Query 032787
Match_columns 133
No_of_seqs 53 out of 55
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 05:57:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032787.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032787hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11909 NdhN: NADH-quinone ox 100.0 1.5E-39 3.2E-44 252.6 6.3 63 71-133 8-70 (154)
2 PRK13361 molybdenum cofactor b 85.4 1.7 3.7E-05 35.3 4.7 60 60-122 67-130 (329)
3 PF14085 DUF4265: Domain of un 84.3 2.7 5.9E-05 30.3 4.9 61 43-106 43-114 (117)
4 TIGR02668 moaA_archaeal probab 83.2 2.9 6.3E-05 32.9 5.0 62 59-123 61-125 (302)
5 TIGR02666 moaA molybdenum cofa 80.7 3.9 8.5E-05 32.8 5.0 60 60-122 65-128 (334)
6 PRK00164 moaA molybdenum cofac 80.7 4 8.6E-05 32.7 5.0 63 59-122 70-134 (331)
7 TIGR03470 HpnH hopanoid biosyn 73.2 9.9 0.00022 31.1 5.5 62 55-117 73-135 (318)
8 TIGR03679 arCOG00187 arCOG0018 71.4 9.1 0.0002 29.9 4.7 58 60-117 90-149 (218)
9 TIGR02495 NrdG2 anaerobic ribo 71.1 11 0.00025 27.4 4.9 61 59-123 67-129 (191)
10 PLN02951 Molybderin biosynthes 70.4 9.1 0.0002 32.3 4.8 61 59-122 111-175 (373)
11 cd01994 Alpha_ANH_like_IV This 64.6 18 0.0004 27.9 5.1 57 61-117 93-151 (194)
12 TIGR02109 PQQ_syn_pqqE coenzym 64.3 22 0.00048 28.7 5.7 56 59-116 58-116 (358)
13 PF01902 ATP_bind_4: ATP-bindi 62.8 17 0.00036 29.2 4.7 64 60-123 89-152 (218)
14 PF02579 Nitro_FeMo-Co: Dinitr 54.8 8.3 0.00018 24.8 1.5 35 74-111 46-80 (94)
15 smart00775 LNS2 LNS2 domain. T 54.1 11 0.00025 27.9 2.3 31 96-126 34-67 (157)
16 PF01548 DEDD_Tnp_IS110: Trans 53.2 9.1 0.0002 26.6 1.6 52 68-119 33-84 (144)
17 TIGR00290 MJ0570_dom MJ0570-re 52.6 33 0.00072 27.8 4.9 61 57-117 86-148 (223)
18 PF15007 CEP44: Centrosomal sp 47.1 6.8 0.00015 30.1 0.2 35 93-127 5-40 (131)
19 KOG1838 Alpha/beta hydrolase [ 45.1 23 0.00051 31.7 3.2 40 81-120 126-169 (409)
20 PLN02486 aminoacyl-tRNA ligase 44.6 51 0.0011 28.7 5.1 54 69-126 60-123 (383)
21 PF11455 DUF3018: Protein of 43.9 13 0.00029 25.8 1.2 25 95-119 6-30 (65)
22 PRK05301 pyrroloquinoline quin 43.6 62 0.0013 26.5 5.2 57 59-116 67-125 (378)
23 TIGR01689 EcbF-BcbF capsule bi 42.2 26 0.00057 26.0 2.6 23 97-119 32-54 (126)
24 cd06344 PBP1_ABC_ligand_bindin 42.2 51 0.0011 25.5 4.3 53 68-120 178-230 (332)
25 PRK10985 putative hydrolase; P 40.1 32 0.00069 27.2 2.9 39 81-119 58-101 (324)
26 cd06346 PBP1_ABC_ligand_bindin 38.9 53 0.0011 25.3 3.9 53 68-120 179-231 (312)
27 PF08846 DUF1816: Domain of un 38.8 18 0.00038 25.3 1.2 30 58-87 26-55 (68)
28 cd04724 Tryptophan_synthase_al 38.4 43 0.00094 26.4 3.5 42 70-113 93-137 (242)
29 PF03944 Endotoxin_C: delta en 38.4 4.8 0.0001 29.4 -1.8 38 60-106 24-63 (143)
30 TIGR01482 SPP-subfamily Sucros 38.3 32 0.00068 25.1 2.5 31 97-127 23-53 (225)
31 PF04452 Methyltrans_RNA: RNA 38.2 24 0.00052 27.3 2.0 33 82-114 176-208 (225)
32 PRK11713 16S ribosomal RNA met 37.3 50 0.0011 25.9 3.6 34 81-114 178-211 (234)
33 cd03413 CbiK_C Anaerobic cobal 36.6 1.1E+02 0.0023 21.7 4.9 50 67-117 41-103 (103)
34 PF11658 DUF3260: Protein of u 36.2 30 0.00064 32.2 2.5 25 69-93 384-410 (518)
35 PF06180 CbiK: Cobalt chelatas 35.4 48 0.001 27.4 3.4 55 67-122 182-249 (262)
36 cd01427 HAD_like Haloacid deha 35.1 26 0.00057 21.9 1.5 20 96-115 31-50 (139)
37 PF05822 UMPH-1: Pyrimidine 5' 34.5 17 0.00036 30.3 0.6 36 97-133 98-133 (246)
38 PRK00726 murG undecaprenyldiph 33.6 69 0.0015 25.0 3.8 29 85-113 6-37 (357)
39 PF08235 LNS2: LNS2 (Lipin/Ned 32.9 27 0.00059 27.2 1.5 24 97-120 35-58 (157)
40 COG3547 Transposase and inacti 32.0 59 0.0013 25.0 3.2 43 66-113 22-66 (303)
41 PF06941 NT5C: 5' nucleotidase 30.6 31 0.00067 25.5 1.4 43 75-119 61-103 (191)
42 TIGR03368 cellulose_yhjU cellu 30.4 40 0.00088 31.4 2.4 25 69-93 381-407 (518)
43 cd06343 PBP1_ABC_ligand_bindin 29.3 94 0.002 24.2 3.9 54 68-121 186-239 (362)
44 TIGR00046 RNA methyltransferas 29.0 80 0.0017 24.9 3.6 34 81-114 185-218 (240)
45 COG1385 Uncharacterized protei 29.0 69 0.0015 26.2 3.3 39 76-114 187-225 (246)
46 cd06348 PBP1_ABC_ligand_bindin 28.9 1.1E+02 0.0024 23.6 4.2 53 68-120 179-231 (344)
47 TIGR00289 conserved hypothetic 28.4 1.4E+02 0.003 24.2 4.9 60 57-117 86-147 (222)
48 PF12697 Abhydrolase_6: Alpha/ 27.5 73 0.0016 21.0 2.7 23 96-119 16-38 (228)
49 PF09370 TIM-br_sig_trns: TIM- 27.3 62 0.0013 27.7 2.8 45 62-107 90-135 (268)
50 PLN02511 hydrolase 26.7 95 0.0021 25.7 3.8 41 80-120 99-144 (388)
51 PRK10976 putative hydrolase; P 26.3 51 0.0011 25.0 2.0 31 96-126 26-56 (266)
52 TIGR03407 urea_ABC_UrtA urea A 26.2 88 0.0019 24.9 3.4 40 68-107 176-215 (359)
53 cd06337 PBP1_ABC_ligand_bindin 26.1 1.2E+02 0.0027 24.0 4.1 80 41-120 145-243 (357)
54 COG2896 MoaA Molybdenum cofact 25.8 1.3E+02 0.0028 26.1 4.5 60 62-122 68-127 (322)
55 COG1654 BirA Biotin operon rep 25.8 36 0.00079 23.9 1.0 41 58-115 17-57 (79)
56 PF14178 YppF: YppF-like prote 24.0 35 0.00075 23.6 0.6 24 60-83 32-55 (60)
57 PF14516 AAA_35: AAA-like doma 23.9 1.9E+02 0.0041 23.8 5.0 47 72-118 22-72 (331)
58 PRK11340 phosphodiesterase Yae 23.2 2.1E+02 0.0045 22.7 4.9 36 74-109 106-146 (271)
59 TIGR03551 F420_cofH 7,8-dideme 23.1 1.1E+02 0.0023 25.2 3.4 61 60-120 92-166 (343)
60 cd03817 GT1_UGDG_like This fam 21.9 97 0.0021 22.4 2.6 31 85-115 8-41 (374)
61 PF01366 PRTP: Herpesvirus pro 21.9 44 0.00096 31.4 1.1 52 59-131 120-175 (638)
62 PRK15126 thiamin pyrimidine py 21.9 64 0.0014 24.7 1.8 31 96-126 26-56 (272)
63 COG0683 LivK ABC-type branched 21.4 1.7E+02 0.0036 23.8 4.2 54 69-122 191-244 (366)
64 PRK10530 pyridoxal phosphate ( 21.3 74 0.0016 23.9 2.0 31 96-126 27-57 (272)
65 cd06355 PBP1_FmdD_like Peripla 21.1 1.3E+02 0.0028 23.8 3.4 40 68-107 175-214 (348)
66 cd06347 PBP1_ABC_ligand_bindin 20.6 1.9E+02 0.0042 21.7 4.1 52 69-120 179-230 (334)
67 PRK14581 hmsF outer membrane N 20.5 1.6E+02 0.0034 28.0 4.3 46 73-118 233-280 (672)
68 PF01927 Mut7-C: Mut7-C RNAse 20.5 92 0.002 23.0 2.3 24 95-120 10-33 (147)
69 PF02645 DegV: Uncharacterised 20.4 1.5E+02 0.0033 23.5 3.7 47 64-111 38-86 (280)
70 TIGR02764 spore_ybaN_pdaB poly 20.3 1.8E+02 0.0039 21.3 3.8 34 82-115 97-130 (191)
71 TIGR01487 SPP-like sucrose-pho 20.1 1.1E+02 0.0025 22.5 2.7 30 96-125 25-54 (215)
No 1
>PF11909 NdhN: NADH-quinone oxidoreductase cyanobacterial subunit N; InterPro: IPR020874 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit N. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0016020 membrane
Probab=100.00 E-value=1.5e-39 Score=252.63 Aligned_cols=63 Identities=59% Similarity=0.935 Sum_probs=62.2
Q ss_pred hhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhhhhhcCCCCCCC
Q 032787 71 GRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVS 133 (133)
Q Consensus 71 ~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeayLt~vHGVRPPH 133 (133)
