Query 045775
Match_columns 87
No_of_seqs 112 out of 137
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 05:24:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045775.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045775hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0046 Ca2+-binding actin-bun 99.9 1.4E-25 3E-30 189.5 4.3 48 1-48 573-620 (627)
2 COG5069 SAC6 Ca2+-binding acti 98.8 9.8E-10 2.1E-14 93.7 1.5 41 1-41 567-611 (612)
3 smart00033 CH Calponin homolog 98.0 6E-06 1.3E-10 50.9 2.7 41 1-42 62-103 (103)
4 PF00307 CH: Calponin homology 97.7 1.9E-05 4E-10 49.2 2.0 42 2-43 64-107 (108)
5 cd00014 CH Calponin homology d 97.4 8.9E-05 1.9E-09 46.3 2.0 42 1-42 62-105 (107)
6 KOG0046 Ca2+-binding actin-bun 95.1 0.012 2.7E-07 51.3 2.1 40 3-42 325-364 (627)
7 COG3480 SdrC Predicted secrete 63.9 3.4 7.4E-05 34.3 1.0 17 8-24 283-299 (342)
8 PF00381 PTS-HPr: PTS HPr comp 60.6 8.2 0.00018 24.2 2.1 39 3-46 19-57 (84)
9 PF11761 CbiG_mid: Cobalamin b 55.2 8.1 0.00017 23.6 1.4 19 8-27 6-24 (93)
10 TIGR02899 spore_safA spore coa 53.1 7.2 0.00016 20.2 0.8 20 7-30 8-27 (44)
11 PF00582 Usp: Universal stress 51.9 13 0.00028 22.1 1.9 18 3-20 19-36 (140)
12 PF00107 ADH_zinc_N: Zinc-bind 50.3 13 0.00028 23.3 1.8 16 5-20 5-20 (130)
13 PF01476 LysM: LysM domain; I 47.8 11 0.00023 20.3 1.0 21 7-31 10-30 (44)
14 PF00488 MutS_V: MutS domain V 47.6 11 0.00023 28.1 1.3 20 3-27 205-224 (235)
15 cd03285 ABC_MSH2_euk MutS2 hom 45.5 14 0.00031 27.0 1.6 21 2-27 193-213 (222)
16 PRK15118 universal stress glob 44.0 18 0.00039 23.3 1.8 17 4-20 21-37 (144)
17 PRK10116 universal stress prot 41.7 21 0.00045 22.8 1.8 17 4-20 21-37 (142)
18 COG1920 Predicted nucleotidylt 41.5 19 0.00041 28.3 1.8 22 7-28 149-181 (210)
19 PRK15005 universal stress prot 40.9 19 0.00042 22.9 1.5 17 4-20 22-38 (144)
20 cd01988 Na_H_Antiporter_C The 40.6 19 0.00042 22.1 1.5 18 4-21 17-34 (132)
21 PRK09982 universal stress prot 40.3 21 0.00047 23.4 1.7 18 4-21 21-38 (142)
22 KOG0806 Carbon-nitrogen hydrol 39.3 14 0.0003 30.0 0.8 23 3-25 35-57 (298)
23 PRK13781 paaB phenylacetate-Co 38.2 26 0.00056 24.4 1.9 35 2-36 31-72 (95)
24 TIGR02157 PA_CoA_Oxy2 phenylac 38.1 26 0.00057 24.1 1.9 35 2-36 26-67 (90)
25 cd08294 leukotriene_B4_DH_like 35.4 28 0.0006 24.9 1.8 17 4-20 158-174 (329)
26 PF03686 UPF0146: Uncharacteri 35.2 28 0.00061 25.1 1.8 18 4-21 85-102 (127)
27 PRK04148 hypothetical protein; 32.9 29 0.00063 24.7 1.5 18 4-21 92-109 (134)
28 COG1255 Uncharacterized protei 31.3 32 0.00069 25.3 1.5 18 4-21 85-102 (129)
29 TIGR00330 glpX fructose-1,6-bi 31.0 34 0.00074 28.3 1.8 21 5-25 168-189 (321)
30 TIGR02825 B4_12hDH leukotriene 30.6 34 0.00074 24.9 1.6 17 4-20 153-169 (325)
31 PF07085 DRTGG: DRTGG domain; 29.5 51 0.0011 21.0 2.1 24 4-27 75-98 (105)
32 PF06821 Ser_hydrolase: Serine 29.0 41 0.0009 23.8 1.8 19 4-22 131-149 (171)
33 PRK11175 universal stress prot 29.0 36 0.00078 24.6 1.5 17 4-20 21-37 (305)
34 cd08274 MDR9 Medium chain dehy 28.9 37 0.0008 24.6 1.6 18 4-21 192-209 (350)
35 PF00682 HMGL-like: HMGL-like 28.9 95 0.0021 22.1 3.6 40 3-42 110-149 (237)
36 TIGR02817 adh_fam_1 zinc-bindi 28.8 40 0.00086 24.3 1.7 17 4-20 163-180 (336)
37 TIGR01003 PTS_HPr_family Phosp 28.6 52 0.0011 20.8 2.0 40 3-47 19-58 (82)
38 PRK12388 fructose-1,6-bisphosp 28.5 40 0.00087 27.9 1.8 21 5-25 168-189 (321)
39 PF08673 RsbU_N: Phosphoserine 28.2 31 0.00067 22.5 0.9 20 19-38 35-54 (77)
40 cd08295 double_bond_reductase_ 28.0 43 0.00092 24.6 1.8 17 4-20 166-182 (338)
41 TIGR01069 mutS2 MutS2 family p 27.8 33 0.00072 30.3 1.3 26 3-33 482-507 (771)
42 cd08292 ETR_like_2 2-enoyl thi 27.7 44 0.00095 23.7 1.7 18 4-21 154-171 (324)
