIVTLD------GERYLVDVGFGGP 109 (240)
T ss_dssp B-HH-HHHHHHHHHHHHCT-EEEEEEEEEETTTTTCCSSSEEEEEEEEEET------TEEEEE-SSSTTC
T ss_pred eEhH-HHHHHHHHHHHHCCCeEEEEEEEEEeCCCCCCCCCCceEEEEEEEC------CEEEEEeccCCCc
Confidence 4552 34567889999999999998876 333333 57889999999883 4699999999876
No 4
>PRK15047 N-hydroxyarylamine O-acetyltransferase; Provisional
Probab=87.88 E-value=1.6 Score=41.74 Aligned_cols=59 Identities=19% Similarity=0.291 Sum_probs=44.4
Q ss_pred cchhhhHHHHHHHHHHhcCCceeeeecc--CCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCccc
Q 045136 124 GACRSCLMREVSGRLGNAGYNSAICKSK--WRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRA 189 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GYdAaiCkSk--W~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~ 189 (304)
|.|- =+...+...|+++||++.....+ |...+..++..|-.+.|.+. +.+|+||+.|-+
T Consensus 67 GyCf-E~N~Lf~~~L~~LGF~v~~~~arV~~~~~~~~~~~tH~~l~V~i~------~~~yLvDVGFG~ 127 (281)
T PRK15047 67 GYCF-EQNGLFERVLRELGFNVRSLLGRVVLSNPPALPPRTHRLLLVELE------GEKWIADVGFGG 127 (281)
T ss_pred EEcH-hHHHHHHHHHHHcCCcEEEEEEEEEecCCCCCCCcCcEEEEEEEC------CeeEEEEecCCC
Confidence 4552 23467888999999999876555 44444557779999999983 469999999986
No 5
>PF08742 C8: C8 domain; InterPro: IPR014853 The proteins in this entry contained a domain rich in positionally conserved cysteine residues. Most proteins contains 7 or 8 cysteine residues. The domain is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin. It is often found on proteins containing IPR001846 from INTERPRO and IPR002919 from INTERPRO.
Probab=86.47 E-value=0.72 Score=34.72 Aligned_cols=62 Identities=16% Similarity=0.371 Sum_probs=44.8
Q ss_pred EEEecCccccceecCCCHHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCch
Q 045136 181 VIVELNFRAEFEMARASEEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQR 247 (304)
Q Consensus 181 ~IVD~dFR~qFeIArpT~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~ 247 (304)
+|.|+.|+.=+.+.-|++-|...+..+=. +-|.. ..+-..|.+-++.+ +..|..+++||+..
T Consensus 10 ~l~~~~F~~C~~~v~~~~f~~~C~~d~C~-~~~~~---~~~C~~l~~Ya~~C-~~~g~~~~~WR~~~ 71 (74)
T PF08742_consen 10 ILLDPEFAPCHSVVDPDPFYEACVYDMCA-CPGSQ---QCLCEALSAYAREC-QRAGICVGDWRTPT 71 (74)
T ss_pred HHcCchhhhhcccCccHHHHHHHHHHHcC-CCCCc---chhhHHHHHHHHHH-HHCcCCCCCCCCcC
Confidence 46688899999999999999999966543 22222 34444555555555 77899999999864
No 6
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=69.73 E-value=5.2 Score=28.65 Aligned_cols=20 Identities=20% Similarity=0.298 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhcCCCCCCC
Q 045136 224 ILCSAAKKCMKEKKMHMGPW 243 (304)
Q Consensus 224 ~mc~Aak~S~k~~Gm~lPPW 243 (304)
++|.++.+-.+++|.++|+|
T Consensus 21 ~v~r~l~~yY~~k~~~~P~W 40 (41)
T PF14475_consen 21 HVHRVLRKYYTEKGRPFPGW 40 (41)
T ss_pred HHHHHHHHHHHHcCCCCCCc
Confidence 67899999999999999999
No 7
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=62.09 E-value=42 Score=23.81 Aligned_cols=56 Identities=14% Similarity=0.088 Sum_probs=39.1
Q ss_pred cchhhhHHHHHHHHHHhcCCceeeeecc-CCCCCC----CCCcceeEEEEEeCCCCCCCceEEEEecC
Q 045136 124 GACRSCLMREVSGRLGNAGYNSAICKSK-WRSSPD----IPSGEHTFMDVRDNSSAKKGEVRVIVELN 186 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GYdAaiCkSk-W~~s~~----~p~G~heyIdV~~~~~~~~~~~r~IVD~d 186 (304)
+.|. -.-..++..||.+|+.|.++..- +..... -+...|.++.|-.+ +.-+.+||.
T Consensus 7 G~C~-~~a~l~~~llr~~GIpar~v~g~~~~~~~~~~~~~~~~~H~W~ev~~~------~~W~~~D~~ 67 (68)
T smart00460 7 GTCG-EFAALFVALLRSLGIPARVVSGYLKAPDTIGGLRSIWEAHAWAEVYLE------GGWVPVDPT 67 (68)
T ss_pred eeeH-HHHHHHHHHHHHCCCCeEEEeeeecCCCCCcccccCCCcEEEEEEEEC------CCeEEEeCC
Confidence 4554 23467788999999999998763 322222 24578999999873 358888985
No 8
>PF08774 VRR_NUC: VRR-NUC domain; InterPro: IPR014883 This entry contains proteins with the VRR-NUC domain. It is associated with members of the PD-(D/E)XK nuclease superfamily, which include the type III restriction modification enzymes, for example StyLTI: (P40815 from SWISSPROT).; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=54.81 E-value=14 Score=29.12 Aligned_cols=29 Identities=31% Similarity=0.402 Sum_probs=25.1
Q ss_pred cchhhhHHHHHHHHHHhcCCceeeeeccC
Q 045136 124 GACRSCLMREVSGRLGNAGYNSAICKSKW 152 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GYdAaiCkSkW 152 (304)
++.-+-.++...+.|++.|+++.||.+.|
T Consensus 72 ~~~ls~~Q~~~~~~l~~~G~~v~V~~~~~ 100 (100)
T PF08774_consen 72 GDRLSPNQKEWIDKLREAGFRVAVCRSVE 100 (100)
T ss_pred CCCcCHHHHHHHHHHHHCCCEEEEEEccC
Confidence 45567778888899999999999999987
No 9
>PHA02119 hypothetical protein
Probab=53.13 E-value=17 Score=29.27 Aligned_cols=33 Identities=15% Similarity=0.376 Sum_probs=23.5
Q ss_pred hhHHHHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEe
Q 045136 128 SCLMREVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRD 170 (304)
Q Consensus 128 ~cl~r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~ 170 (304)
.-.-|-+++.||.+||++ ++.++. +..||.|..