.+|++||||+||||||+|+||||||||+||||++||+|+++|||||||||+|||++|||||||
T Consensus 8 ~~f~rdlEk~gaLavy~PlEGG~EgRy~RRLRa~GY~t~~~SArGLGD~~ayLt~~HGVRPpH 70 (154)
T PF11909_consen 8 KKFIRDLEKSGALAVYAPLEGGYEGRYLRRLRAAGYRTLIISARGLGDPEAYLTKVHGVRPPH 70 (154)
T ss_pred hHHHHHHHHcCceEEEcCCcCchhHHHHHHHHhcCceEEEecccCCCCHHHHHhccCCCCCCC
Confidence 589999999999999999999999999999999999999999999999999999999999999
No 2
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=85.36 E-value=1.7 Score=35.30 Aligned_cols=60 Identities=22% Similarity=0.373 Sum_probs=45.8
Q ss_pred cccCc-ccccChhhHHHHHHhcce---eEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 60 FIGGD-LLKPDLGRWLSDVEKHKA---IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 60 ~iggd-l~~~d~~~f~rDlEk~ga---Laiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
|.||+ |+..|+..+++.+.+.+- ++|- .-|-.-.++.++|+.+|...+++|--++ |++.|
T Consensus 67 ~tGGEPllr~dl~~li~~i~~~~~l~~i~it--TNG~ll~~~~~~L~~aGl~~v~ISlDs~-~~e~~ 130 (329)
T PRK13361 67 LTGGEPLVRRGCDQLVARLGKLPGLEELSLT--TNGSRLARFAAELADAGLKRLNISLDTL-RPELF 130 (329)
T ss_pred EECcCCCccccHHHHHHHHHhCCCCceEEEE--eChhHHHHHHHHHHHcCCCeEEEEeccC-CHHHh
Confidence 34554 788999999999988764 4443 2354456789999999999999999987 67766
No 3
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=84.34 E-value=2.7 Score=30.34 Aligned_cols=61 Identities=25% Similarity=0.280 Sum_probs=49.1
Q ss_pred eeeEEeecCCCcccccccccCcccccChhhHHHHHHhcce---------eEEecCCCCCchh--hhHhHhhhcCc
Q 032787 43 RVGVTNCSGNSGIEIGDFIGGDLLKPDLGRWLSDVEKHKA---------IAIYTPHEGGYEG--RYLNRLRYLGY 106 (133)
Q Consensus 43 ~~~~v~c~g~~~~~~~d~iggdl~~~d~~~f~rDlEk~ga---------Laiy~PlEGG~EG--Ry~RRLRa~GY 106 (133)
-..+|+.|||+.+-+--.-.+. -|+.+.++.||+.|| +||=+|..-+|+. .|+.+++.+|-
T Consensus 43 ~~~~v~~sGnsTiRv~~~~~~~---~~~~~v~~~l~~lG~~~E~~~~~~lav~VP~~~~~~~i~~~L~~~~e~g~ 114 (117)
T PF14085_consen 43 FQKVVESSGNSTIRVIFDDPGP---DDIEAVREELEALGCTVEGFSERMLAVDVPPSVDFDAIKDYLDRGEEQGW 114 (117)
T ss_pred EEEEEecCCCEEEEEEEcCCcc---hhHHHHHHHHHHcCCeEEccCCCEEEEEECCCCCHHHHHHHHHhhhhcCc
Confidence 4557888999988776665555 788999999999887 7899999999885 77888877763
No 4
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=83.19 E-value=2.9 Score=32.88 Aligned_cols=62 Identities=24% Similarity=0.373 Sum_probs=46.5
Q ss_pred ccccCc-ccccChhhHHHHHHhcce--eEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhhh
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTL 123 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~ga--Laiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeayL 123 (133)
.|.||+ |+..|+..+++.+.+.|- ++|.+ .|=.-..+..+|+.+|...+.+|.-++ |++.|-
T Consensus 61 ~~tGGEPll~~~l~~iv~~l~~~g~~~v~i~T--NG~ll~~~~~~l~~~g~~~v~iSld~~-~~~~~~ 125 (302)
T TIGR02668 61 KITGGEPLLRKDLIEIIRRIKDYGIKDVSMTT--NGILLEKLAKKLKEAGLDRVNVSLDTL-DPEKYK 125 (302)
T ss_pred EEECcccccccCHHHHHHHHHhCCCceEEEEc--CchHHHHHHHHHHHCCCCEEEEEecCC-CHHHhh
Confidence 355665 678999999999988873 45543 343445788899999999999999997 666553
No 5
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=80.71 E-value=3.9 Score=32.82 Aligned_cols=60 Identities=30% Similarity=0.410 Sum_probs=43.3
Q ss_pred cccCc-ccccChhhHHHHHHhc-ce--eEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 60 FIGGD-LLKPDLGRWLSDVEKH-KA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 60 ~iggd-l~~~d~~~f~rDlEk~-ga--Laiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
|.||+ |+..|+.++++.+.+. |. +.|.+ -|=.-.++..+|+.+|...+.+|--++ |++.|
T Consensus 65 ltGGEPll~~~l~~li~~i~~~~gi~~v~itT--NG~ll~~~~~~L~~~gl~~v~ISld~~-~~~~~ 128 (334)
T TIGR02666 65 LTGGEPLLRKDLVELVARLAALPGIEDIALTT--NGLLLARHAKDLKEAGLKRVNVSLDSL-DPERF 128 (334)
T ss_pred EECccccccCCHHHHHHHHHhcCCCCeEEEEe--CchhHHHHHHHHHHcCCCeEEEecccC-CHHHh
Confidence 34454 7788999999998774 42 44433 343345689999999999999999887 55544
No 6
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=80.69 E-value=4 Score=32.66 Aligned_cols=63 Identities=24% Similarity=0.320 Sum_probs=43.6
Q ss_pred ccccCc-ccccChhhHHHHHHhc-ceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKH-KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~-gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
.|.||+ |+..|+.++++.+.+. +-.-|..--.|=.-.++..+|+.+|...+.+|.-++ |++.|
T Consensus 70 ~~tGGEPll~~~l~~li~~i~~~~~~~~i~itTNG~ll~~~~~~L~~agl~~i~ISlds~-~~e~~ 134 (331)
T PRK00164 70 RLTGGEPLLRKDLEDIIAALAALPGIRDLALTTNGYLLARRAAALKDAGLDRVNVSLDSL-DPERF 134 (331)
T ss_pred EEECCCCcCccCHHHHHHHHHhcCCCceEEEEcCchhHHHHHHHHHHcCCCEEEEEeccC-CHHHh
Confidence 345565 5678999999998776 322333333343345788999999999999999886 55554
No 7
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=73.22 E-value=9.9 Score=31.10 Aligned_cols=62 Identities=18% Similarity=0.316 Sum_probs=47.3
Q ss_pred ccccccccCc-ccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCC
Q 032787 55 IEIGDFIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLG 117 (133)
Q Consensus 55 ~~~~d~iggd-l~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLG 117 (133)
+..-.|.||+ |+.+|+..+++-+.+.|. -++.---|=.-.+-+.+|..+++.++.+|--|+-
T Consensus 73 ~~~V~i~GGEPLL~pdl~eiv~~~~~~g~-~v~l~TNG~ll~~~~~~l~~~~~~~i~VSLDG~~ 135 (318)
T TIGR03470 73 APVVSIPGGEPLLHPEIDEIVRGLVARKK-FVYLCTNALLLEKKLDKFEPSPYLTFSVHLDGLR 135 (318)
T ss_pred CCEEEEeCccccccccHHHHHHHHHHcCC-eEEEecCceehHHHHHHHHhCCCcEEEEEEecCc
Confidence 3345677887 788999999999988773 4555555655556677899999999999998874
No 8
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=71.38 E-value=9.1 Score=29.93 Aligned_cols=58 Identities=21% Similarity=0.364 Sum_probs=48.3
Q ss_pred cccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEE--eccCCCC
Q 032787 60 FIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLD--LSARGLG 117 (133)
Q Consensus 60 ~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~--~SARGLG 117 (133)
.+=||+.--+-..+++.+.+..-|-+++||-+=-..=+.+.+...|++++. +++.||+
T Consensus 90 vv~G~i~sd~~~~~~e~v~~~~gl~~~~PLw~~~~~el~~~~~~~G~~~~i~~v~~~~l~ 149 (218)
T TIGR03679 90 IVTGAIASRYQKSRIERICEELGLKVFAPLWGRDQEEYLRELVERGFRFIIVSVSAYGLD 149 (218)
T ss_pred EEECCcccHhHHHHHHHHHHhCCCeEEeehhcCCHHHHHHHHHHCCCEEEEEEEecCCCC
Confidence 444666655678899999999999999999998888899999999999988 5566666
No 9
>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.
Probab=71.13 E-value=11 Score=27.35 Aligned_cols=61 Identities=21% Similarity=0.347 Sum_probs=42.5
Q ss_pred ccccCc-ccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCc-eEEEeccCCCCChhhhh
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGY-YFLDLSARGLGDPETTL 123 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY-~~~~~SARGLGDpeayL 123 (133)
.|.||| |+.+|+-.+++.+.+.| +.+..-.. |..-+++.+|..+|. ..+.+|-.+ +.+.|.