43 PF03465 eRF1_3: eRF1 domain 3 27.4 51 0.0011 22.2 1.9 22 4-25 72-93 (113)
44 cd08269 Zn_ADH9 Alcohol dehydr 27.3 38 0.00083 23.8 1.4 20 3-22 142-162 (312)
45 cd07944 DRE_TIM_HOA_like 4-hyd 26.7 58 0.0013 24.7 2.3 41 2-42 110-150 (266)
46 PRK13782 phosphocarrier protei 26.6 60 0.0013 20.5 2.0 39 4-47 20-58 (82)
47 cd01989 STK_N The N-terminal d 26.4 35 0.00076 21.8 1.0 17 4-20 17-33 (146)
48 cd08288 MDR_yhdh Yhdh putative 25.6 50 0.0011 23.5 1.7 17 4-20 161-177 (324)
49 cd01987 USP_OKCHK USP domain i 25.2 51 0.0011 20.4 1.5 17 4-20 17-33 (124)
50 cd08291 ETR_like_1 2-enoyl thi 25.2 52 0.0011 23.9 1.7 17 4-20 158-174 (324)
51 PRK00409 recombination and DNA 24.9 40 0.00087 29.8 1.3 25 3-32 487-511 (782)
52 cd08244 MDR_enoyl_red Possible 24.7 55 0.0012 23.2 1.8 18 4-21 157-174 (324)
53 PF02348 CTP_transf_3: Cytidyl 24.7 74 0.0016 21.9 2.4 31 6-36 52-82 (217)
54 cd01516 FBPase_glpX Bacterial 24.5 53 0.0011 27.0 1.8 20 5-24 168-188 (309)
55 COG1064 AdhP Zn-dependent alco 24.5 50 0.0011 27.0 1.7 11 10-20 206-216 (339)
56 cd07939 DRE_TIM_NifV Streptomy 24.3 80 0.0017 23.4 2.6 42 2-43 111-152 (259)
57 cd05286 QOR2 Quinone oxidoredu 24.2 55 0.0012 22.4 1.6 17 4-20 151-167 (320)
58 cd07574 nitrilase_Rim1_like Un 24.2 41 0.0009 24.3 1.1 21 4-24 24-44 (280)
59 PF08032 SpoU_sub_bind: RNA 2' 23.9 74 0.0016 18.7 2.0 23 4-26 33-55 (76)
60 COG1916 Uncharacterized homolo 23.8 49 0.0011 28.1 1.6 24 4-27 102-125 (388)
61 COG1494 GlpX Fructose-1,6-bisp 23.4 56 0.0012 27.3 1.8 19 5-23 169-187 (332)
62 cd08270 MDR4 Medium chain dehy 23.3 60 0.0013 22.8 1.8 18 4-21 147-164 (305)
63 cd08261 Zn_ADH7 Alcohol dehydr 23.3 54 0.0012 23.8 1.5 17 4-20 173-189 (337)
64 cd05280 MDR_yhdh_yhfp Yhdh and 23.1 56 0.0012 23.1 1.6 17 4-20 161-177 (325)
65 PF08889 WbqC: WbqC-like prote 23.1 53 0.0011 24.5 1.5 18 4-21 144-161 (219)
66 cd08293 PTGR2 Prostaglandin re 22.8 61 0.0013 23.5 1.8 17 4-20 169-186 (345)
67 cd08243 quinone_oxidoreductase 22.3 60 0.0013 22.7 1.6 17 4-20 157-173 (320)
68 PRK07122 RNA polymerase sigma 22.1 35 0.00075 25.6 0.4 26 2-28 49-74 (264)
69 cd08289 MDR_yhfp_like Yhfp put 21.6 61 0.0013 23.1 1.5 17 4-20 161-177 (326)
70 cd08296 CAD_like Cinnamyl alco 21.4 67 0.0015 23.5 1.7 17 4-20 177-193 (333)
71 PRK12415 fructose 1,6-bisphosp 21.2 67 0.0014 26.5 1.8 21 5-25 169-190 (322)
72 PF15240 Pro-rich: Proline-ric 20.9 96 0.0021 23.7 2.5 21 31-51 2-22 (179)
73 cd08242 MDR_like Medium chain 20.8 65 0.0014 23.1 1.5 17 4-20 169-185 (319)
74 KOG0024 Sorbitol dehydrogenase 20.6 61 0.0013 27.2 1.5 15 6-20 206-220 (354)
75 cd05288 PGDH Prostaglandin deh 20.4 68 0.0015 22.9 1.6 17 4-20 160-176 (329)
76 cd08267 MDR1 Medium chain dehy 20.3 70 0.0015 22.3 1.6 17 4-20 158-174 (319)
77 PF07905 PucR: Purine cataboli 20.2 69 0.0015 21.3 1.5 21 4-24 89-109 (123)
78 cd05285 sorbitol_DH Sorbitol d 20.1 63 0.0014 23.7 1.4 18 3-20 175-193 (343)
79 COG0604 Qor NADPH:quinone redu 20.1 66 0.0014 24.9 1.5 15 4-18 157-171 (326)
80 KOG2380 Prephenate dehydrogena 20.1 35 0.00076 29.6 0.0 28 8-35 88-115 (480)
81 cd08297 CAD3 Cinnamyl alcohol 20.0 71 0.0015 23.2 1.6 18 3-20 179-196 (341)
No 1
>KOG0046 consensus Ca2+-binding actin-bundling protein (fimbrin/plastin), EF-Hand protein superfamily [Cytoskeleton]
Probab=99.91 E-value=1.4e-25 Score=189.47 Aligned_cols=48 Identities=58% Similarity=0.937 Sum_probs=46.4
Q ss_pred CCchhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHHhhcCCc
Q 045775 1 MNATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHWFMKQPV 48 (87)
Q Consensus 1 ~NAkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~~~~~~~ 48 (87)
+||||||||||||||+||+|||||||||||||||||||||+|++++..