T Consensus 53 ~i~~~divdylr~lgy~~--------~~~s~r--nes~i~vta 85 (87)
T PHA02119 53 AIMPKDIVDYLRSLGYDA--------KSDSFR--NESVITVTA 85 (87)
T ss_pred ccccHHHHHHHHHccchh--------cccccc--CceEEEEec
Confidence 344678999999999998 333444 356888764
No 10
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=51.11 E-value=29 Score=26.81 Aligned_cols=56 Identities=13% Similarity=0.162 Sum_probs=36.9
Q ss_pred cchhhhHHHHHHHHHHhcCCceeeeeccCCCC------CCCCCcceeEEEEEeCCCCCCCceEEEEec
Q 045136 124 GACRSCLMREVSGRLGNAGYNSAICKSKWRSS------PDIPSGEHTFMDVRDNSSAKKGEVRVIVEL 185 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GYdAaiCkSkW~~s------~~~p~G~heyIdV~~~~~~~~~~~r~IVD~ 185 (304)
+.|. -+-..++..||.+|+.|.+........ .......|-...|-++ ++..+.+||
T Consensus 52 G~C~-~~a~l~~allr~~Gipar~v~g~~~~~~~~~~~~~~~~~~H~w~ev~~~-----~~~W~~~Dp 113 (113)
T PF01841_consen 52 GDCE-DYASLFVALLRALGIPARVVSGYVKGPDPDGDYSVDGNDNHAWVEVYLP-----GGGWIPLDP 113 (113)
T ss_dssp ESHH-HHHHHHHHHHHHHT--EEEEEEEEEECSSTTCTSTSSEEEEEEEEEEET-----TTEEEEEET
T ss_pred CccH-HHHHHHHHHHhhCCCceEEEEEEcCCccccccccCCCCCCEEEEEEEEc-----CCcEEEcCC
Confidence 4553 335678899999999998876544322 1344567999999983 245888887
No 11
>PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F.
Probab=49.39 E-value=26 Score=31.72 Aligned_cols=16 Identities=19% Similarity=0.171 Sum_probs=11.6
Q ss_pred CCCCCHHHHhhccccC
Q 045136 12 QPLGSLSDMFFGLPED 27 (304)
Q Consensus 12 ~~~~sl~~mv~~F~ee 27 (304)
.+++-|.|+|.||++.
T Consensus 17 ~ge~rl~diI~gf~d~ 32 (211)
T PF04546_consen 17 EGEIRLRDIIDGFIDP 32 (211)
T ss_dssp TTSS-GGGTEEEE-S-
T ss_pred cCCcchHHHHhhcccc
Confidence 5677899999999988
No 12
>PRK14675 hypothetical protein; Provisional
Probab=46.84 E-value=82 Score=26.84 Aligned_cols=83 Identities=18% Similarity=0.212 Sum_probs=53.3
Q ss_pred HHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCccccceecCCCHHHHHHHHhCCCce
Q 045136 132 REVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMARASEEYNRLVRRLPELF 211 (304)
Q Consensus 132 r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT~~Y~~ll~~LP~vF 211 (304)
...+..|+..||.- ..-.|.. + |=.||++... ++.-++||+-.|..-..+.|-..
T Consensus 16 ~~A~~~L~~~G~~i--l~rn~r~----~---~GEIDlIa~d----~~~lvFVEVK~R~~~~~g~~~~a------------ 70 (125)
T PRK14675 16 SIAVTYLKGLRYKI--VERNFRC----R---CGEIDIIARD----GKTLVFVEVKTRKNYAYGVPQLA------------ 70 (125)
T ss_pred HHHHHHHHHCCCEE--EEEEEeC----C---CCeEEEEEEe----CCEEEEEEEEeccCCCCcChHHc------------
Confidence 35778999999964 4556654 2 5579999853 35899999999976544443211
Q ss_pred eeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 045136 212 VGKVERLSNVIKILCSAAKKCMKEKKMHMGPWR 244 (304)
Q Consensus 212 VG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWR 244 (304)
|.... . +-|..+|+.-|.++++.-.|+|
T Consensus 71 V~~~K-~----~ri~~~A~~yL~~~~~~~~~~R 98 (125)
T PRK14675 71 VTPFK-Q----RQISKAALTWLAKKKLLDAEAR 98 (125)
T ss_pred CCHHH-H----HHHHHHHHHHHHHCCCCCCCEE
Confidence 22211 1 1566777888888886444555
No 13
>PF15645 Tox-PLDMTX: Dermonecrotoxin of the Papain-like fold
Probab=44.74 E-value=79 Score=27.67 Aligned_cols=77 Identities=16% Similarity=0.254 Sum_probs=50.1
Q ss_pred cchhhhHHHHHHHHHHhcCC-ceee-eeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCccccceecCCCHHHH
Q 045136 124 GACRSCLMREVSGRLGNAGY-NSAI-CKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMARASEEYN 201 (304)
Q Consensus 124 ~~c~~cl~r~v~~~Lr~~GY-dAai-CkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT~~Y~ 201 (304)
+.|.+. .+.|+..||..|| |..+ =-.-|+.......-.|-=+.+.. .+.-|||||--. ||.=-..
T Consensus 5 ~~C~~a-~~~v~~~lk~~g~~~~k~~~l~~W~~~~~~~p~NH~vv~~k~------~g~eyV~D~Ta~-QF~~~~~----- 71 (135)
T PF15645_consen 5 EQCESA-MKEVADFLKDKGYEDIKYRGLLIWENANDDSPTNHFVVVAKK------NGKEYVFDPTAH-QFSNKGN----- 71 (135)
T ss_pred HHHHHH-HHHHHHHHHhCCCCcceeeEEEEecCCCccCCcceEEEEEEE------CCEEEEEeCcHH-HhhccCC-----
Confidence 466543 6789999999999 4333 12239777777777775554444 468999999743 4442111
Q ss_pred HHHHhCC-CceeeChhhHH
Q 045136 202 RLVRRLP-ELFVGKVERLS 219 (304)
Q Consensus 202 ~ll~~LP-~vFVG~~~rL~ 219 (304)
+ ..|+|+.+.=.