T Consensus 67 ~~sGGEPll~~~l~~li~~~~~~g-~~v~i~TN-g~~~~~l~~l~~~g~~~~v~isl~~--~~~~~~ 129 (191)
T TIGR02495 67 VITGGEPTLQAGLPDFLRKVRELG-FEVKLDTN-GSNPRVLEELLEEGLVDYVAMDVKA--PPEKYP 129 (191)
T ss_pred EEECCcccCcHhHHHHHHHHHHCC-CeEEEEeC-CCCHHHHHHHHhcCCCcEEEEeccC--ChHHHH
Confidence 355777 45689999999999987 34444333 455678888888885 677888877 455444
No 10
>PLN02951 Molybderin biosynthesis protein CNX2
Probab=70.37 E-value=9.1 Score=32.31 Aligned_cols=61 Identities=26% Similarity=0.323 Sum_probs=44.5
Q ss_pred ccccCc-ccccChhhHHHHHHhc-ce--eEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKH-KA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~-ga--Laiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
-|.||+ |+.+|+..+++-+.+. |- ++|.+ .|=.-.+...+|+.+|-..+++|--++ ||+.|
T Consensus 111 ~~tGGEPllr~dl~eli~~l~~~~gi~~i~itT--NG~lL~~~~~~L~~aGld~VnISLDsl-~~e~~ 175 (373)
T PLN02951 111 RLTGGEPTLRKDIEDICLQLSSLKGLKTLAMTT--NGITLSRKLPRLKEAGLTSLNISLDTL-VPAKF 175 (373)
T ss_pred EEECCCCcchhhHHHHHHHHHhcCCCceEEEee--CcchHHHHHHHHHhCCCCeEEEeeccC-CHHHH
Confidence 355665 5688999999988775 52 34432 332345678999999999999999998 77776
No 11
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=64.57 E-value=18 Score=27.88 Aligned_cols=57 Identities=18% Similarity=0.212 Sum_probs=45.8
Q ss_pred ccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEE--eccCCCC
Q 032787 61 IGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLD--LSARGLG 117 (133)
Q Consensus 61 iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~--~SARGLG 117 (133)
+=||+.-=+.-.|++++=+.=-|-.+.||-+=-.--|++.|-+.|+.++. ++|.||+
T Consensus 93 v~G~i~sd~~~~~~e~~~~~~gl~~~~PLW~~~~~~ll~e~~~~g~~~~iv~v~~~~L~ 151 (194)
T cd01994 93 VFGAILSEYQRTRVERVCERLGLEPLAPLWGRDQEELLREMIEAGFKAIIIKVAAEGLD 151 (194)
T ss_pred EECccccHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHcCCeEEEEEeccCCCC
Confidence 34566655677888887666668889999998888899999999999988 5567776
No 12
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=64.28 E-value=22 Score=28.66 Aligned_cols=56 Identities=29% Similarity=0.483 Sum_probs=41.5
Q ss_pred ccccCc-ccccChhhHHHHHHhcce-eEEecCCCC-CchhhhHhHhhhcCceEEEeccCCC
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKHKA-IAIYTPHEG-GYEGRYLNRLRYLGYYFLDLSARGL 116 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~ga-Laiy~PlEG-G~EGRy~RRLRa~GY~~~~~SARGL 116 (133)
.|.||+ |+.+|+-++++.+.+.|- +.|.+ -| -..-.+.++|+..|...+.+|--|.
T Consensus 58 ~~~GGEPll~~~~~~ii~~~~~~g~~~~l~T--NG~ll~~e~~~~L~~~g~~~v~iSldg~ 116 (358)
T TIGR02109 58 HFSGGEPLARPDLVELVAHARRLGLYTNLIT--SGVGLTEARLDALADAGLDHVQLSFQGV 116 (358)
T ss_pred EEeCccccccccHHHHHHHHHHcCCeEEEEe--CCccCCHHHHHHHHhCCCCEEEEeCcCC
Confidence 467787 568899999999988773 23322 23 2345688999999999999999887
No 13
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=62.84 E-value=17 Score=29.18 Aligned_cols=64 Identities=17% Similarity=0.180 Sum_probs=41.8
Q ss_pred cccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhhh
Q 032787 60 FIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTL 123 (133)
Q Consensus 60 ~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeayL 123 (133)
.+=||+.--|.-.|++.+=+.=-|-.+.||-+=-..-|++.+-+.|+.+..++..--|=++.||
T Consensus 89 vv~GdI~~~~~r~~~e~vc~~lGl~~~~PLW~~d~~~ll~e~i~~Gf~aiIv~V~~~~L~~~~L 152 (218)
T PF01902_consen 89 VVFGDIDSEYQRNWVERVCERLGLEAVFPLWGRDREELLREFIESGFEAIIVKVDADGLDESFL 152 (218)
T ss_dssp EE--TTS-HHHHHHHHHHHHHCT-EEE-TTTT--HHHHHHHHHHTT-EEEEEEEESTT--GGGT
T ss_pred EEECcCCcHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHCCCeEEEEEEeccCCChHHC
Confidence 3457887777778888865554577889999988889999999999999998554444446665
No 14
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=54.83 E-value=8.3 Score=24.83 Aligned_cols=35 Identities=11% Similarity=0.072 Sum_probs=17.0
Q ss_pred HHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEe
Q 032787 74 LSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDL 111 (133)
Q Consensus 74 ~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~ 111 (133)
.+-|.+.++=+|.+ |+.-....++|+.+|-+.+..
T Consensus 46 ~~~l~~~~v~~li~---~~iG~~~~~~L~~~gI~v~~~ 80 (94)
T PF02579_consen 46 AKFLAEEGVDVLIC---GGIGEGAFRALKEAGIKVYQG 80 (94)
T ss_dssp HHHHHHTTESEEEE---SCSCHHHHHHHHHTTSEEEES
T ss_pred HHHHHHcCCCEEEE---eCCCHHHHHHHHHCCCEEEEc
Confidence 33344445444444 334445555555555555443
No 15
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=54.15 E-value=11 Score=27.89 Aligned_cols=31 Identities=26% Similarity=0.550 Sum_probs=25.8
Q ss_pred hhHhHhhhcCceEEEeccCCCCChh---hhhhhc
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDPE---TTLTKV 126 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDpe---ayLt~v 126 (133)
...++|+.+||.++.+|+|...-.+ .||.++
T Consensus 34 ~a~~~l~~~G~~ivy~TGRp~~~~~~t~~~l~~~ 67 (157)
T smart00775 34 KLYRDIQNNGYKILYLTARPIGQADRTRSYLSQI 67 (157)
T ss_pred HHHHHHHHcCCeEEEEcCCcHHHHHHHHHHHHHh
Confidence 4678999999999999999988764 788763
No 16
>PF01548 DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 Transposase proteins are necessary for efficient DNA transposition. This entry represents the N-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of transposases [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=53.23 E-value=9.1 Score=26.61 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=40.0
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCCh
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDp 119 (133)
-++.+|+..|++.+.+-|-.-..|+|.-...+.|...||....+.++-+-..
T Consensus 33 ~~~~~l~~~l~~~~~~~v~~E~tg~y~~~l~~~L~~~g~~v~~vnp~~~~~~ 84 (144)
T PF01548_consen 33 AGLEKLLDWLASLGPVLVVMEATGGYWRPLADFLQDAGIEVVVVNPLQVKRF 84 (144)
T ss_pred cchhHHhhhhccccccccccccccccchhhhhheeccccccccccccccccc
Confidence 4568999999999744444444588888999999999999988877655443
No 17
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=52.56 E-value=33 Score=27.76 Aligned_cols=61 Identities=10% Similarity=0.106 Sum_probs=49.6
Q ss_pred ccccccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEe--ccCCCC
Q 032787 57 IGDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDL--SARGLG 117 (133)
Q Consensus 57 ~~d~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~--SARGLG 117 (133)
+--.+=||+.--+.-.|++.+=+.=-|-.+.||-+=-..-+++.+-+.|++++.+ +|.||+
T Consensus 86 v~~vv~GdI~s~~qr~~~e~v~~~lgl~~~~PLW~~~~~~ll~e~i~~G~~aiIv~v~a~gL~ 148 (223)
T TIGR00290 86 VEAVVFGAIYSEYQKTRIERVCRELGLKSFAPLWHRDPEKLMEEFVEEKFEARIIAVAAEGLD 148 (223)
T ss_pred CCEEEECCcccHHHHHHHHHHHHhcCCEEeccccCCCHHHHHHHHHHcCCeEEEEEEecCCCC
Confidence 3334567888778888888887776788899999988888999999999999995 566776
No 18
>PF15007 CEP44: Centrosomal spindle body, CEP44
Probab=47.07 E-value=6.8 Score=30.10 Aligned_cols=35 Identities=29% Similarity=0.252 Sum_probs=26.9
Q ss_pred chhhhHhHhhhcCce-EEEeccCCCCChhhhhhhcC
Q 032787 93 YEGRYLNRLRYLGYY-FLDLSARGLGDPETTLTKVY 127 (133)
Q Consensus 93 ~EGRy~RRLRa~GY~-~~~~SARGLGDpeayLt~vH 127 (133)
.-.|+++.||..+|- .++...=-.|||++||-=+|
T Consensus 5 ~l~~L~~~Lr~~~yp~~vd~~~l~~G~p~afLpil~ 40 (131)
T PF15007_consen 5 NLRRLEQELRSLKYPDEVDYQGLYKGDPSAFLPILH 40 (131)
T ss_pred HHHHHHHHHHHCCCCCccCHHHHhcCCHHHHHHHHH
Confidence 345889999999998 55555556799999996554
No 19
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=45.06 E-value=23 Score=31.67 Aligned_cols=40 Identities=25% Similarity=0.476 Sum_probs=33.4
Q ss_pred ceeEEecCCCCCchhhhHh----HhhhcCceEEEeccCCCCChh
Q 032787 81 KAIAIYTPHEGGYEGRYLN----RLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 81 gaLaiy~PlEGG~EGRy~R----RLRa~GY~~~~~SARGLGDpe 120 (133)
=.+-|-..+.||.+..|.| +++..||+.+.+-+||+|..+
T Consensus 126 P~vvilpGltg~S~~~YVr~lv~~a~~~G~r~VVfN~RG~~g~~ 169 (409)
T KOG1838|consen 126 PIVVILPGLTGGSHESYVRHLVHEAQRKGYRVVVFNHRGLGGSK 169 (409)
T ss_pred cEEEEecCCCCCChhHHHHHHHHHHHhCCcEEEEECCCCCCCCc
Confidence 3566677789999999988 568899999999999998654
No 20
>PLN02486 aminoacyl-tRNA ligase
Probab=44.56 E-value=51 Score=28.73 Aligned_cols=54 Identities=24% Similarity=0.145 Sum_probs=39.6
Q ss_pred ChhhHHHHHHhcceeEEecCCC--CC--c-----hhhhHhHhhhc-CceEEEeccCCCCChhhhhhhc
Q 032787 69 DLGRWLSDVEKHKAIAIYTPHE--GG--Y-----EGRYLNRLRYL-GYYFLDLSARGLGDPETTLTKV 126 (133)
Q Consensus 69 d~~~f~rDlEk~gaLaiy~PlE--GG--~-----EGRy~RRLRa~-GY~~~~~SARGLGDpeayLt~v 126 (133)
|+++++.++|+..-+.||.--+ |. . --..++.|..+ |...+.+ +.|+++|+.+.