T Consensus 573 ~NAkYaIS~ARKiGa~IyaLPEDIvEV~pKMvltvfA~lM~~~~~~~~ 620 (627)
T KOG0046|consen 573 LNAKYAISVARKLGASIYALPEDIVEVNPKMVLTVFASLMAWSLQRQS 620 (627)
T ss_pred hcchhhHhHHHhhCceEEeccHHHhhhchhhhHHHHHHHHHhcccccc
Confidence 599999999999999999999999999999999999999999999874
No 2
>COG5069 SAC6 Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
Probab=98.83 E-value=9.8e-10 Score=93.72 Aligned_cols=41 Identities=44% Similarity=0.657 Sum_probs=39.7
Q ss_pred CCch-hhhh--hhhhhcceEEecchhhhhhchhh-hHHHHHHHHH
Q 045775 1 MNAT-YIIS--IARKLGCSIFLLPEDITEVNQKM-ILTLTASIMH 41 (87)
Q Consensus 1 ~NAk-yaIS--iARKlGa~IfllpEDIveVk~KM-imT~~AsLM~ 41 (87)
+||| |+|| ++||+||.||+|||||+.|||++ |+|||+|||+
T Consensus 567 ad~rsl~is~~ilRs~~aii~~lpe~in~~r~~Ldvltfi~slma 611 (612)
T COG5069 567 ADARSLAISSKILRSLGAIIKFLPEDINGVRPRLDVLTFIESLMA 611 (612)
T ss_pred hhhhhhhccHHHHHHhhhHheechhhhcccCccchHHHHHHHHhc
Confidence 4899 9999 99999999999999999999999 9999999996
No 3
>smart00033 CH Calponin homology domain. Actin binding domains present in duplicate at the N-termini of spectrin-like proteins (including dystrophin, alpha-actinin). These domains cross-link actin filaments into bundles and networks. A calponin homology domain is predicted in yeasst Cdc24p.
Probab=97.98 E-value=6e-06 Score=50.92 Aligned_cols=41 Identities=34% Similarity=0.497 Sum_probs=36.8
Q ss_pred CCchhhhhhhhhhcc-eEEecchhhhhhchhhhHHHHHHHHHH
Q 045775 1 MNATYIISIARKLGC-SIFLLPEDITEVNQKMILTLTASIMHW 42 (87)
Q Consensus 1 ~NAkyaISiARKlGa-~IfllpEDIveVk~KMimT~~AsLM~~ 42 (87)
.|..++++.++++|. .+.+-||||++.+ |+++.++.+||.+
T Consensus 62 ~Ni~~~l~~~~~~g~~~~~~~~~Dl~~~~-k~~~~v~~~l~~~ 103 (103)
T smart00033 62 ENINLALSFAEKLGGKLVLFEPEDLVEGN-KLILGVIWTLILL 103 (103)
T ss_pred HhHHHHHHHHHHcCCeeeccCHHHHhhcc-hHHHHHHHHHHhC
Confidence 488999999999997 5688899999988 9999999999864
No 4
>PF00307 CH: Calponin homology (CH) domain; InterPro: IPR001715 The calponin homology domain (also known as CH-domain) is a superfamily of actin-binding domains found in both cytoskeletal proteins and signal transduction proteins []. It comprises the following groups of actin-binding domains: Actinin-type (including spectrin, fimbrin, ABP-280) (see IPR001589 from INTERPRO). Calponin-type (see IPR000557 from INTERPRO). A comprehensive review of proteins containing this type of actin-binding domains is given in []. The CH domain is involved in actin binding in some members of the family. However in calponins there is evidence that the CH domain is not involved in its actin binding activity []. Most proteins have two copies of the CH domain, however some proteins such as calponin and the human vav proto-oncogene (P15498 from SWISSPROT) have only a single copy. The structure of an example CH-domain has recently been solved []. This entry represents the calponin-homology (CH) domain, a superfamily of actin-binding domains found in cytoskeletal proteins (contain two CH domain in tandem repeat), in regulatory proteins from muscle, and in signal transduction proteins. This domain has a core structure consisting of a 4-helical bundle. This domain is found in: Calponin, which is involved in the regulation of contractility and organisation of the actin cytoskeleton in smooth muscle cells []. Beta-spectrin, a major component of a submembrane cytoskeletal network connecting actin filaments to integral plasma membrane proteins []. The actin-cross-linking domain of the fimbrin/plastin family of actin filament bundling or cross-linking proteins []. Utrophin,a close homologue of dystrophin []. Dystrophin, the protein found to be defective in Duchenne muscular dystrophy; this protein contains a tandem repeat of two CH domains []. Actin-binding domain of plectin, a large and widely expressed cytolinker protein []. The N-terminal microtubule-binding domain of microtubule-associated protein eb1 (end-binding protein), a member of a conserved family of proteins that localise to the plus-ends of microtubules []. Ras GTPase-activating-like protein rng2, an IQGAP protein that is essential for the assembly of an actomyosin ring during cytokinesis []. Transgelin, which suppresses androgen receptor transactivation []. ; GO: 0005515 protein binding; PDB: 2DK9_A 1WYL_A 1WKU_B 1TJT_A 3FER_A 2WA7_A 2WA5_A 2WA6_A 2R0O_A 1PXY_A ....