T Consensus 72 ------~~~p~i~~~~~W~ 84 (135)
T PF15645_consen 72 ------DNGPIILPEDAWK 84 (135)
T ss_pred ------CCCceEecHHHHH
Confidence 2 68889887654
No 14
>COG2162 NhoA Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=44.46 E-value=58 Score=31.82 Aligned_cols=58 Identities=17% Similarity=0.319 Sum_probs=47.6
Q ss_pred HHHHHHHHHhcCCceee--eeccCCCCC-CCCCcceeEEEEEeCCCCCCCceEEEEecCccccceec
Q 045136 131 MREVSGRLGNAGYNSAI--CKSKWRSSP-DIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMA 194 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAai--CkSkW~~s~-~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIA 194 (304)
...+...|+++||+... |.=.|...+ ..|.+.|.=|.|.+. +..+|+|..|=.+--.|
T Consensus 74 Nglf~~vL~~lGF~v~~l~arV~~g~~~~a~~~~tH~~L~v~~~------~~~~l~DvGFGg~~l~A 134 (275)
T COG2162 74 NGLFGRVLRELGFNVRLLLARVVWGLAPDALPPRTHRLLLVELE------GETWLADVGFGGQTLTA 134 (275)
T ss_pred hhHHHHHHHHcCCcceeeEEEEEecCCCCCCCcccceEEEEEec------CceeEEecCCCCCCcCC
Confidence 45677789999999987 777898865 566799999999984 45999999999776666
No 15
>PHA01753 Holliday junction resolvase
Probab=34.52 E-value=1.3e+02 Score=26.01 Aligned_cols=49 Identities=10% Similarity=0.124 Sum_probs=36.7
Q ss_pred HHHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCcccc
Q 045136 131 MREVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAE 190 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~q 190 (304)
-+.+++.|+..|| .+-...|..++ .|--||++.. +++.-++||+-.|..
T Consensus 11 E~~a~~~L~~~G~--~il~rn~~~~~-----~~GEiDIIA~----~~~~lvfVEVKtR~~ 59 (121)
T PHA01753 11 EYKTLEILESNGF--KALRIPVSGTG-----KQALPDIIAT----KNNTIYPIEVKSTSK 59 (121)
T ss_pred HHHHHHHHHHCCC--EEEEeccccCC-----CCCCccEEEe----eCCEEEEEEEEeCCC
Confidence 4689999999999 55666666542 3457999984 346789999999865
No 16
>smart00832 C8 C8 domain. This domain contains 8 conserved cysteine residues, but this family only contains 7 of them to overlaps with other domains. It is found in disease-related proteins including von Willebrand factor, Alpha tectorin, Zonadhesin and Mucin.
Probab=33.95 E-value=35 Score=26.39 Aligned_cols=63 Identities=21% Similarity=0.347 Sum_probs=41.6
Q ss_pred EEEEec--CccccceecCCCHHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCch
Q 045136 180 RVIVEL--NFRAEFEMARASEEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQR 247 (304)
Q Consensus 180 r~IVD~--dFR~qFeIArpT~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~ 247 (304)
.+|.++ -|+.--.+=-|++-|+..|.-+=.. =|..+.|-. .|.+-++.+. +.|..+.+||+..
T Consensus 9 ~~l~~~~g~F~~Ch~~V~p~~f~~~Cv~D~C~~-~~~~~~lC~---al~aYa~aC~-~~Gv~v~~WR~~~ 73 (76)
T smart00832 9 GILLSPRGPFAACHSVVDPEPFFENCVYDTCAC-GGDCECLCD---ALAAYAAACA-EAGVCISPWRTPT 73 (76)
T ss_pred HhhcCCCCChHHHhCcCChHHHHHHHHHHHhCC-CCCCcccCH---HHHHHHHHHH-HCcCcCCCCCCCC
Confidence 456666 3777777778999999999655322 234444433 3344444454 5899999999875
No 17
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=33.68 E-value=32 Score=29.55 Aligned_cols=18 Identities=17% Similarity=0.326 Sum_probs=15.9
Q ss_pred HHHHHHHHhcCCceeeee
Q 045136 132 REVSGRLGNAGYNSAICK 149 (304)
Q Consensus 132 r~v~~~Lr~~GYdAaiCk 149 (304)
..||++||.+|||+..+.
T Consensus 10 ~~Lar~LR~lG~Dt~~~~ 27 (147)
T PF01927_consen 10 GRLARWLRLLGYDTLYSR 27 (147)
T ss_pred HHHHHHHHHCCCcEEEeC
Confidence 579999999999998655
No 18
>PRK08462 biotin carboxylase; Validated
Probab=33.10 E-value=85 Score=31.02 Aligned_cols=109 Identities=11% Similarity=0.057 Sum_probs=62.0
Q ss_pred HHHHHHHHHHhcCCceeeeeccCCCC-CCCCCcceeEEEEEeCCCCCCCceEE-----EEecCccccceecCCC------
Q 045136 130 LMREVSGRLGNAGYNSAICKSKWRSS-PDIPSGEHTFMDVRDNSSAKKGEVRV-----IVELNFRAEFEMARAS------ 197 (304)
Q Consensus 130 l~r~v~~~Lr~~GYdAaiCkSkW~~s-~~~p~G~heyIdV~~~~~~~~~~~r~-----IVD~dFR~qFeIArpT------ 197 (304)
+.-.++..+|++||.+..|-|.-+.. +.+.. -++++.+-... ....| |+++--+.++....|+
T Consensus 15 ~~~~~~~~~~~~G~~~v~~~~~~d~~~~~~~~-ad~~~~~~~~~----~~~~y~~~~~l~~~~~~~~~D~i~pg~g~lse 89 (445)
T PRK08462 15 IALRAIRTIQEMGKEAIAIYSTADKDALYLKY-ADAKICIGGAK----SSESYLNIPAIISAAEIFEADAIFPGYGFLSE 89 (445)
T ss_pred HHHHHHHHHHHcCCCEEEEechhhcCCchhhh-CCEEEEeCCCc----hhcccCCHHHHHHHHHHcCCCEEEECCCcccc
Confidence 35589999999999999887765542 22222 23444331100 01112 2333223333333332
Q ss_pred -HHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 045136 198 -EEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWR 244 (304)
Q Consensus 198 -~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWR 244 (304)
.....+++.+--.|+|....-..+..- =..+|+-|++.|.+.|||.