T Consensus 60 d~~~~l~~~e~~~~~~vYtG~~PSg~~lHlGHlv~~~~~~~lQ~~~~~~~~I~----iaD~e~~~~~~ 123 (383)
T PLN02486 60 DLEEILDAYEKGEKFYLYTGRGPSSEALHLGHLIPFMFTKYLQDAFKVPLVIQ----LTDDEKFLWKN 123 (383)
T ss_pred CHHHHHHHHhcCCCeEEEeCCCCCCccccHHHHHHHHHHHHHHHhCCCeEEEE----ecCHHHHhhcC
Confidence 8899999999999999998655 22 1 12345677766 6666666 77999999863
No 21
>PF11455 DUF3018: Protein of unknown function (DUF3018); InterPro: IPR021558 This is a bacterial family of uncharacterised proteins.
Probab=43.93 E-value=13 Score=25.80 Aligned_cols=25 Identities=20% Similarity=0.211 Sum_probs=19.0
Q ss_pred hhhHhHhhhcCceEEEeccCCCCCh
Q 032787 95 GRYLNRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 95 GRy~RRLRa~GY~~~~~SARGLGDp 119 (133)
-||..|||++|++-+.|=..=.-+|
T Consensus 6 ~khR~~lRa~GLRPVqiWVPDtr~p 30 (65)
T PF11455_consen 6 RKHRERLRAAGLRPVQIWVPDTRRP 30 (65)
T ss_pred HHHHHHHHHcCCCcceeeCCCCCCh
Confidence 4799999999999888765544433
No 22
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=43.62 E-value=62 Score=26.51 Aligned_cols=57 Identities=23% Similarity=0.293 Sum_probs=39.6
Q ss_pred ccccCc-ccccChhhHHHHHHhcceeEEecCCCCC-chhhhHhHhhhcCceEEEeccCCC
Q 032787 59 DFIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGG-YEGRYLNRLRYLGYYFLDLSARGL 116 (133)
Q Consensus 59 d~iggd-l~~~d~~~f~rDlEk~gaLaiy~PlEGG-~EGRy~RRLRa~GY~~~~~SARGL 116 (133)
.|.||+ |+.+|+-.+++.+.+.|-. +..---|- ......++|+..|...+.+|--|.
T Consensus 67 ~~~GGEPll~~~~~~il~~~~~~g~~-~~i~TNG~ll~~~~~~~L~~~g~~~v~iSldg~ 125 (378)
T PRK05301 67 HFSGGEPLLRKDLEELVAHARELGLY-TNLITSGVGLTEARLAALKDAGLDHIQLSFQDS 125 (378)
T ss_pred EEECCccCCchhHHHHHHHHHHcCCc-EEEECCCccCCHHHHHHHHHcCCCEEEEEecCC
Confidence 466776 6688988888888776632 22222232 344678899999999999998875
No 23
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=42.22 E-value=26 Score=25.98 Aligned_cols=23 Identities=22% Similarity=0.296 Sum_probs=19.7
Q ss_pred hHhHhhhcCceEEEeccCCCCCh
Q 032787 97 YLNRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 97 y~RRLRa~GY~~~~~SARGLGDp 119 (133)
.+++|+.+|+..+..|||...+.
T Consensus 32 ~L~~l~~~G~~IiiaTGR~~~~~ 54 (126)
T TIGR01689 32 KLRHYKALGFEIVISSSRNMRTY 54 (126)
T ss_pred HHHHHHHCCCEEEEECCCCchhh
Confidence 47778899999999999998763
No 24
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=42.19 E-value=51 Score=25.47 Aligned_cols=53 Identities=11% Similarity=-0.021 Sum_probs=42.4
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChh
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
+|....+..+.+.++=+|+....+..-..+.+.++.+|+....++.-++.+++
T Consensus 178 ~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 230 (332)
T cd06344 178 FNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGGDSLYTPD 230 (332)
T ss_pred CCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEecccccCHH
Confidence 34555788899999999999988876677888899999987777777777764
No 25
>PRK10985 putative hydrolase; Provisional
Probab=40.10 E-value=32 Score=27.22 Aligned_cols=39 Identities=18% Similarity=0.269 Sum_probs=27.5
Q ss_pred ceeEEecC-CCCCchhhhH----hHhhhcCceEEEeccCCCCCh
Q 032787 81 KAIAIYTP-HEGGYEGRYL----NRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 81 gaLaiy~P-lEGG~EGRy~----RRLRa~GY~~~~~SARGLGDp 119 (133)
..+-|+.+ ..|+....|. +.|..+||.++.+--||.|+.
T Consensus 58 ~p~vll~HG~~g~~~~~~~~~~~~~l~~~G~~v~~~d~rG~g~~ 101 (324)
T PRK10985 58 KPRLVLFHGLEGSFNSPYAHGLLEAAQKRGWLGVVMHFRGCSGE 101 (324)
T ss_pred CCEEEEeCCCCCCCcCHHHHHHHHHHHHCCCEEEEEeCCCCCCC
Confidence 44555555 3344445554 568999999999999999853
No 26
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=38.90 E-value=53 Score=25.25 Aligned_cols=53 Identities=9% Similarity=-0.048 Sum_probs=44.3
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChh
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
-|+...++.+.+.++=+|+...-+..-.++.+-++.+|+....+..-++.+++
T Consensus 179 ~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~ 231 (312)
T cd06346 179 SSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDKFLLTDGMKSDS 231 (312)
T ss_pred CCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCceEeeccccChH
Confidence 47888899999999989999888887788999999999987677666777765
No 27
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=38.77 E-value=18 Score=25.26 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=21.7
Q ss_pred cccccCcccccChhhHHHHHHhcceeEEec
Q 032787 58 GDFIGGDLLKPDLGRWLSDVEKHKAIAIYT 87 (133)
Q Consensus 58 ~d~iggdl~~~d~~~f~rDlEk~gaLaiy~ 87 (133)
|-|+.-.-...-+..|++|||+.||..|-+
T Consensus 26 GPF~s~~eA~~~~~gyieDL~~Ega~~I~~ 55 (68)
T PF08846_consen 26 GPFDSREEAEAALPGYIEDLESEGAQGISV 55 (68)
T ss_pred CCcCCHHHHHHHhccHHHHHHhhCcceEEE
Confidence 344444445556778999999999988754
No 28
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=38.45 E-value=43 Score=26.43 Aligned_cols=42 Identities=21% Similarity=0.298 Sum_probs=31.9
Q ss_pred hhhHHHHHHhcceeEEec---CCCCCchhhhHhHhhhcCceEEEecc
Q 032787 70 LGRWLSDVEKHKAIAIYT---PHEGGYEGRYLNRLRYLGYYFLDLSA 113 (133)
Q Consensus 70 ~~~f~rDlEk~gaLaiy~---PlEGG~EGRy~RRLRa~GY~~~~~SA 113 (133)
+++|++++.++|+=+|-. |.| .-.++.+++|..|-....+-+
T Consensus 93 ~~~fi~~~~~aG~~giiipDl~~e--e~~~~~~~~~~~g~~~i~~i~ 137 (242)
T cd04724 93 LERFLRDAKEAGVDGLIIPDLPPE--EAEEFREAAKEYGLDLIFLVA 137 (242)
T ss_pred HHHHHHHHHHCCCcEEEECCCCHH--HHHHHHHHHHHcCCcEEEEeC
Confidence 588999999999988888 665 334788888888876655433
No 29
>PF03944 Endotoxin_C: delta endotoxin; InterPro: IPR005638 This family contains insecticidal toxins produced by Bacillus species of bacteria. During spore formation the bacteria produce crystals of this protein. When an insect ingests these proteins, they are activated by proteolytic cleavage. The N terminus is cleaved in all of the proteins and a C-terminal extension is cleaved in some members. Once activated, the endotoxin binds to the gut epithelium and causes cell lysis by the formation of cation-selective channels, which leads to death. The activated region of the delta toxin is composed of three distinct structural domains: an N-terminal helical bundle domain (IPR005639 from INTERPRO) involved in membrane insertion and pore formation; a beta-sheet central domain (IPR001178 from INTERPRO) involved in receptor binding; and a C-terminal beta-sandwich domain that interacts with the N-terminal domain to form a channel [, ]. This entry represents the conserved C-terminal domain.; PDB: 1DLC_A 1JI6_A 1W99_A 1CIY_A 1I5P_A 2C9K_A 3EB7_A.
Probab=38.44 E-value=4.8 Score=29.44 Aligned_cols=38 Identities=29% Similarity=0.472 Sum_probs=25.2
Q ss_pred cccCcccccChhhHHHHHHhccee--EEecCCCCCchhhhHhHhhhcCc
Q 032787 60 FIGGDLLKPDLGRWLSDVEKHKAI--AIYTPHEGGYEGRYLNRLRYLGY 106 (133)
Q Consensus 60 ~iggdl~~~d~~~f~rDlEk~gaL--aiy~PlEGG~EGRy~RRLRa~GY 106 (133)
|.|||||++.-. +.+ .+-+....-...+|+=|+|.|.=
T Consensus 24 ~tGGdlv~l~~~---------~~~~~~~~v~~~~~~~~~YrIRiRYAs~ 63 (143)
T PF03944_consen 24 FTGGDLVKLSNS---------GSLSIKIRVTINNSSSQKYRIRIRYASN 63 (143)
T ss_dssp SSSS-EEEESSS---------CEECEEEEEEESSSSTEEEEEEEEEEES
T ss_pred ccCCcEEEEcCC---------CceEEEEEEEecCCCCceEEEEEEEEEC
Confidence 899999987543 333 33333237778899999997753
No 30
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=38.28 E-value=32 Score=25.07 Aligned_cols=31 Identities=3% Similarity=0.004 Sum_probs=25.8
Q ss_pred hHhHhhhcCceEEEeccCCCCChhhhhhhcC
Q 032787 97 YLNRLRYLGYYFLDLSARGLGDPETTLTKVY 127 (133)
Q Consensus 97 y~RRLRa~GY~~~~~SARGLGDpeayLt~vH 127 (133)
-+++||.+|+.+...|.|-.-+.+.++.++.