Probab=97.73 E-value=1.9e-05 Score=49.23 Aligned_cols=42 Identities=29% Similarity=0.523 Sum_probs=37.5
Q ss_pred Cchhhhhhhhh-hcceEEecchhhh-hhchhhhHHHHHHHHHHh
Q 045775 2 NATYIISIARK-LGCSIFLLPEDIT-EVNQKMILTLTASIMHWF 43 (87)
Q Consensus 2 NAkyaISiARK-lGa~IfllpEDIv-eVk~KMimT~~AsLM~~~ 43 (87)
|++++++.+++ +|.....-|+||+ +.+.+.||.++..||.+-
T Consensus 64 Ni~~~l~~~~~~lg~~~~~~~~dl~~~~~~~~vl~~l~~l~~~~ 107 (108)
T PF00307_consen 64 NIELALEAAEKKLGIPPLLSPEDLVEKGDEKSVLSFLWQLFRYF 107 (108)
T ss_dssp HHHHHHHHHHHHTTSSCTS-HHHHHSTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCCCCHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 78999999999 9999999999999 999999999999999763
No 5
>cd00014 CH Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like spectrin, alpha-actinin, dystrophin, utrophin, and fimbrin, proteins essential for regulation of cell shape (cortexillins), and signaling proteins (Vav).
Probab=97.42 E-value=8.9e-05 Score=46.26 Aligned_cols=42 Identities=26% Similarity=0.430 Sum_probs=38.7
Q ss_pred CCchhhhhhhhhhcceEE-ecchhhh-hhchhhhHHHHHHHHHH
Q 045775 1 MNATYIISIARKLGCSIF-LLPEDIT-EVNQKMILTLTASIMHW 42 (87)
Q Consensus 1 ~NAkyaISiARKlGa~If-llpEDIv-eVk~KMimT~~AsLM~~ 42 (87)
.|.++++..++++|.... +-|+||+ +.+.|.||+++.+|+..
T Consensus 62 ~Ni~~~l~~~~~~gi~~~~~~~~Dl~~~~n~~~vl~~l~~l~~~ 105 (107)
T cd00014 62 ENINLALNFAEKLGVPVVNFDAEDLVEDGDEKLVLGLLWSLIRK 105 (107)
T ss_pred HHHHHHHHHHHHcCCceeccCHHHHhhCCCceeeHHHHHHHHHh
Confidence 388999999999999999 8999999 99999999999998864
No 6
>KOG0046 consensus Ca2+-binding actin-bundling protein (fimbrin/plastin), EF-Hand protein superfamily [Cytoskeleton]
Probab=95.14 E-value=0.012 Score=51.33 Aligned_cols=40 Identities=30% Similarity=0.535 Sum_probs=36.5
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHH
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHW 42 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~ 42 (87)
|...+.-|+|+||+=|+.|.|||+.+||+-+-|+|-|+..
T Consensus 325 A~~vLq~Aekl~Cr~~ltp~dvV~G~~kLNLAFVA~lFn~ 364 (627)
T KOG0046|consen 325 AELVLQQAEKLDCRRYLTPTDVVAGNPKLNLAFVANLFNT 364 (627)
T ss_pred HHHHHHHHHhcCCccccCHHHHhcCCchhhHHHHHHhccc
Confidence 5667888999999999999999999999999999988754
No 7
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=63.92 E-value=3.4 Score=34.32 Aligned_cols=17 Identities=35% Similarity=0.647 Sum_probs=14.7
Q ss_pred hhhhhhcceEEecchhh
Q 045775 8 SIARKLGCSIFLLPEDI 24 (87)
Q Consensus 8 SiARKlGa~IfllpEDI 24 (87)
--|||-||.||++|.|=
T Consensus 283 vAA~~AGA~vFf~P~~~ 299 (342)
T COG3480 283 VAAAKAGADVFFVPADN 299 (342)
T ss_pred HHHHhcCCcEEEecCCc
Confidence 45899999999999863
No 8
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=60.57 E-value=8.2 Score=24.15 Aligned_cols=39 Identities=31% Similarity=0.342 Sum_probs=31.1
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHHhhcC
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHWFMKQ 46 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~~~~~ 46 (87)
|.....+|+|++|.|++.-.+ ..|++|=+|-+ |.++.++
T Consensus 19 a~~lv~~a~~~~~~i~i~~~~-~~vdakSil~l----~~L~~~~ 57 (84)
T PF00381_consen 19 AAELVQIASKFDSDITIRKGG-KTVDAKSILGL----MSLGAKK 57 (84)
T ss_dssp HHHHHHHHHTSSSEEEEEETT-EEEETTSHHHH----HHHTBST
T ss_pred HHHHHHHHhhCCCEEEEEeCc-eeEecCCHHHH----hhhhcCC
Confidence 445678999999999999999 89999988754 5555544
No 9
>PF11761 CbiG_mid: Cobalamin biosynthesis central region; InterPro: IPR021745 Members of this family are involved in cobalamin synthesis. The gene encoded by P72862 from SWISSPROT has been designated cbiH but in fact represents a fusion between cbiH and cbiG. As other multi-functional proteins involved in cobalamin biosynthesis catalyse adjacent steps in the pathway, including CysG, CobL (CbiET), CobIJ and CobA-HemD, it is therefore possible that CbiG catalyses a reaction step adjacent to CbiH. In the anaerobic pathway such a step could be the formation of a gamma lactone, which is thought to help to mediate the anaerobic ring contraction process [].