T Consensus 90 ~~~~a~~~e~~Gi~~~g~~~~~~~~~~d-K~~~r~~l~~~gIp~pp~~ 136 (445)
T PRK08462 90 NQNFVEICSHHNIKFIGPSVEVMALMSD-KSKAKEVMKRAGVPVIPGS 136 (445)
T ss_pred CHHHHHHHHHCCCeEECcCHHHHHHhCC-HHHHHHHHHHCCCCCCCCc
Confidence 344566777777788877654433211 1367888999999999985
No 19
>TIGR00514 accC acetyl-CoA carboxylase, biotin carboxylase subunit. This model represents the biotin carboxylase subunit found usually as a component of acetyl-CoA carboxylase. Acetyl-CoA carboxylase is designated EC 6.4.1.2 and this component, biotin carboxylase, has its own designation, EC 6.3.4.14. Homologous domains are found in eukaryotic forms of acetyl-CoA carboxylase and in a number of other carboxylases (e.g. pyruvate carboxylase), but seed members and trusted cutoff are selected so as to exclude these. In some systems, the biotin carboxyl carrier protein and this protein (biotin carboxylase) may be shared by different carboxyltransferases. However, this model is not intended to identify the biotin carboxylase domain of propionyl-coA carboxylase. The model should hit the full length of proteins, except for chloroplast transit peptides in plants. If it hits a domain only of a longer protein, there may be a problem with the identification.
Probab=33.06 E-value=68 Score=31.85 Aligned_cols=113 Identities=12% Similarity=0.057 Sum_probs=62.2
Q ss_pred HHHHHHHHHHhcCCceeeeeccCC-CCCCCCCcceeEEEEEeCCCCC-CCceEEEEecCccccceecCCC-------HHH
Q 045136 130 LMREVSGRLGNAGYNSAICKSKWR-SSPDIPSGEHTFMDVRDNSSAK-KGEVRVIVELNFRAEFEMARAS-------EEY 200 (304)
Q Consensus 130 l~r~v~~~Lr~~GYdAaiCkSkW~-~s~~~p~G~heyIdV~~~~~~~-~~~~r~IVD~dFR~qFeIArpT-------~~Y 200 (304)
+-..++..++++||....+-+.-+ .+..+.. -++|+.+.-..... .-...-|+++-++.+..+-.|+ ..+
T Consensus 13 ~~~~~~~aa~~lG~~vv~~~~~~d~~a~~~~~-aD~~~~~~~~~~~~~y~d~~~l~~~a~~~~id~I~pg~g~~se~~~~ 91 (449)
T TIGR00514 13 IALRILRACKELGIKTVAVHSTADRDALHVLL-ADEAVCIGPAPSAKSYLNIPNIISAAEITGADAIHPGYGFLSENANF 91 (449)
T ss_pred HHHHHHHHHHHcCCeEEEEEChhhhccccccc-CCEEEEcCCCCchhchhCHHHHHHHHHHhCCCEEEeCCCccccCHHH
Confidence 456899999999999999866433 2233322 23444331100000 0000113343333333333221 235
Q ss_pred HHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 045136 201 NRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWR 244 (304)
Q Consensus 201 ~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWR 244 (304)
..+++.+--.|+|.......+..= =..+|+-|++.|.+.|||-
T Consensus 92 a~~~e~~Gi~~~g~~~~~~~~~~D-K~~~r~~l~~~gip~pp~~ 134 (449)
T TIGR00514 92 AEQCERSGFTFIGPSAESIRLMGD-KVSAIETMKKAGVPCVPGS 134 (449)
T ss_pred HHHHHHCCCcEECcCHHHHHHhCC-HHHHHHHHHHCCCCCCCCc
Confidence 677888887788876554333211 1357888999999999984
No 20
>COG5005 Mu-like prophage protein gpG [General function prediction only]
Probab=30.77 E-value=55 Score=29.02 Aligned_cols=61 Identities=20% Similarity=0.337 Sum_probs=48.0
Q ss_pred CHHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCchH-HHhhhcCCccc
Q 045136 197 SEEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQRY-MQAKWLGACER 259 (304)
Q Consensus 197 T~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~y-M~aKWl~~~~R 259 (304)
|..-.+-|.+|-.+.=|+.+=.+.|-..|-.|++..|..-|-| -|++.+| +.-|=|.-..|
T Consensus 9 ~~~i~~~~~~laq~~~~rk~Lmr~vA~~m~sav~~nF~~~grP--~w~~~Ky~r~Gk~L~~~Gr 70 (140)
T COG5005 9 TSTIQQKLEALAQVTDGRKDLMRSVAGTMRSAVEKNFELEGRP--KWKKRKYGRTGKILQDSGR 70 (140)
T ss_pred HHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHhcCCc--chhhcccCCCCCceeecch
Confidence 3344555666666777777888999999999999999999975 9999999 77777765554
No 21
>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a number of antibiotic resistance proteins score above the trusted cutoff of this model.
Probab=30.72 E-value=2.1e+02 Score=26.40 Aligned_cols=98 Identities=14% Similarity=-0.001 Sum_probs=55.0
Q ss_pred HHHHHHHHHhcCCceeeeeccCCCCC---CCCCcce------eEEEEEeCCCCCCCceEEEEecCccccceecCCCHHHH
Q 045136 131 MREVSGRLGNAGYNSAICKSKWRSSP---DIPSGEH------TFMDVRDNSSAKKGEVRVIVELNFRAEFEMARASEEYN 201 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~~s~---~~p~G~h------eyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT~~Y~ 201 (304)
-+.|.+.|++.||++.++...-.+.. ++..--+ .-+|++++... ..+. ......
T Consensus 20 ~~~i~~al~~~g~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~D~v~~~~~--------------g~~~---~~~~~~ 82 (315)
T TIGR01205 20 AAAVLKALRDLGYDVYPVDIDKMGSWTYKDLPQLILELGALLEGIDVVFPVLH--------------GRYG---EDGTIQ 82 (315)
T ss_pred HHHHHHHHhhcCCEEEEEeecCCccccccchHHHHhhccccCCCCCEEEEecC--------------CCCC---CCcHHH
Confidence 46789999999999999877532211 1110000 01233321100 0000 112467
Q ss_pred HHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCc
Q 045136 202 RLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQ 246 (304)
Q Consensus 202 ~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~ 246 (304)
++++.+--.|+|.......+.. ==..+++-|++.|.++|||+..