T Consensus 23 al~~l~~~Gi~~~~aTGR~~~~~~~~~~~l~ 53 (225)
T TIGR01482 23 AIRKAESVGIPVVLVTGNSVQFARALAKLIG 53 (225)
T ss_pred HHHHHHHCCCEEEEEcCCchHHHHHHHHHhC
Confidence 4788999999999999999988888765543
No 31
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules. The transfer of the methyl group from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms. The reaction is catalyzed by Mtases and modifies DNA, RNA, proteins or small molecules, such as catechol, for regulatory purposes. Proteins in this entry belong to the RsmE family of Mtases, this is supported by crystal structural studying, which show a close structural homology to other known methyltransferases []. This entry contains RsmE of Escherichia coli, which specifically methylates the uridine in position 1498 of 16S rRNA in the fully assembled 30S ribosomal subunit [, ].; GO: 0008168 methyltransferase activity, 0006364 rRNA processing; PDB: 1NXZ_B 1VHY_B 2EGW_A 2EGV_A 2Z0Y_A 2CX8_A 3KW2_A 1VHK_D 1Z85_B 1V6Z_A ....
Probab=38.18 E-value=24 Score=27.32 Aligned_cols=33 Identities=30% Similarity=0.483 Sum_probs=24.4
Q ss_pred eeEEecCCCCCchhhhHhHhhhcCceEEEeccC
Q 032787 82 AIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (133)
Q Consensus 82 aLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SAR 114 (133)
.+.|.+=+||||.-.=...|+.+|+..+.+.-|
T Consensus 176 ~i~i~IGPEGGfs~~E~~~~~~~g~~~vsLG~~ 208 (225)
T PF04452_consen 176 SIAIIIGPEGGFSEEEIEFLKEAGFQPVSLGPR 208 (225)
T ss_dssp EEEEEE--TT---HHHHHHHHHCTEEEEB-SSS
T ss_pred cEEEEECCCCCCCHHHHHHHHHCCCEEEEcCCC
Confidence 899999999999999999999999999987654
No 32
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional
Probab=37.33 E-value=50 Score=25.86 Aligned_cols=34 Identities=24% Similarity=0.414 Sum_probs=30.0
Q ss_pred ceeEEecCCCCCchhhhHhHhhhcCceEEEeccC
Q 032787 81 KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (133)
Q Consensus 81 gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SAR 114 (133)
+.+.|.+=+||||.-+=..-|+.+|+..+.+.-|
T Consensus 178 ~~i~viIGPEGGfs~~Ei~~l~~~g~~~vsLG~~ 211 (234)
T PRK11713 178 GKVLLLIGPEGGFSPEEIELLREAGFTPVSLGPR 211 (234)
T ss_pred CeEEEEECCCCCCCHHHHHHHHHCCCEEeccCCC
Confidence 4689999999999999999999999999887654
No 33
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=36.62 E-value=1.1e+02 Score=21.65 Aligned_cols=50 Identities=22% Similarity=0.264 Sum_probs=37.2
Q ss_pred ccChhhHHHHHHhcceeEEec-CCC------------CCchhhhHhHhhhcCceEEEeccCCCC
Q 032787 67 KPDLGRWLSDVEKHKAIAIYT-PHE------------GGYEGRYLNRLRYLGYYFLDLSARGLG 117 (133)
Q Consensus 67 ~~d~~~f~rDlEk~gaLaiy~-PlE------------GG~EGRy~RRLRa~GY~~~~~SARGLG 117 (133)
.++++.-++.|.+.|+=-|+. |+- |=-+.-++.||.++||..- ...+|||
T Consensus 41 ~P~i~~~l~~l~~~G~~~i~lvPl~L~~G~H~~~Dipge~~~SW~~~l~~~g~~v~-~~~~glg 103 (103)
T cd03413 41 YPGLDDVLAKLKKAGIKKVTLMPLMLVAGDHAHNDMAGDEPDSWKSILEAAGIKVE-TVLKGLG 103 (103)
T ss_pred CCCHHHHHHHHHHcCCCEEEEEehhheecccchhcCCCCCchhHHHHHHHCCCeeE-EEeccCC
Confidence 589999999999988765542 321 2235689999999999875 5677876
No 34
>PF11658 DUF3260: Protein of unknown function (DUF3260); InterPro: IPR017744 This protein was identified by the partial phylogenetic profiling algorithm [] as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation [].
Probab=36.16 E-value=30 Score=32.20 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=21.4
Q ss_pred ChhhHHHHHHhcc--eeEEecCCCCCc
Q 032787 69 DLGRWLSDVEKHK--AIAIYTPHEGGY 93 (133)
Q Consensus 69 d~~~f~rDlEk~g--aLaiy~PlEGG~ 93 (133)
||+.|+..|||+| ++=|.+|--|..
T Consensus 384 dl~~F~~~Le~SgR~v~vv~VPEHGAA 410 (518)
T PF11658_consen 384 DLDRFFDELEKSGRKVMVVVVPEHGAA 410 (518)
T ss_pred HHHHHHHHHHHcCCcEEEEEecCcccc
Confidence 8999999999998 677888877765
No 35
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=35.43 E-value=48 Score=27.40 Aligned_cols=55 Identities=22% Similarity=0.371 Sum_probs=38.0
Q ss_pred ccChhhHHHHHHhcceeEE-ecCC------------CCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 67 KPDLGRWLSDVEKHKAIAI-YTPH------------EGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 67 ~~d~~~f~rDlEk~gaLai-y~Pl------------EGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
.++++..+..|.+.|.=-| ..|+ .|--|.=+..+|.++||.+ ...-+|||+-+++
T Consensus 182 ~P~~~~vi~~L~~~g~k~V~L~PlMlVAGdHa~nDmaGde~dSWks~L~~~G~~v-~~~l~GLGE~~~i 249 (262)
T PF06180_consen 182 YPSLEDVIARLKKKGIKKVHLIPLMLVAGDHAKNDMAGDEEDSWKSRLEAAGFEV-TCVLKGLGEYPAI 249 (262)
T ss_dssp SSBHHHHHHHHHHHT-SEEEEEEESSS--HHHHCCCCSSSTTSHHHHHHHTT-EE-EE----GGGSHHH
T ss_pred CCCHHHHHHHHHhcCCCeEEEEecccccchhhhhhhcCCCcchHHHHHHHCCCEE-EEEeccCcCCHHH
Confidence 4788999999998885444 3454 3657889999999999975 7789999997764
No 36
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=35.07 E-value=26 Score=21.89 Aligned_cols=20 Identities=15% Similarity=0.152 Sum_probs=10.4
Q ss_pred hhHhHhhhcCceEEEeccCC
Q 032787 96 RYLNRLRYLGYYFLDLSARG 115 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARG 115 (133)
..+++|+.+|+....+|.+.
T Consensus 31 ~~l~~l~~~g~~i~ivS~~~ 50 (139)
T cd01427 31 EALKELKEKGIKLALATNKS 50 (139)
T ss_pred HHHHHHHHCCCeEEEEeCch
Confidence 34455555555555555544
No 37
>PF05822 UMPH-1: Pyrimidine 5'-nucleotidase (UMPH-1); InterPro: IPR006434 This family is a small group of metazoan sequences with sequences from Arabidopsis thaliana (Mouse-ear cress) and rice. The sequences represent pyrimidine 5-nucleotidases, apparently in reference to HSPC233, the Homo sapiens (Human) homologue []. The structure of mouse sequence has been reported []. This group of sequences was originally found during searches for members of the haloacid dehalogenase (HAD) superfamily (IPR005834 from INTERPRO). All of the conserved catalytic motifs [] are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches of that subfamily (IA-ID) as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.; GO: 0000287 magnesium ion binding, 0008253 5'-nucleotidase activity, 0005737 cytoplasm; PDB: 2BDU_B 2G07_A 2G06_A 2G0A_A 2Q4T_A 2G09_A 2G08_A 2VKQ_A 2CN1_A 2JGA_A.
Probab=34.54 E-value=17 Score=30.34 Aligned_cols=36 Identities=25% Similarity=0.306 Sum_probs=26.0
Q ss_pred hHhHhhhcCceEEEeccCCCCChhhhhhhcCCCCCCC
Q 032787 97 YLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVS 133 (133)
Q Consensus 97 y~RRLRa~GY~~~~~SARGLGDpeayLt~vHGVRPPH 133 (133)
+.+.|...+--++..|| ||||.-....+.+|+-||.
T Consensus 98 ~f~~L~~~~IP~lIFSA-GlgdvI~~vL~q~~~~~~N 133 (246)
T PF05822_consen 98 FFDKLEEHNIPLLIFSA-GLGDVIEEVLRQAGVFHPN 133 (246)
T ss_dssp HHHHHHCTT--EEEEEE-EEHHHHHHHHHHTT--BTT
T ss_pred HHHHHHhcCCCEEEEeC-CcHHHHHHHHHHcCCCCCC
Confidence 56778888888999997 9999988777777887763
No 38
>PRK00726 murG undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional
Probab=33.57 E-value=69 Score=24.97 Aligned_cols=29 Identities=21% Similarity=0.191 Sum_probs=16.9
Q ss_pred EecCCCCCchh---hhHhHhhhcCceEEEecc
Q 032787 85 IYTPHEGGYEG---RYLNRLRYLGYYFLDLSA 113 (133)
Q Consensus 85 iy~PlEGG~EG---Ry~RRLRa~GY~~~~~SA 113 (133)
|.+--+||+|. -..+.|+.+||....++.
T Consensus 6 i~~~g~gG~~~~~~~la~~L~~~g~ev~vv~~ 37 (357)
T PRK00726 6 LAGGGTGGHVFPALALAEELKKRGWEVLYLGT 37 (357)
T ss_pred EEcCcchHhhhHHHHHHHHHHhCCCEEEEEEC
Confidence 34444566666 345566666776666655
No 39
>PF08235 LNS2: LNS2 (Lipin/Ned1/Smp2); InterPro: IPR013209 This domain is found in Saccharomyces cerevisiae (Baker's yeast) protein SMP2, proteins with an N-terminal lipin domain (IPR007651 from INTERPRO) and phosphatidylinositol transfer proteins []. SMP2 is involved in plasmid maintenance and respiration []. Lipin proteins are involved in adipose tissue development and insulin resistance [].