Probab=55.20 E-value=8.1 Score=23.59 Aligned_cols=19 Identities=37% Similarity=0.457 Sum_probs=12.1
Q ss_pred hhhhhhcceEEecchhhhhh
Q 045775 8 SIARKLGCSIFLLPEDITEV 27 (87)
Q Consensus 8 SiARKlGa~IfllpEDIveV 27 (87)
.+||++|++| .=++++..|
T Consensus 6 ~la~~~g~~i-~~~~~~k~v 24 (93)
T PF11761_consen 6 LLARELGWRI-ENREAVKRV 24 (93)
T ss_pred hhhhhCCCEE-cCHHHHHHH
Confidence 4799999999 233444433
No 10
>TIGR02899 spore_safA spore coat assembly protein SafA. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.
Probab=53.10 E-value=7.2 Score=20.24 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=15.1
Q ss_pred hhhhhhhcceEEecchhhhhhchh
Q 045775 7 ISIARKLGCSIFLLPEDITEVNQK 30 (87)
Q Consensus 7 ISiARKlGa~IfllpEDIveVk~K 30 (87)
-++|||.|.. +++|.+.|+.
T Consensus 8 ~~IA~~~~~~----~~~l~~~N~~ 27 (44)
T TIGR02899 8 WKIAKKYGVD----FDELIQANPQ 27 (44)
T ss_pred HHHHHHHCcC----HHHHHHHhhc
Confidence 3689999864 7788887763
No 11
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=51.93 E-value=13 Score=22.13 Aligned_cols=18 Identities=28% Similarity=0.584 Sum_probs=15.0
Q ss_pred chhhhhhhhhhcceEEec
Q 045775 3 ATYIISIARKLGCSIFLL 20 (87)
Q Consensus 3 AkyaISiARKlGa~Ifll 20 (87)
.+|++.+|++.|+.|++|
T Consensus 19 l~~a~~la~~~~~~i~~l 36 (140)
T PF00582_consen 19 LRFALELAKRSGAEITLL 36 (140)
T ss_dssp HHHHHHHHHHHTCEEEEE
T ss_pred HHHHHHHHHhhCCeEEEE
Confidence 368999999999997664
No 12
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=50.32 E-value=13 Score=23.34 Aligned_cols=16 Identities=19% Similarity=0.465 Sum_probs=12.5
Q ss_pred hhhhhhhhhcceEEec
Q 045775 5 YIISIARKLGCSIFLL 20 (87)
Q Consensus 5 yaISiARKlGa~Ifll 20 (87)
+++.+||.+|+.|++.
T Consensus 5 ~a~q~ak~~G~~vi~~ 20 (130)
T PF00107_consen 5 MAIQLAKAMGAKVIAT 20 (130)
T ss_dssp HHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHcCCEEEEE
Confidence 5778888888888765
No 13
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=47.82 E-value=11 Score=20.31 Aligned_cols=21 Identities=29% Similarity=0.597 Sum_probs=15.6
Q ss_pred hhhhhhhcceEEecchhhhhhchhh
Q 045775 7 ISIARKLGCSIFLLPEDITEVNQKM 31 (87)
Q Consensus 7 ISiARKlGa~IfllpEDIveVk~KM 31 (87)
-+||+|.| +-+++|.+.|+++
T Consensus 10 ~~IA~~~~----~~~~~l~~~N~~~ 30 (44)
T PF01476_consen 10 WSIAKRYG----ISVDELMELNPNI 30 (44)
T ss_dssp HHHHHHTT----S-HHHHHHHCCTT
T ss_pred HHHHhhhh----hhHhHHHHhcCCC
Confidence 36888887 6678898888665
No 14
>PF00488 MutS_V: MutS domain V C-terminus.; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....
Probab=47.56 E-value=11 Score=28.12 Aligned_cols=20 Identities=50% Similarity=0.818 Sum_probs=15.9
Q ss_pred chhhhhhhhhhcceEEecchhhhhh
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEV 27 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveV 27 (87)
-.|+|.+||+.| +|++|++-
T Consensus 205 ~S~ai~iA~~~g-----~p~~II~r 224 (235)
T PF00488_consen 205 SSYAIEIAKLAG-----LPEEIIER 224 (235)
T ss_dssp STCHHHHHHHTT-------HHHHHH
T ss_pred CcHHHHHHHHhC-----cCHHHHHH
Confidence 469999999999 79999974
No 15
>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=45.53 E-value=14 Score=27.01 Aligned_cols=21 Identities=19% Similarity=0.510 Sum_probs=18.0
Q ss_pred CchhhhhhhhhhcceEEecchhhhhh
Q 045775 2 NATYIISIARKLGCSIFLLPEDITEV 27 (87)
Q Consensus 2 NAkyaISiARKlGa~IfllpEDIveV 27 (87)
+-.|+|.+||++| +|++|++-
T Consensus 193 ~~s~a~~~a~~~g-----~p~~vi~~ 213 (222)
T cd03285 193 DQSFGIHVAELAN-----FPKEVIEM 213 (222)
T ss_pred CCcHHHHHHHHhC-----cCHHHHHH
Confidence 3579999999999 89999874
No 16
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=44.02 E-value=18 Score=23.29 Aligned_cols=17 Identities=24% Similarity=0.382 Sum_probs=14.9
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.|++++|++.||.|.+|
T Consensus 21 ~~a~~la~~~~a~l~ll 37 (144)
T PRK15118 21 EKAVSMARPYNAKVSLI 37 (144)
T ss_pred HHHHHHHHhhCCEEEEE
Confidence 57888999999999887
No 17
>PRK10116 universal stress protein UspC; Provisional
Probab=41.73 E-value=21 Score=22.77 Aligned_cols=17 Identities=35% Similarity=0.429 Sum_probs=14.9
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
+|++.+|++.|+.+.++
T Consensus 21 ~~A~~lA~~~~a~l~ll 37 (142)
T PRK10116 21 AKAVSIARPVNGKISLI 37 (142)
T ss_pred HHHHHHHHHhCCEEEEE
Confidence 68899999999998876
No 18
>COG1920 Predicted nucleotidyltransferase, CobY/MobA/RfbA family [General function prediction only]
Probab=41.54 E-value=19 Score=28.29 Aligned_cols=22 Identities=36% Similarity=0.540 Sum_probs=18.6
Q ss_pred hhhhhhhcceEEec-----------chhhhhhc
Q 045775 7 ISIARKLGCSIFLL-----------PEDITEVN 28 (87)
Q Consensus 7 ISiARKlGa~Ifll-----------pEDIveVk 28 (87)
++.|||.|..++.. |||++|+.