T Consensus 83 ~~le~~gip~~g~~~~~~~~~~-dK~~~~~~l~~~gip~p~~~~~ 126 (315)
T TIGR01205 83 GLLELMGIPYTGSGVLASALSM-DKLLTKLLWKALGLPTPDYIVL 126 (315)
T ss_pred HHHHHcCCCccCCCHHHHHHHH-CHHHHHHHHHHCCCCCCCEEEE
Confidence 7888888888897533332211 1125678899999999999854
No 22
>PRK08463 acetyl-CoA carboxylase subunit A; Validated
Probab=30.26 E-value=71 Score=32.32 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=33.6
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRK 245 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk 245 (304)
...+.+..+--.|+|+......+..== ..+|+.|++.|.++|||-.
T Consensus 89 ~~a~~~e~~Gi~~iGps~~~i~~~~DK-~~~k~~l~~~gIpvpp~~~ 134 (478)
T PRK08463 89 EFAKAVEDAGIIFIGPKSEVIRKMGNK-NIARYLMKKNGIPIVPGTE 134 (478)
T ss_pred HHHHHHHHCCCceecCCHHHHHhhCcH-HHHHHHHHHcCCCCCCCcc
Confidence 456777888888999865544443332 5788889999999999854
No 23
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=29.88 E-value=1.3e+02 Score=26.21 Aligned_cols=43 Identities=14% Similarity=0.194 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhcCCceee--e--ecc----CCCCCCCCCcceeEEEEEeCC
Q 045136 130 LMREVSGRLGNAGYNSAI--C--KSK----WRSSPDIPSGEHTFMDVRDNS 172 (304)
Q Consensus 130 l~r~v~~~Lr~~GYdAai--C--kSk----W~~s~~~p~G~heyIdV~~~~ 172 (304)
|.+..-+.|++.||+-.+ . +.. +=+.-.+|+|+|+-+-|++..
T Consensus 57 Ie~~A~~~l~~~G~~y~v~v~~~~~~FPtK~YG~~~~PaG~YeAlrI~IG~ 107 (130)
T PF09551_consen 57 IEQIAEEVLAEEGYDYPVKVELGRFYFPTKTYGDIVLPAGEYEALRITIGE 107 (130)
T ss_pred HHHHHHHHHHHhCCCCcEEEEEEeeeCCCceECCEeccCCceEEEEEEecC
Confidence 445556678888876443 2 222 224446899999999999853
No 24
>PRK08654 pyruvate carboxylase subunit A; Validated
Probab=29.38 E-value=1.1e+02 Score=31.61 Aligned_cols=46 Identities=20% Similarity=0.268 Sum_probs=32.2
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRK 245 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk 245 (304)
...+.++.+--.|+|+....-.+..- =..+|+-|++.|.++|||..
T Consensus 90 ~~a~~~e~~gi~~iGps~~~i~~~~D-K~~~k~~l~~~GVpv~p~~~ 135 (499)
T PRK08654 90 EFAKACEKAGIVFIGPSSDVIEAMGS-KINAKKLMKKAGVPVLPGTE 135 (499)
T ss_pred HHHHHHHHCCCcEECCCHHHHHHhCC-HHHHHHHHHHcCcCCCCCcC
Confidence 45677777778899976543333211 12478889999999999975
No 25
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=29.34 E-value=46 Score=25.35 Aligned_cols=21 Identities=48% Similarity=0.623 Sum_probs=16.4
Q ss_pred hhhhHHHHHHHHHHhcCCcee
Q 045136 126 CRSCLMREVSGRLGNAGYNSA 146 (304)
Q Consensus 126 c~~cl~r~v~~~Lr~~GYdAa 146 (304)
++..+++.|+.-|+..||+++
T Consensus 4 ~~~~l~~~va~il~~~GF~~~ 24 (77)
T PF07524_consen 4 ARSLLRRSVAQILKHAGFDSA 24 (77)
T ss_pred HHHHHHHHHHHHHHHcCcccc
Confidence 466778888888888888864
No 26
>COG3349 Uncharacterized conserved protein [Function unknown]
Probab=29.17 E-value=59 Score=33.99 Aligned_cols=72 Identities=24% Similarity=0.253 Sum_probs=51.0
Q ss_pred HHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCccccceecCCCHHHHHHHHhCCCceee
Q 045136 134 VSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMARASEEYNRLVRRLPELFVG 213 (304)
Q Consensus 134 v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT~~Y~~ll~~LP~vFVG 213 (304)
-+..|.++||+..||.++|.-.|++.+++- + .--++|-.||-=| ..|..+++.|+++..+
T Consensus 15 ~a~~La~~g~~vt~~ea~~~~GGk~~s~~~---------~-----dg~~~E~glh~f~------~~Y~n~~~ll~~~~~~ 74 (485)
T COG3349 15 AAYELADAGYDVTLYEARDRLGGKVASWRD---------S-----DGNHVEHGLHVFF------GCYYNLLTLLKELPIE 74 (485)
T ss_pred HHHHHHhCCCceEEEeccCccCceeeeeec---------C-----CCCeeeeeeEEec------hhHHHHHHHhhhCCch
Confidence 367899999999999999998777766543 1 1124455555444 5799999999999888
Q ss_pred ChhhHHHHHHHH
Q 045136 214 KVERLSNVIKIL 225 (304)
Q Consensus 214 ~~~rL~~iV~~m 225 (304)
...+|+..+.+.