Probab=32.86 E-value=27 Score=27.20 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.8
Q ss_pred hHhHhhhcCceEEEeccCCCCChh
Q 032787 97 YLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 97 y~RRLRa~GY~~~~~SARGLGDpe 120 (133)
..+++..+||..+.+|||-++.-.
T Consensus 35 l~~~i~~~GY~ilYlTaRp~~qa~ 58 (157)
T PF08235_consen 35 LYRKIADNGYKILYLTARPIGQAN 58 (157)
T ss_pred HHHHHHHCCeEEEEECcCcHHHHH
Confidence 468899999999999999987654
No 40
>COG3547 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=31.96 E-value=59 Score=24.97 Aligned_cols=43 Identities=26% Similarity=0.222 Sum_probs=33.7
Q ss_pred ccc--ChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEecc
Q 032787 66 LKP--DLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSA 113 (133)
Q Consensus 66 ~~~--d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SA 113 (133)
.+| |...|.++.+ ++-+.-+- +|+-+..+.|++.||.+..+.+
T Consensus 22 ~~~~~~~~~~~~~~~---~~v~~Ea~--~~~~~~~~~l~~~g~~v~~i~p 66 (303)
T COG3547 22 LKFANDAAGFERLPE---CIVGIEAT--GYSENLARYLRAEGYPVRLINP 66 (303)
T ss_pred HHHHhHHHHHHhhhc---cEEEEcCC--chHHHHHHHHHHcCCeeEEECH
Confidence 455 6667777777 55555555 9999999999999999998874
No 41
>PF06941 NT5C: 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); InterPro: IPR010708 This family consists of several 5' nucleotidase, deoxy (Pyrimidine), and cytosolic type C (NT5C) proteins. 5'(3')-deoxyribonucleotidase is a ubiquitous enzyme in mammalian cells whose physiological function is not known [].; GO: 0016791 phosphatase activity; PDB: 1Z4M_A 1Q92_A 1Q91_A 1Z4J_A 1Z4I_A 1Z4Q_A 1Z4K_A 2JAW_A 1MH9_A 1Z4L_A ....
Probab=30.62 E-value=31 Score=25.51 Aligned_cols=43 Identities=26% Similarity=0.219 Sum_probs=28.9
Q ss_pred HHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCCh
Q 032787 75 SDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 75 rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDp 119 (133)
+-+++.+-.+=..|.+|-.| .+++|...||+-+.+|+|-...+
T Consensus 61 ~~~~~~~~f~~l~p~~gA~e--~l~~L~~~g~~~~~Itar~~~~~ 103 (191)
T PF06941_consen 61 RFYEEPGFFSNLPPIPGAVE--ALKKLRDKGHEIVIITARPPEFP 103 (191)
T ss_dssp HHHTSTTTTTT--B-TTHHH--HHHHHHTSTTEEEEEEE-SSSSG
T ss_pred HHHhChhhhcCCCccHHHHH--HHHHHHHcCCcEEEEEecCcccc
Confidence 33455554445578898666 79999999999999999877654
No 42
>TIGR03368 cellulose_yhjU cellulose synthase operon protein YhjU. This protein was identified by the partial phylogenetic profiling algorithm (PubMed:16930487) as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation (PubMed:11929533).
Probab=30.44 E-value=40 Score=31.42 Aligned_cols=25 Identities=28% Similarity=0.658 Sum_probs=21.5
Q ss_pred ChhhHHHHHHhcc--eeEEecCCCCCc
Q 032787 69 DLGRWLSDVEKHK--AIAIYTPHEGGY 93 (133)
Q Consensus 69 d~~~f~rDlEk~g--aLaiy~PlEGG~ 93 (133)
|++.|+..|||+| ++=|++|--|+.
T Consensus 381 dld~F~~~le~SgR~vvVv~VPEHGAA 407 (518)
T TIGR03368 381 DLDRFFDELEKSGRKVVVVLVPEHGAA 407 (518)
T ss_pred HHHHHHHHHHHcCCcEEEEEecCcchh
Confidence 8999999999998 677888877765
No 43
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=29.25 E-value=94 Score=24.18 Aligned_cols=54 Identities=11% Similarity=0.123 Sum_probs=42.0
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhh
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPET 121 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpea 121 (133)
.|+...++.+.+.++=+|+...-+..-....+.++.+||....+..=++.+++.
T Consensus 186 ~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 239 (362)
T cd06343 186 PDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPTFLLSSVSASVAS 239 (362)
T ss_pred ccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEEEEecccccHH
Confidence 467788889999999999998888777789999999999754444445555554
No 44
>TIGR00046 RNA methyltransferase, RsmE family. Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
Probab=29.01 E-value=80 Score=24.92 Aligned_cols=34 Identities=26% Similarity=0.397 Sum_probs=30.0
Q ss_pred ceeEEecCCCCCchhhhHhHhhhcCceEEEeccC
Q 032787 81 KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (133)
Q Consensus 81 gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SAR 114 (133)
+.+.+.+=+||||.-+=..-|+.+|+.++.+.-|
T Consensus 185 ~~v~~~IGPEGGfs~~Ei~~~~~~gf~~vsLG~r 218 (240)
T TIGR00046 185 GNIVIIIGPEGGFSEKEIQLLKEKGFTPVLLGPR 218 (240)
T ss_pred CcEEEEECCCCCCCHHHHHHHHHCCCEEEccCCc
Confidence 4699999999999999999999999999887654
No 45
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.95 E-value=69 Score=26.16 Aligned_cols=39 Identities=21% Similarity=0.354 Sum_probs=33.1
Q ss_pred HHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccC
Q 032787 76 DVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (133)
Q Consensus 76 DlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SAR 114 (133)
.....+.+.|..=+|||+.-.=...|+.+|+..+.+.-|
T Consensus 187 ~~~~~~~i~iiIGPEGGfs~~Ei~~l~~~g~~~v~LGpr 225 (246)
T COG1385 187 EALPEGKVLLIIGPEGGFSEDEIELLREAGFTPVSLGPR 225 (246)
T ss_pred hcccCCcEEEEECCCCCCCHHHHHHHHHCCCeEeccCCc
Confidence 345678999999999999999999999999888776544
No 46
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=28.90 E-value=1.1e+02 Score=23.62 Aligned_cols=53 Identities=25% Similarity=0.327 Sum_probs=44.7
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChh
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
-|+...++.+.++|+=+|+.-..++.-....+-++..|+....++.-++.+++
T Consensus 179 ~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 231 (344)
T cd06348 179 TDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGLIVGGNGFNTPN 231 (344)
T ss_pred CCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCceeccccccCHH
Confidence 47788899999999999998888877778899999999998777776777765
No 47
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=28.39 E-value=1.4e+02 Score=24.17 Aligned_cols=60 Identities=12% Similarity=0.052 Sum_probs=48.1
Q ss_pred ccccccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEE--eccCCCC
Q 032787 57 IGDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLD--LSARGLG 117 (133)
Q Consensus 57 ~~d~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~--~SARGLG 117 (133)
+-..+=||+.--+.-.|++.+=+.=-|-.+.||-+=-..-+. ++-+.|+++++ ++|.||+
T Consensus 86 v~~vv~GdI~s~~qr~~~e~vc~~~gl~~~~PLW~~d~~~l~-e~i~~Gf~aiIv~v~~~gL~ 147 (222)
T TIGR00289 86 VEALCIGAIESNYQKSRIDKVCRELGLKSIAPLWHADPEKLM-YEVAEKFEVIIVSVSAMGLD 147 (222)
T ss_pred CCEEEECccccHHHHHHHHHHHHHcCCEEeccccCCCHHHHH-HHHHcCCeEEEEEEccCCCC
Confidence 555677888888888999888777778899999987665565 78899999999 5567777
No 48
>PF12697 Abhydrolase_6: Alpha/beta hydrolase family; PDB: 3LLC_A 3A2N_E 3A2M_A 3A2L_A 3AFI_F 3C5V_A 3C5W_P 3E0X_A 2ZJF_A 3QYJ_A ....
Probab=27.50 E-value=73 Score=21.04 Aligned_cols=23 Identities=22% Similarity=0.361 Sum_probs=19.4
Q ss_pred hhHhHhhhcCceEEEeccCCCCCh
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDP 119 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDp 119 (133)
.+.++| ++||.++.+..||.|.-
T Consensus 16 ~~~~~l-~~~~~v~~~d~~G~G~s 38 (228)
T PF12697_consen 16 PLAEAL-ARGYRVIAFDLPGHGRS 38 (228)
T ss_dssp HHHHHH-HTTSEEEEEECTTSTTS
T ss_pred HHHHHH-hCCCEEEEEecCCcccc
Confidence 467788 58999999999999863
No 49
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=27.34 E-value=62 Score=27.71 Aligned_cols=45 Identities=20% Similarity=0.378 Sum_probs=31.2
Q ss_pred cCcccccChhhHHHHHHhcceeEEe-cCCCCCchhhhHhHhhhcCce
Q 032787 62 GGDLLKPDLGRWLSDVEKHKAIAIY-TPHEGGYEGRYLNRLRYLGYY 107 (133)
Q Consensus 62 ggdl~~~d~~~f~rDlEk~gaLaiy-~PlEGG~EGRy~RRLRa~GY~ 107 (133)
+.|-.+ |++.|+++|.+.|.-+|- -|.-|-..|+|+.-|...|..