T Consensus 149 l~~Ark~G~~~~~~dSf~l~~DVDtpeDL~e~~ 181 (210)
T COG1920 149 LEEARKRGLVVLTYDSFGLSADVDTPEDLVEAF 181 (210)
T ss_pred HHHHHHcCCEEEEecccceecCCCCHHHHHHHH
Confidence 67899999998774 89999863
No 19
>PRK15005 universal stress protein F; Provisional
Probab=40.89 E-value=19 Score=22.87 Aligned_cols=17 Identities=12% Similarity=0.137 Sum_probs=14.3
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
+||+.+|++.|+.|+++
T Consensus 22 ~~a~~la~~~~~~l~ll 38 (144)
T PRK15005 22 SHVEAEAKIDDAEVHFL 38 (144)
T ss_pred HHHHHHHhccCCeEEEE
Confidence 57888999999988865
No 20
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=40.63 E-value=19 Score=22.11 Aligned_cols=18 Identities=22% Similarity=0.218 Sum_probs=15.6
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
.|+..+|++.++.|+++-
T Consensus 17 ~~a~~la~~~~~~v~ll~ 34 (132)
T cd01988 17 ELAAALARAQNGEIIPLN 34 (132)
T ss_pred HHHHHHhhcCCCeEEEEE
Confidence 688999999999998774
No 21
>PRK09982 universal stress protein UspD; Provisional
Probab=40.34 E-value=21 Score=23.42 Aligned_cols=18 Identities=17% Similarity=0.276 Sum_probs=15.7
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
++|+++|++.||.|.++-
T Consensus 21 ~~A~~lA~~~~a~l~llh 38 (142)
T PRK09982 21 NKALELARHNDAHLTLIH 38 (142)
T ss_pred HHHHHHHHHhCCeEEEEE
Confidence 688999999999998874
No 22
>KOG0806 consensus Carbon-nitrogen hydrolase [Amino acid transport and metabolism]
Probab=39.25 E-value=14 Score=29.96 Aligned_cols=23 Identities=30% Similarity=0.375 Sum_probs=20.2
Q ss_pred chhhhhhhhhhcceEEecchhhh
Q 045775 3 ATYIISIARKLGCSIFLLPEDIT 25 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIv 25 (87)
+.-+|..|+|-|+.|.++|||+.
T Consensus 35 ~~~~i~~aa~~g~~iIv~PE~~~ 57 (298)
T KOG0806|consen 35 LEKAVKEAAKQGAKIIVFPEDGL 57 (298)
T ss_pred HHHHHHHHHhcCCeEEEChhhcc
Confidence 45678899999999999999975
No 23
>PRK13781 paaB phenylacetate-CoA oxygenase subunit PaaB; Provisional
Probab=38.16 E-value=26 Score=24.43 Aligned_cols=35 Identities=26% Similarity=0.378 Sum_probs=24.1
Q ss_pred Cchhhhhhhhhh------cceEEecch-hhhhhchhhhHHHH
Q 045775 2 NATYIISIARKL------GCSIFLLPE-DITEVNQKMILTLT 36 (87)
Q Consensus 2 NAkyaISiARKl------Ga~IfllpE-DIveVk~KMimT~~ 36 (87)
++..|+..||.+ |..||++|. +|....|.=.-.||
T Consensus 31 d~e~Al~~Ar~~y~RR~e~vsiWVVp~~~I~as~p~ek~~~f 72 (95)
T PRK13781 31 DAEMALRNARDVYTRRNEGVSIWVVPSSAITASDPDEKGPFF 72 (95)
T ss_pred CHHHHHHHHHHHhccccCCcEEEEeeHHHccccChhhhhhcc
Confidence 466788888876 899999996 46666665333333
No 24
>TIGR02157 PA_CoA_Oxy2 phenylacetate-CoA oxygenase, PaaH subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=38.14 E-value=26 Score=24.13 Aligned_cols=35 Identities=17% Similarity=0.247 Sum_probs=23.9
Q ss_pred Cchhhhhhhhhh------cceEEecch-hhhhhchhhhHHHH
Q 045775 2 NATYIISIARKL------GCSIFLLPE-DITEVNQKMILTLT 36 (87)
Q Consensus 2 NAkyaISiARKl------Ga~IfllpE-DIveVk~KMimT~~ 36 (87)
++..|+..||.+ |..||++|. ||+...|.=.-.||
T Consensus 26 d~e~Al~~Ard~y~RR~e~vsiWVVp~~~I~as~p~ek~~~f 67 (90)
T TIGR02157 26 DEEMALMMARDNYTRREEGVSIWVVKASHIVASTPDEREEFF 67 (90)
T ss_pred CHHHHHHHHHHHhccccCCcEEEEeeHHHhhcCChhhhhhcc
Confidence 566788888765 889999996 46666665333333
No 25
>cd08294 leukotriene_B4_DH_like 13-PGR is a bifunctional enzyme with delta-13 15-prostaglandin reductase and leukotriene B4 12 hydroxydehydrogenase activity. Prostaglandins and related eicosanoids are metabolized by the oxidation of the 15(S)-hydroxyl group of the NAD+-dependent (type I 15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH) followed by reduction by NADPH/NADH-dependent (type II 15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to 15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a bifunctional enzyme, since it also has leukotriene B(4) 12-hydroxydehydrogenase activity. These 15-PGDH and related enzymes are members of the medium chain dehydrogenase/reductase family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of ac
Probab=35.37 E-value=28 Score=24.89 Aligned_cols=17 Identities=24% Similarity=0.424 Sum_probs=14.3
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||.+|+.||++
T Consensus 158 ~~aiqlA~~~G~~vi~~ 174 (329)
T cd08294 158 SLVGQIAKIKGCKVIGC 174 (329)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46889999999998864
No 26
>PF03686 UPF0146: Uncharacterised protein family (UPF0146); InterPro: IPR005353 The function of this family of proteins is unknown.; PDB: 2K4M_A.