T Consensus 75 ~~~~~~~~~~~~ 86 (485)
T COG3349 75 DRLQLREHTKTF 86 (485)
T ss_pred heeehHhhhhhh
Confidence 555555555443
No 27
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=28.42 E-value=3.2e+02 Score=25.66 Aligned_cols=46 Identities=11% Similarity=0.008 Sum_probs=31.0
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRK 245 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk 245 (304)
..+++++.+=--|+|...+-..+- .==..+|+-|++.|.+.|||+-
T Consensus 73 ~i~~~le~~gip~~Gs~~~a~~l~-~DK~~~k~~l~~~gIptp~~~~ 118 (296)
T PRK14569 73 RVSALLEMLEIKHTSSSMKSSVIT-MDKMISKEILMHHRMPTPMAKF 118 (296)
T ss_pred HHHHHHHHcCCCeeCCCHHHHHHH-HCHHHHHHHHHHCCCCCCCeEE
Confidence 356788887777899664332221 1113567789999999999964
No 28
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=28.42 E-value=1e+02 Score=31.05 Aligned_cols=108 Identities=12% Similarity=0.135 Sum_probs=57.4
Q ss_pred HHHHHHHHHhcCCceeeeeccCCC-CCCCCCcc----------eeEEEE--EeCCCCCCCceEEEEecCccccceecCCC
Q 045136 131 MREVSGRLGNAGYNSAICKSKWRS-SPDIPSGE----------HTFMDV--RDNSSAKKGEVRVIVELNFRAEFEMARAS 197 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~~-s~~~p~G~----------heyIdV--~~~~~~~~~~~r~IVD~dFR~qFeIArpT 197 (304)
-..+++.++++||...++-+.=+. +..+..-+ ..|+|+ +..-....+-..++--..|-++ .
T Consensus 14 a~~ii~a~~~~Gi~~v~v~~~~d~~a~~~~~aD~~~~i~~~~~~~y~d~~~i~~~a~~~~~D~I~pg~g~lse------~ 87 (472)
T PRK07178 14 AVRIVRACAEMGIRSVAIYSEADRHALHVKRADEAYSIGADPLAGYLNPRRLVNLAVETGCDALHPGYGFLSE------N 87 (472)
T ss_pred HHHHHHHHHHcCCeEEEEeCCCccCCccHhhCCEEEEcCCCchhhhcCHHHHHHHHHHHCCCEEEeCCCCccc------C
Confidence 458899999999999888775432 22221111 223331 0000000000111111111111 1
Q ss_pred HHHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 045136 198 EEYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRK 245 (304)
Q Consensus 198 ~~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk 245 (304)
....++++.+--.|+|+......+..= =..+|+-|++.|.++|||..
T Consensus 88 ~~~a~~~e~~Gi~~igps~~~i~~~~D-K~~~r~~l~~~GIp~pp~~~ 134 (472)
T PRK07178 88 AELAEICAERGIKFIGPSAEVIRRMGD-KTEARRAMIKAGVPVTPGSE 134 (472)
T ss_pred HHHHHHHHHcCCCccCCCHHHHHHhcC-HHHHHHHHHHCCCCCCCCcC
Confidence 335567777877788986654433321 23677889999999999963
No 29
>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=28.41 E-value=1.2e+02 Score=30.02 Aligned_cols=44 Identities=16% Similarity=0.192 Sum_probs=32.1
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPW 243 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPW 243 (304)
.+..+++.+--.|+|+......+..= =..+|+-|++.|.+.|||
T Consensus 90 ~~~~~~e~~gi~~~g~~~~~~~~~~D-K~~~r~~l~~~gIp~pp~ 133 (451)
T PRK08591 90 DFAEICEDSGFTFIGPSAETIRLMGD-KVTAKATMKKAGVPVVPG 133 (451)
T ss_pred HHHHHHHHCCCceECcCHHHHHHhcC-HHHHHHHHHHcCCCCCCC
Confidence 46778888888888876554433322 235788999999999998
No 30
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=27.69 E-value=16 Score=35.18 Aligned_cols=53 Identities=23% Similarity=0.414 Sum_probs=40.8
Q ss_pred CHHHHHHHHhCCCceeeChhhHHHHHHH-----HHHHHHHHHHhcCCCCCCCCCchHHH
Q 045136 197 SEEYNRLVRRLPELFVGKVERLSNVIKI-----LCSAAKKCMKEKKMHMGPWRKQRYMQ 250 (304)
Q Consensus 197 T~~Y~~ll~~LP~vFVG~~~rL~~iV~~-----mc~Aak~S~k~~Gm~lPPWRk~~yM~ 250 (304)
.+.|...|+.||.+-.+ .-.|..-|.+ |.++.++.+......+.||||-.|-.
T Consensus 39 ~~~~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~pwrkg~~~~ 96 (322)
T PRK15068 39 FKKWEKALEQLPELTPD-RLDLLDSVTIGSEEPLSEGQRKRIENLLRALMPWRKGPFSL 96 (322)
T ss_pred HHHHHHHHHhccCCCcc-eeccCCceEeccCCCCCHHHHHHHHHHHHhhcCcccCCccc
Confidence 37899999999986433 2345554544 58888899999999999999998765
No 31
>cd00523 archeal_HJR Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain eukaryotes, however this CD includes only the archeal HJR's. The bacterial and archeal HJRs perform a similar function but differ in both sequence and structure. Structural similarity does however, exist between the archeal HJRs and type II restriction endonucleases, such as EcoRV, BglII, and Fok, and this similarity includes their active site configurations.
Probab=26.98 E-value=2.1e+02 Score=24.44 Aligned_cols=49 Identities=18% Similarity=0.291 Sum_probs=35.4
Q ss_pred HHHHHHHHHhcCCceeeeeccCCCCCCCCCcceeEEEEEeCCCCCCCceEEEEecCcccc
Q 045136 131 MREVSGRLGNAGYNSAICKSKWRSSPDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAE 190 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~~s~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~q 190 (304)
-+.+++.|+..||..- ++..++ ++.+-.||++.. +++.-++||.-.|..
T Consensus 9 E~~a~~~L~~~G~~vl----R~~~sG---~~~~~eiDIIA~----~~~~lvfVEVK~r~~ 57 (123)
T cd00523 9 ERELVKILEEKGFAVV----RAPGSG---GGPRPLPDIVAG----NGGTYLAIEVKSTKK 57 (123)
T ss_pred HHHHHHHHHhCCCEEE----EEcCCC---CCCCCceeEEEe----cCCEEEEEEEEecCC
Confidence 4689999999999887 222222 223567999984 246889999998875
No 32
>PF09369 DUF1998: Domain of unknown function (DUF1998); InterPro: IPR018973 This entry represents a family of DEAD/DEAH-box-containing family of helicases. It includes Hrq1 from Saccharomyces, a putative RecQ helicase []. RecQ helicases are involved in maintaining genomic integrity.