T Consensus 90 atDP~~-~~~~fl~~lk~~Gf~GV~NfPTvgliDG~fR~~LEe~Gmg 135 (268)
T PF09370_consen 90 ATDPFR-DMDRFLDELKELGFSGVQNFPTVGLIDGQFRQNLEETGMG 135 (268)
T ss_dssp TT-TT---HHHHHHHHHHHT-SEEEE-S-GGG--HHHHHHHHHTT--
T ss_pred CcCCCC-cHHHHHHHHHHhCCceEEECCcceeeccHHHHHHHhcCCC
Confidence 456664 999999999999999984 488899999999999988764
No 50
>PLN02511 hydrolase
Probab=26.66 E-value=95 Score=25.74 Aligned_cols=41 Identities=27% Similarity=0.505 Sum_probs=30.0
Q ss_pred cceeEEecC-CCCCchhhhH----hHhhhcCceEEEeccCCCCChh
Q 032787 80 HKAIAIYTP-HEGGYEGRYL----NRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 80 ~gaLaiy~P-lEGG~EGRy~----RRLRa~GY~~~~~SARGLGDpe 120 (133)
.+.+-|+.+ ++|+.+..|. ..|...||+.+.+-.||.|+-+
T Consensus 99 ~~p~vvllHG~~g~s~~~y~~~~~~~~~~~g~~vv~~d~rG~G~s~ 144 (388)
T PLN02511 99 DAPVLILLPGLTGGSDDSYVRHMLLRARSKGWRVVVFNSRGCADSP 144 (388)
T ss_pred CCCEEEEECCCCCCCCCHHHHHHHHHHHHCCCEEEEEecCCCCCCC
Confidence 344566665 7788765554 4456899999999999999754
No 51
>PRK10976 putative hydrolase; Provisional
Probab=26.33 E-value=51 Score=24.96 Aligned_cols=31 Identities=19% Similarity=0.102 Sum_probs=25.8
Q ss_pred hhHhHhhhcCceEEEeccCCCCChhhhhhhc
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKV 126 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDpeayLt~v 126 (133)
+-+++|+.+|+.+...|.|.+-....++.++
T Consensus 26 ~ai~~l~~~G~~~~iaTGR~~~~~~~~~~~l 56 (266)
T PRK10976 26 ETLKLLTARGIHFVFATGRHHVDVGQIRDNL 56 (266)
T ss_pred HHHHHHHHCCCEEEEEcCCChHHHHHHHHhc
Confidence 5578999999999999999998877766543
No 52
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=26.22 E-value=88 Score=24.88 Aligned_cols=40 Identities=13% Similarity=0.324 Sum_probs=35.7
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCce
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYY 107 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~ 107 (133)
.|....++.|.++++=+||....++....+.+-+|..||.
T Consensus 176 ~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 176 TDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred HhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 4788888999999999999988888778999999999996
No 53
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=26.10 E-value=1.2e+02 Score=23.98 Aligned_cols=80 Identities=16% Similarity=0.146 Sum_probs=56.0
Q ss_pred cceeeEEeecCCCccccccc----------ccCccc--------ccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhh
Q 032787 41 SKRVGVTNCSGNSGIEIGDF----------IGGDLL--------KPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLR 102 (133)
Q Consensus 41 ~~~~~~v~c~g~~~~~~~d~----------iggdl~--------~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLR 102 (133)
.|++.++......|.++.+. .|+.++ ..|....++.++++|+=+|+...-+.--....+-+|
T Consensus 145 ~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~ 224 (357)
T cd06337 145 NKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAA 224 (357)
T ss_pred CceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHH
Confidence 45777776655444433221 356654 246677788899999988998877777778999999
Q ss_pred hcCceEEEec-cCCCCChh
Q 032787 103 YLGYYFLDLS-ARGLGDPE 120 (133)
Q Consensus 103 a~GY~~~~~S-ARGLGDpe 120 (133)
..||....++ .-++++++
T Consensus 225 ~~G~~~~~~~~~~~~~~~~ 243 (357)
T cd06337 225 QAGFKPKIVTIAKALLFPE 243 (357)
T ss_pred HCCCCCCeEEEeccccCHH
Confidence 9999866665 45666654
No 54
>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]
Probab=25.84 E-value=1.3e+02 Score=26.10 Aligned_cols=60 Identities=23% Similarity=0.305 Sum_probs=46.2
Q ss_pred cCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 62 GGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 62 ggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
|.=|++-||...++-+.+.+---|=..--|=.-.|+...|+.+|+.=+++|---| |||.|
T Consensus 68 GEPllR~dl~eIi~~l~~~~~~~islTTNG~~L~~~a~~Lk~AGl~rVNVSLDsl-d~e~f 127 (322)
T COG2896 68 GEPLLRKDLDEIIARLARLGIRDLSLTTNGVLLARRAADLKEAGLDRVNVSLDSL-DPEKF 127 (322)
T ss_pred CCchhhcCHHHHHHHHhhcccceEEEecchhhHHHHHHHHHHcCCcEEEeecccC-CHHHH
Confidence 4569999999999999987433333334455567999999999999999998766 66665
No 55
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=25.80 E-value=36 Score=23.87 Aligned_cols=41 Identities=32% Similarity=0.533 Sum_probs=33.3
Q ss_pred cccccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCC
Q 032787 58 GDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARG 115 (133)
Q Consensus 58 ~d~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARG 115 (133)
++|+-|+-+.--||-++.++.|+ ..+||..||.....-.||
T Consensus 17 ~~~~SGe~La~~LgiSRtaVwK~-----------------Iq~Lr~~G~~I~s~~~kG 57 (79)
T COG1654 17 GNFVSGEKLAEELGISRTAVWKH-----------------IQQLREEGVDIESVRGKG 57 (79)
T ss_pred CCcccHHHHHHHHCccHHHHHHH-----------------HHHHHHhCCceEecCCCc
Confidence 35788888888888888888874 789999999988776666
No 56
>PF14178 YppF: YppF-like protein
Probab=24.02 E-value=35 Score=23.65 Aligned_cols=24 Identities=17% Similarity=0.436 Sum_probs=18.5
Q ss_pred cccCcccccChhhHHHHHHhccee
Q 032787 60 FIGGDLLKPDLGRWLSDVEKHKAI 83 (133)
Q Consensus 60 ~iggdl~~~d~~~f~rDlEk~gaL 83 (133)
||=|++---|--..+|+||+.||.
T Consensus 32 Yi~gei~i~eYR~lvreLE~~GA~ 55 (60)
T PF14178_consen 32 YIQGEISINEYRNLVRELEANGAV 55 (60)
T ss_pred HHhCcccHHHHHHHHHHHHHhCCC
Confidence 456666666677889999999984
No 57
>PF14516 AAA_35: AAA-like domain
Probab=23.94 E-value=1.9e+02 Score=23.82 Aligned_cols=47 Identities=23% Similarity=0.407 Sum_probs=38.3
Q ss_pred hHHHHHHhccee-EEecCCCCCchh---hhHhHhhhcCceEEEeccCCCCC
Q 032787 72 RWLSDVEKHKAI-AIYTPHEGGYEG---RYLNRLRYLGYYFLDLSARGLGD 118 (133)
Q Consensus 72 ~f~rDlEk~gaL-aiy~PlEGG~EG---Ry~RRLRa~GY~~~~~SARGLGD 118 (133)
...+.|++.|++ .|++|--=|--. |.+++|+..||.+..++-..+|+
T Consensus 22 ~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~ 72 (331)
T PF14516_consen 22 ECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGS 72 (331)
T ss_pred HHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCC
Confidence 456678886765 899999877543 77889999999999999999875
No 58
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=23.23 E-value=2.1e+02 Score=22.68 Aligned_cols=36 Identities=22% Similarity=0.229 Sum_probs=22.7
Q ss_pred HHHHHh-cceeEEecCCCCC--ch--hhhHhHhhhcCceEE
Q 032787 74 LSDVEK-HKAIAIYTPHEGG--YE--GRYLNRLRYLGYYFL 109 (133)
Q Consensus 74 ~rDlEk-~gaLaiy~PlEGG--~E--GRy~RRLRa~GY~~~ 109 (133)
++.|.+ .+..+|.--+|-. .+ .++.+.|+.+|+..+
T Consensus 106 L~~L~~~~pv~~V~GNHD~~~~~~~~~~~~~~l~~~gi~lL 146 (271)
T PRK11340 106 LSPLAECAPTFACFGNHDRPVGTEKNHLIGETLKSAGITVL 146 (271)
T ss_pred HHHHhhcCCEEEecCCCCcccCccchHHHHHHHHhcCcEEe
Confidence 455543 3566676667632 12 257888999998766
No 59
>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit. This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.
Probab=23.07 E-value=1.1e+02 Score=25.22 Aligned_cols=61 Identities=26% Similarity=0.273 Sum_probs=36.2
Q ss_pred cccCccc--ccCh-hhHHHHHHhcc---eeEEecCCC-------CC-chhhhHhHhhhcCceEEEeccCCCCChh
Q 032787 60 FIGGDLL--KPDL-GRWLSDVEKHK---AIAIYTPHE-------GG-YEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 60 ~iggdl~--~~d~-~~f~rDlEk~g---aLaiy~PlE-------GG-~EGRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
|.||+.- .+|. -.+++.+.+.+ .+-.++|.| -| -.--.+++|+.+|...+..+..-..|++
T Consensus 92 l~gG~~p~~~~~~~~~i~~~Ik~~~~~i~~~~~t~~ei~~~~~~~g~~~~e~l~~LkeAGl~~i~~~~~E~~~~~ 166 (343)
T TIGR03551 92 IQGGIHPDLDGDFYLDILRAVKEEVPGMHIHAFSPMEVYYGARNSGLSVEEALKRLKEAGLDSMPGTAAEILDDE 166 (343)
T ss_pred EEeCCCCCCCHHHHHHHHHHHHHHCCCceEEecCHHHHHHHHHHcCCCHHHHHHHHHHhCcccccCcchhhcCHH
Confidence 3455432 3442 57788887764 233345544 23 2345789999999998874444455554
No 60
>cd03817 GT1_UGDG_like This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-diacylglycerol forming 3-D-glucosyl-1,2-diacylglycerol.
Probab=21.93 E-value=97 Score=22.37 Aligned_cols=31 Identities=16% Similarity=0.161 Sum_probs=23.6
Q ss_pred EecCCCCCchhhh---HhHhhhcCceEEEeccCC
Q 032787 85 IYTPHEGGYEGRY---LNRLRYLGYYFLDLSARG 115 (133)
Q Consensus 85 iy~PlEGG~EGRy---~RRLRa~GY~~~~~SARG 115 (133)
.|.|.-||.+.+. ...|..+||....++...