Probab=35.18 E-value=28 Score=25.06 Aligned_cols=18 Identities=28% Similarity=0.676 Sum_probs=14.0
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
.+.+.+|||.||..++.|
T Consensus 85 ~~il~lA~~v~adlii~p 102 (127)
T PF03686_consen 85 PPILELAKKVGADLIIRP 102 (127)
T ss_dssp HHHHHHHHHHT-EEEEE-
T ss_pred HHHHHHHHHhCCCEEEEC
Confidence 467899999999999877
No 27
>PRK04148 hypothetical protein; Provisional
Probab=32.87 E-value=29 Score=24.75 Aligned_cols=18 Identities=22% Similarity=0.722 Sum_probs=15.6
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
.+.+.+|||+||..++.|
T Consensus 92 ~~~~~la~~~~~~~~i~~ 109 (134)
T PRK04148 92 PFILELAKKINVPLIIKP 109 (134)
T ss_pred HHHHHHHHHcCCCEEEEc
Confidence 367889999999999887
No 28
>COG1255 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.30 E-value=32 Score=25.32 Aligned_cols=18 Identities=22% Similarity=0.739 Sum_probs=16.1
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
+|.+-+|||.||..|+.|
T Consensus 85 ~~ildva~aVga~l~I~p 102 (129)
T COG1255 85 SAILDVAKAVGAPLYIKP 102 (129)
T ss_pred HHHHHHHHhhCCCEEEEe
Confidence 467889999999999988
No 29
>TIGR00330 glpX fructose-1,6-bisphosphatase, class II. In E. coli, GlpX is found in the glpFKX operon together with a glycerol update protein and glycerol kinase.
Probab=31.02 E-value=34 Score=28.30 Aligned_cols=21 Identities=29% Similarity=0.736 Sum_probs=18.1
Q ss_pred hhhhhhhhhcceEEecch-hhh
Q 045775 5 YIISIARKLGCSIFLLPE-DIT 25 (87)
Q Consensus 5 yaISiARKlGa~IfllpE-DIv 25 (87)
..|.-.|+.||+|.|+++ ||.
T Consensus 168 ~lI~eiR~~Gari~Li~DGDVa 189 (321)
T TIGR00330 168 AVIAEMQQLGVRVFAIPDGDVA 189 (321)
T ss_pred HHHHHHHHcCCeEEEeccccHH
Confidence 467889999999999999 873
No 30
>TIGR02825 B4_12hDH leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase. Leukotriene B4 12-hydroxydehydrogenase is an NADP-dependent enzyme of arachidonic acid metabolism, responsible for converting leukotriene B4 to the much less active metabolite 12-oxo-leukotriene B4. The BRENDA database lists leukotriene B4 12-hydroxydehydrogenase as one of the synonyms of 2-alkenal reductase (EC 1.3.1.74), while 1.3.1.48 is 15-oxoprostaglandin 13-reductase.
Probab=30.60 E-value=34 Score=24.87 Aligned_cols=17 Identities=24% Similarity=0.391 Sum_probs=14.0
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||..|+.||++
T Consensus 153 ~~aiqlAk~~G~~Vi~~ 169 (325)
T TIGR02825 153 SVVGQIAKLKGCKVVGA 169 (325)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46889999999988864
No 31
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=29.46 E-value=51 Score=21.02 Aligned_cols=24 Identities=25% Similarity=0.465 Sum_probs=17.8
Q ss_pred hhhhhhhhhhcceEEecchhhhhh
Q 045775 4 TYIISIARKLGCSIFLLPEDITEV 27 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDIveV 27 (87)
+..+..|++.|+.|+..|.|--++
T Consensus 75 ~~v~~la~~~~i~vi~t~~dtf~t 98 (105)
T PF07085_consen 75 EEVLELAKELGIPVISTPYDTFET 98 (105)
T ss_dssp HHHHHHHHHHT-EEEE-SS-HHHH
T ss_pred HHHHHHHHHCCCEEEEECCCHHHH
Confidence 457889999999999999997665
No 32
>PF06821 Ser_hydrolase: Serine hydrolase; InterPro: IPR010662 This family contains a number of hypothetical bacterial proteins of unknown function, which may be cytosolic. The Crystal Structure Of The Yden Gene Product Swiss:P96671 from B. Subtilis has been solved. The structure shows an alpha-beta hydrolase fold suggesting an enzymatic function for these proteins [].; GO: 0016787 hydrolase activity; PDB: 3BDV_B 2QS9_A 1UXO_A.