Probab=26.78 E-value=56 Score=25.14 Aligned_cols=25 Identities=28% Similarity=0.777 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHhhhCCcccccCCCCCCCcchhhhH
Q 045136 92 IRNATKEILKEIQLQVAAGNNVCGCGRRPVASGACRSCL 130 (304)
Q Consensus 92 l~~~v~~al~~~~~~~~~~~~~C~c~r~~~a~~~c~~cl 130 (304)
+.+.+++|++.++. |.|. ++|..||
T Consensus 60 ~~~ll~~A~~~~~~--------C~C~------~gC~~Cl 84 (84)
T PF09369_consen 60 FEELLRRALELLEE--------CDCD------DGCPSCL 84 (84)
T ss_pred HHHHHHHHHHHHHc--------CCcc------ccCcccC
Confidence 44556777766664 7785 4899886
No 33
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=25.57 E-value=4e+02 Score=24.50 Aligned_cols=47 Identities=15% Similarity=0.085 Sum_probs=31.2
Q ss_pred HHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCch
Q 045136 200 YNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQR 247 (304)
Q Consensus 200 Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~ 247 (304)
+.++++.+--.|+|+......+.. ==..+|+-|++.|.+.|||+...
T Consensus 74 ~~~~le~~gi~~~g~~~~~~~~~~-dK~~~k~~l~~~gIp~p~~~~~~ 120 (304)
T PRK01372 74 IQGLLELLGIPYTGSGVLASALAM-DKLRTKLVWQAAGLPTPPWIVLT 120 (304)
T ss_pred HHHHHHHcCCCccCCCHHHHHHHh-CHHHHHHHHHHCCCCCCCEEEEe
Confidence 456788887778888533222211 01256777999999999998543
No 34
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes.
Probab=24.51 E-value=2e+02 Score=32.49 Aligned_cols=108 Identities=9% Similarity=0.059 Sum_probs=59.9
Q ss_pred HHHHHHHHhcCCceeeeeccCCCC-CCCCCcceeEEEEEeCCCCCCCceEEEEecCccccceecCCC------------H
Q 045136 132 REVSGRLGNAGYNSAICKSKWRSS-PDIPSGEHTFMDVRDNSSAKKGEVRVIVELNFRAEFEMARAS------------E 198 (304)
Q Consensus 132 r~v~~~Lr~~GYdAaiCkSkW~~s-~~~p~G~heyIdV~~~~~~~~~~~r~IVD~dFR~qFeIArpT------------~ 198 (304)
..+++.|++.||.+.++.+.-.+. ....-.++.|+.-.. ...|.++-=+.++..--|+ .
T Consensus 30 ~q~~kalke~G~~vi~v~~np~~~~~~~~~aD~~y~~p~~--------~~~v~~ii~~e~~DaIlp~~gg~~~l~la~~l 101 (1050)
T TIGR01369 30 SQACKALKEEGYRVILVNSNPATIMTDPEMADKVYIEPLT--------PEAVEKIIEKERPDAILPTFGGQTALNLAVEL 101 (1050)
T ss_pred HHHHHHHHHcCCEEEEEecchhhccCChhcCCEEEECCCC--------HHHHHHHHHHhCCCEEEECCCChhHHHHHhhH
Confidence 378999999999999998876432 222223455553110 0111111111122211121 1
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCchH
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPWRKQRY 248 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPWRk~~y 248 (304)
..+.+++.+--.|+|+....-.+.+= =..+|+-|++.|+++|||+...-
T Consensus 102 ~~~~~le~~Gv~~~G~~~~ai~~~~D-K~~~k~~l~~~Gipvp~~~~v~s 150 (1050)
T TIGR01369 102 EESGVLEKYGVEVLGTPVEAIKKAED-RELFREAMKEIGEPVPESEIAHS 150 (1050)
T ss_pred HHHhHHHHCCCEEECCCHHHHHHhCC-HHHHHHHHHHCCCCCCCeeecCC
Confidence 23556777766678876544332211 12468889999999999987643
No 35
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=24.26 E-value=1.6e+02 Score=26.48 Aligned_cols=46 Identities=7% Similarity=0.079 Sum_probs=31.3
Q ss_pred ceEEEEecCccccceecCCCHHHHHHH-HhCC--CceeeChhhHHHHHH
Q 045136 178 EVRVIVELNFRAEFEMARASEEYNRLV-RRLP--ELFVGKVERLSNVIK 223 (304)
Q Consensus 178 ~~r~IVD~dFR~qFeIArpT~~Y~~ll-~~LP--~vFVG~~~rL~~iV~ 223 (304)
+.++|+||.++...--.-..+.+...+ ..+| .++....+.+..+..
T Consensus 97 ~~~vv~DPv~~~~~~~~~~~~~~~~~l~~ll~~~dli~pN~~E~~~L~g 145 (253)
T PRK12413 97 GIPVVLDPVLVCKETHDVEVSELRQELIQFFPYVTVITPNLVEAELLSG 145 (253)
T ss_pred CCCEEEcCceecCCCCccccHHHHHHHHHHhccCcEECCCHHHHHHHhC
Confidence 568999999998653111234455444 5578 688888888888765
No 36
>PRK04280 arginine repressor; Provisional
Probab=24.19 E-value=45 Score=29.22 Aligned_cols=83 Identities=11% Similarity=0.134 Sum_probs=51.2
Q ss_pred HHHHHHHHHhcCCceeeeeccCC----CCCCCCCcceeEEEEEeCCCCCCCc-------eEEEEecCccccceecCCCHH
Q 045136 131 MREVSGRLGNAGYNSAICKSKWR----SSPDIPSGEHTFMDVRDNSSAKKGE-------VRVIVELNFRAEFEMARASEE 199 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAaiCkSkW~----~s~~~p~G~heyIdV~~~~~~~~~~-------~r~IVD~dFR~qFeIArpT~~ 199 (304)
+..|+..|++.||++.--+=+.+ +--++|.++..|.-++......... ..+++++++.+.|-|=+-.|.