T Consensus 8 ~~~p~~~G~~~~~~~l~~~L~~~g~~v~v~~~~~ 41 (374)
T cd03817 8 TYLPQVNGVATSIRRLAEELEKRGHEVYVVAPSY 41 (374)
T ss_pred hccCCCCCeehHHHHHHHHHHHcCCeEEEEeCCC
Confidence 3678889988884 467778999988876544
No 61
>PF01366 PRTP: Herpesvirus processing and transport protein; InterPro: IPR000501 The members of this family are associated with capsid intermediates during packaging of dsDNA viruses with no RNA stage in their replication cycle []. The protein may affect translocation of the virus glycoproteins to membranes, and is involved in capsid maturation.; GO: 0008565 protein transporter activity, 0016485 protein processing, 0019069 viral capsid assembly
Probab=21.90 E-value=44 Score=31.42 Aligned_cols=52 Identities=35% Similarity=0.496 Sum_probs=41.3
Q ss_pred ccccCcccccChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccC----CCCChhhhhhhcCCCCC
Q 032787 59 DFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR----GLGDPETTLTKVYPVCP 131 (133)
Q Consensus 59 d~iggdl~~~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SAR----GLGDpeayLt~vHGVRP 131 (133)
+|-||.-|..+| .|+.|+|.. |+...|-++.+|+. +|.+...||.+..|+.|
T Consensus 120 ~fYgg~~v~v~L-~~lNDvE~f--------------------LkqLN~v~~~~~~~~al~~l~~v~~fL~~~~Gisp 175 (638)
T PF01366_consen 120 QFYGGCTVDVEL-CFLNDVENF--------------------LKQLNYVFYCTSAESALEALERVLEFLGKLRGISP 175 (638)
T ss_pred EecCCceeeeee-hhHHHHHHH--------------------HHHhceeeEEcCHHHHHHHHHHHHHHHHHhcCCCC
Confidence 688888888877 599999953 55557888888764 58899999999999877
No 62
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=21.85 E-value=64 Score=24.70 Aligned_cols=31 Identities=19% Similarity=0.117 Sum_probs=25.6
Q ss_pred hhHhHhhhcCceEEEeccCCCCChhhhhhhc
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKV 126 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDpeayLt~v 126 (133)
.-+++|+.+|..+...|.|.+-+...++.++
T Consensus 26 ~ai~~l~~~G~~~~iaTGR~~~~~~~~~~~l 56 (272)
T PRK15126 26 STLARLRERDITLTFATGRHVLEMQHILGAL 56 (272)
T ss_pred HHHHHHHHCCCEEEEECCCCHHHHHHHHHHc
Confidence 3578899999999999999988877776554
No 63
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=21.41 E-value=1.7e+02 Score=23.75 Aligned_cols=54 Identities=17% Similarity=0.195 Sum_probs=48.3
Q ss_pred ChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChhhh
Q 032787 69 DLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (133)
Q Consensus 69 d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpeay 122 (133)
|+...+..+.++++=+||...-+.--+-..|-+|.+||....++.=+++.++..
T Consensus 191 ~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~~~~~~~~~~~~~~ 244 (366)
T COG0683 191 DFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAKLIGGDGAGTAEFE 244 (366)
T ss_pred ChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCccccccccCchhhh
Confidence 588899999999999999999998899999999999999999998888886654
No 64
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=21.35 E-value=74 Score=23.85 Aligned_cols=31 Identities=19% Similarity=0.177 Sum_probs=25.7
Q ss_pred hhHhHhhhcCceEEEeccCCCCChhhhhhhc
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKV 126 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDpeayLt~v 126 (133)
.-+++|+.+|+.+...|.|..-+...++.+.
T Consensus 27 ~ai~~~~~~G~~~~iaTGR~~~~~~~~~~~l 57 (272)
T PRK10530 27 EALARAREAGYKVIIVTGRHHVAIHPFYQAL 57 (272)
T ss_pred HHHHHHHHCCCEEEEEcCCChHHHHHHHHhc
Confidence 4578899999999999999988877776554
No 65
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=21.15 E-value=1.3e+02 Score=23.77 Aligned_cols=40 Identities=13% Similarity=0.267 Sum_probs=35.3
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCce
Q 032787 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYY 107 (133)
Q Consensus 68 ~d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~ 107 (133)
-|....+..|.+.++=+|+....+..-..+.+-+|..||.
T Consensus 175 ~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 175 TDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred hhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 3677788899999999999998888888899999999996
No 66
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=20.63 E-value=1.9e+02 Score=21.72 Aligned_cols=52 Identities=21% Similarity=0.262 Sum_probs=35.8
Q ss_pred ChhhHHHHHHhcceeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCChh
Q 032787 69 DLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 69 d~~~f~rDlEk~gaLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
|...-++++.+.++=+|+....+..-...++-+++.|+....++.=+.++++
T Consensus 179 d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~i~~~~~~~~~~ 230 (334)
T cd06347 179 DFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKVPILGGDGWDSPK 230 (334)
T ss_pred cHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCCcEEecccccCHH
Confidence 5555667777777777887776665555677788888876666555566655
No 67
>PRK14581 hmsF outer membrane N-deacetylase; Provisional
Probab=20.51 E-value=1.6e+02 Score=27.95 Aligned_cols=46 Identities=20% Similarity=0.230 Sum_probs=36.3
Q ss_pred HHHHHHhcc--eeEEecCCCCCchhhhHhHhhhcCceEEEeccCCCCC
Q 032787 73 WLSDVEKHK--AIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGD 118 (133)
Q Consensus 73 f~rDlEk~g--aLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARGLGD 118 (133)
-.+.||+.. ..-+|+++-|-|-.+-.+-++.+||....++.+|+.+
T Consensus 233 s~~~Ie~~lG~~p~~FayPyG~yn~~~~~iak~aGy~~afTt~~G~~~ 280 (672)
T PRK14581 233 ITQRIVQATGKQPRVWVWPYGAPNGTVLNILRQHGYQLAMTLDPGVAN 280 (672)
T ss_pred HHHHHHHHhCCCCCEEEcCCCCcCHHHHHHHHHCCCcEEEECCCCCCC
Confidence 334444432 4567999999999999999999999999999999754
No 68
>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=20.51 E-value=92 Score=22.96 Aligned_cols=24 Identities=42% Similarity=0.562 Sum_probs=18.2
Q ss_pred hhhHhHhhhcCceEEEeccCCCCChh
Q 032787 95 GRYLNRLRYLGYYFLDLSARGLGDPE 120 (133)
Q Consensus 95 GRy~RRLRa~GY~~~~~SARGLGDpe 120 (133)
++..+.||..||.|+... .+.|-+
T Consensus 10 ~~Lar~LR~lG~Dt~~~~--~~~D~~ 33 (147)
T PF01927_consen 10 GRLARWLRLLGYDTLYSR--DIDDDE 33 (147)
T ss_pred HHHHHHHHHCCCcEEEeC--CCChHH
Confidence 678899999999998655 555544
No 69
>PF02645 DegV: Uncharacterised protein, DegV family COG1307; InterPro: IPR003797 This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each other than to most homologs from other species. This suggests both recent paralogy and diversity of function.; PDB: 2DT8_A 3LUP_A 3NYI_B 3PL5_A 1PZX_B 1MGP_A 1VPV_B 3FYS_A 3EGL_C 3JR7_A ....
Probab=20.40 E-value=1.5e+02 Score=23.54 Aligned_cols=47 Identities=17% Similarity=0.290 Sum_probs=33.4
Q ss_pred cccccChhhHHHHHHhcceeE-EecCCCCCchhhhHhHhhhcCce-EEEe
Q 032787 64 DLLKPDLGRWLSDVEKHKAIA-IYTPHEGGYEGRYLNRLRYLGYY-FLDL 111 (133)
Q Consensus 64 dl~~~d~~~f~rDlEk~gaLa-iy~PlEGG~EGRy~RRLRa~GY~-~~~~ 111 (133)
|-+.+|.+.|.+.+++.+.+. -=.|..+=++--|.+ |..+||. .+.+
T Consensus 38 D~~~i~~~efy~~l~~~~~~p~TS~ps~~~~~~~f~~-~~~~gyd~ii~i 86 (280)
T PF02645_consen 38 DGVDISPEEFYEKLRESGEIPKTSQPSPGEFEEAFEK-LLEEGYDEIIVI 86 (280)
T ss_dssp TTTTSCHHHHHHHHHHTTSEEEEE---HHHHHHHHHH-HHHTTTSEEEEE
T ss_pred cCCCCCHHHHHHHHHhcCCCceecCCCHHHHHHHHHH-HHHCCCCeEEEE
Confidence 445789999999999999985 666666777666555 8889998 4433
No 70
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=20.26 E-value=1.8e+02 Score=21.33 Aligned_cols=34 Identities=21% Similarity=0.435 Sum_probs=28.7
Q ss_pred eeEEecCCCCCchhhhHhHhhhcCceEEEeccCC
Q 032787 82 AIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARG 115 (133)
Q Consensus 82 aLaiy~PlEGG~EGRy~RRLRa~GY~~~~~SARG 115 (133)
....|.|+-|-+-.+.++-|+..||..+.-+.-.
T Consensus 97 ~~~~fr~P~G~~~~~~~~~l~~~G~~~v~w~~~~ 130 (191)
T TIGR02764 97 KPTLFRPPSGAFNKAVLKAAESLGYTVVHWSVDS 130 (191)
T ss_pred CCCEEECCCcCCCHHHHHHHHHcCCeEEEecCCC
Confidence 3457899999999999999999999988877643
No 71
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=20.12 E-value=1.1e+02 Score=22.48 Aligned_cols=30 Identities=3% Similarity=-0.095 Sum_probs=25.3
Q ss_pred hhHhHhhhcCceEEEeccCCCCChhhhhhh
Q 032787 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTK 125 (133)
Q Consensus 96 Ry~RRLRa~GY~~~~~SARGLGDpeayLt~ 125 (133)
.-+++|+.+|+.+...|.|-......++.+
T Consensus 25 ~~i~~l~~~g~~~~~~TGR~~~~~~~~~~~ 54 (215)
T TIGR01487 25 EAIRKAEKKGIPVSLVTGNTVPFARALAVL 54 (215)
T ss_pred HHHHHHHHCCCEEEEEcCCcchhHHHHHHH
Confidence 348899999999999999999888777644
Done!