T Consensus 21 QeeL~~~L~~~Gi~vTQATiSRDikeL~lvKv~~~~G~~~Y~lp~~~~~~~~~~l~~~~~~~v~sv~~~~~~vvikT~pG 100 (148)
T PRK04280 21 QDELVDRLREEGFNVTQATVSRDIKELHLVKVPLPDGRYKYSLPADQRFNPLQKLKRALMDSFVKIDGAGNLLVLKTLPG 100 (148)
T ss_pred HHHHHHHHHHcCCCeehHHHHHHHHHcCCEEeecCCCcEEEeeccccccchHHHHHHHHHHHEEEEeeeCCEEEEEcCCC
Confidence 57999999999999864332221 1124555444444344321111111 135899999999999998888
Q ss_pred HHHHHHh------CCCceeeC
Q 045136 200 YNRLVRR------LPELFVGK 214 (304)
Q Consensus 200 Y~~ll~~------LP~vFVG~ 214 (304)
+...++. +|+ .+|+
T Consensus 101 ~A~~va~~iD~~~~~e-I~GT 120 (148)
T PRK04280 101 NANSIGALIDNLDWDE-ILGT 120 (148)
T ss_pred hHHHHHHHHHhCCCCC-eEEE
Confidence 8887754 576 4454
No 37
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=24.11 E-value=66 Score=24.79 Aligned_cols=22 Identities=27% Similarity=0.259 Sum_probs=17.8
Q ss_pred chhhhHHHHHHHHHHhcCCcee
Q 045136 125 ACRSCLMREVSGRLGNAGYNSA 146 (304)
Q Consensus 125 ~c~~cl~r~v~~~Lr~~GYdAa 146 (304)
-++..+|+.|+.-|+..||+..
T Consensus 3 ~~~~ll~~~Vaqil~~~Gf~~~ 24 (77)
T smart00576 3 LAFALLRIAVAQILESAGFDSF 24 (77)
T ss_pred HHHHHHHHHHHHHHHHcCcccc
Confidence 3567788889999999998874
No 38
>PF08584 Ribonuc_P_40: Ribonuclease P 40kDa (Rpp40) subunit; InterPro: IPR013893 The tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule and at least eight protein subunits. Subunits hpop1, Rpp21, Rpp29, Rpp30, Rpp38, and Rpp40 (this entry) are involved in extensive, but weak, protein-protein interactions in the holoenzyme complex [].
Probab=24.10 E-value=68 Score=30.48 Aligned_cols=30 Identities=27% Similarity=0.454 Sum_probs=25.1
Q ss_pred ceEEEEecCccccceecCCCHHHHHHHHhCC
Q 045136 178 EVRVIVELNFRAEFEMARASEEYNRLVRRLP 208 (304)
Q Consensus 178 ~~r~IVD~dFR~qFeIArpT~~Y~~ll~~LP 208 (304)
..|+||.+|+|+. .+.+-...|++++.+|=
T Consensus 67 ~~r~vV~idL~~~-s~~~g~k~y~Rl~~alk 96 (284)
T PF08584_consen 67 HQRYVVEIDLRDP-SFLPGKKGYERLRWALK 96 (284)
T ss_pred ceEEEEEEeCCCc-ccCCCcchhHHHHHHHH
Confidence 4599999999987 77888999999986543
No 39
>PRK05586 biotin carboxylase; Validated
Probab=24.04 E-value=1.3e+02 Score=29.93 Aligned_cols=44 Identities=14% Similarity=0.243 Sum_probs=31.6
Q ss_pred HHHHHHHhCCCceeeChhhHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 045136 199 EYNRLVRRLPELFVGKVERLSNVIKILCSAAKKCMKEKKMHMGPW 243 (304)
Q Consensus 199 ~Y~~ll~~LP~vFVG~~~rL~~iV~~mc~Aak~S~k~~Gm~lPPW 243 (304)
....+++.+--.|+|...+...+..= =..+|+-|++.|.++|||
T Consensus 90 ~~a~~~~~~gi~~~g~s~~~~~~~~D-K~~~k~~l~~~GIpvp~~ 133 (447)
T PRK05586 90 KFAKMCKECNIVFIGPDSETIELMGN-KSNAREIMIKAGVPVVPG 133 (447)
T ss_pred HHHHHHHHCCCcEECcCHHHHHhhCC-HHHHHHHHHHCCCCCCCC
Confidence 55667777787888877654443321 146788899999999998
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=23.06 E-value=19 Score=27.32 Aligned_cols=24 Identities=29% Similarity=0.890 Sum_probs=18.4
Q ss_pred HHHHHHHHHHhcCC--ceeeeeccCC
Q 045136 130 LMREVSGRLGNAGY--NSAICKSKWR 153 (304)
Q Consensus 130 l~r~v~~~Lr~~GY--dAaiCkSkW~ 153 (304)
+=..|+..|...|| ++.-|+.||.
T Consensus 36 ~w~~Ia~~l~~~G~~rt~~qc~~Kw~ 61 (90)
T PF13837_consen 36 VWKEIAEELAEHGYNRTPEQCRNKWK 61 (90)
T ss_dssp HHHHHHHHHHHHC----HHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 45678999999999 6777999996
No 41
>PF01870 Hjc: Archaeal holliday junction resolvase (hjc); InterPro: IPR002732 This entry represents Holliday junction resolvases (hjc gene) and related proteins, primarily from archaeal species []. The Holliday junction is an essential intermediate of homologous recombination. Holliday junctions are four-stranded DNA complexes that are formed during recombination and related DNA repair events. In the presence of divalent cations, these junctions exist predominantly as the stacked-X form in which the double-helical segments are coaxially stacked and twisted by 60 degrees in a right-handed direction across the junction cross-over. In this structure, the stacked arms resemble two adjacent double-helices, but are linked at the junction by two common strands that cross-over between the duplexes []. During homologous recombination, genetic information is physically exchanged between parental DNAs via crossing single strands of the same polarity within the four-way Holliday structure. This process is terminated by the endonucleolytic activity of resolvases, which convert the four-way DNA back to two double strands.; PDB: 2WJ0_A 2WIZ_B 2WIW_B 2WCW_C 2WCZ_A 1HH1_A 1GEF_D 1IPI_B 2EO0_B 1OB9_A ....
Probab=21.54 E-value=1.5e+02 Score=23.97 Aligned_cols=16 Identities=25% Similarity=0.302 Sum_probs=13.1
Q ss_pred HHHHHHHHHhcCCcee
Q 045136 131 MREVSGRLGNAGYNSA 146 (304)
Q Consensus 131 ~r~v~~~Lr~~GYdAa 146 (304)
=|+|++.|.+.||.+.
T Consensus 3 Erel~~~L~~~Gf~v~ 18 (88)
T PF01870_consen 3 ERELVKILWERGFAVV 18 (88)
T ss_dssp HHHHHHHHHHTT-EEE
T ss_pred HHHHHHHHHhCCcEEE
Confidence 3789999999999886
Done!