Probab=29.02 E-value=41 Score=23.81 Aligned_cols=19 Identities=21% Similarity=0.424 Sum_probs=15.5
Q ss_pred hhhhhhhhhhcceEEecch
Q 045775 4 TYIISIARKLGCSIFLLPE 22 (87)
Q Consensus 4 kyaISiARKlGa~IfllpE 22 (87)
+++..+|+++||.++.+|.
T Consensus 131 ~~a~~~A~~l~a~~~~~~~ 149 (171)
T PF06821_consen 131 ERAQRLAQRLGAELIILGG 149 (171)
T ss_dssp HHHHHHHHHHT-EEEEETS
T ss_pred HHHHHHHHHcCCCeEECCC
Confidence 4678899999999998874
No 33
>PRK11175 universal stress protein UspE; Provisional
Probab=29.02 E-value=36 Score=24.61 Aligned_cols=17 Identities=18% Similarity=0.239 Sum_probs=14.7
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
+||+.+|++.||.+.+|
T Consensus 21 ~~a~~lA~~~~a~l~ll 37 (305)
T PRK11175 21 RRAVYLAQRNGGKITAF 37 (305)
T ss_pred HHHHHHHHhcCCCEEEE
Confidence 68999999999998754
No 34
>cd08274 MDR9 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group is a member of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, but lacks the zinc-binding sites of the zinc-dependent alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcoh
Probab=28.94 E-value=37 Score=24.56 Aligned_cols=18 Identities=11% Similarity=0.447 Sum_probs=15.3
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
..++.+||.+||.||.+-
T Consensus 192 ~~~~~~a~~~g~~vi~~~ 209 (350)
T cd08274 192 SALVQLAKRRGAIVIAVA 209 (350)
T ss_pred HHHHHHHHhcCCEEEEEe
Confidence 568899999999998864
No 35
>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members. are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....
Probab=28.88 E-value=95 Score=22.12 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=34.0
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHH
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHW 42 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~ 42 (87)
++-++..||++|..|++-++|.-...+.-++-++--+...
T Consensus 110 ~~~~v~~ak~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (237)
T PF00682_consen 110 IEEAVKYAKELGYEVAFGCEDASRTDPEELLELAEALAEA 149 (237)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTGGSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCceEeCccccccccHHHHHHHHHHHHHc
Confidence 4567899999999999999999999998888887766554
No 36
>TIGR02817 adh_fam_1 zinc-binding alcohol dehydrogenase family protein. Members of this model form a distinct subset of the larger family of oxidoreductases that includes zinc-binding alcohol dehydrogenases and NADPH:quinone reductases (pfam00107). While some current members of this family carry designations as putative alginate lyase, it seems no sequence with a direct characterization as such is detected by this model.
Probab=28.83 E-value=40 Score=24.26 Aligned_cols=17 Identities=29% Similarity=0.616 Sum_probs=14.7
Q ss_pred hhhhhhhhhh-cceEEec
Q 045775 4 TYIISIARKL-GCSIFLL 20 (87)
Q Consensus 4 kyaISiARKl-Ga~Ifll 20 (87)
.+++.+||.+ |+.||.+
T Consensus 163 ~~~~~~ak~~~G~~vi~~ 180 (336)
T TIGR02817 163 SILIQLARQLTGLTVIAT 180 (336)
T ss_pred HHHHHHHHHhCCCEEEEE
Confidence 5788999998 9999886
No 37
>TIGR01003 PTS_HPr_family Phosphotransferase System HPr (HPr) Family. The HPr family are bacterial proteins (or domains of proteins) which function in phosphoryl transfer system (PTS) systems. They include energy-coupling components which catalyze sugar uptake via a group translocation mechanism. The functions of most of these proteins are not known, but they presumably function in PTS-related regulatory capacities. All seed members are stand-alone HPr proteins, although the model also recognizes HPr domains of PTS fusion proteins. This family includes the related NPr protein.
Probab=28.62 E-value=52 Score=20.77 Aligned_cols=40 Identities=30% Similarity=0.331 Sum_probs=29.5
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHHhhcCC
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHWFMKQP 47 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~~~~~~ 47 (87)
|-.....|+|..|.|++.-.+ ..+++|=|| +||.++.++.
T Consensus 19 A~~lv~~a~~f~s~I~i~~~~-~~~dakSil----~ll~Lg~~~G 58 (82)
T TIGR01003 19 AAILVKLASGFDSEITLTKNG-KEVNAKSIM----GIMMLGAGQG 58 (82)
T ss_pred HHHHHHHHHhCCCEEEEEECC-EEEehHhHH----HHHhcCCCCC
Confidence 345678899999999998776 567887665 4566666653
No 38
>PRK12388 fructose-1,6-bisphosphatase II-like protein; Reviewed
Probab=28.53 E-value=40 Score=27.86 Aligned_cols=21 Identities=38% Similarity=0.706 Sum_probs=17.9
Q ss_pred hhhhhhhhhcceEEecch-hhh
Q 045775 5 YIISIARKLGCSIFLLPE-DIT 25 (87)
Q Consensus 5 yaISiARKlGa~IfllpE-DIv 25 (87)
..|.-.|+.||+|.|+|+ |+.
T Consensus 168 ~lI~eiR~~GarI~Li~DGDVa 189 (321)
T PRK12388 168 AAIEEATQLGVKVFALPDGDVA 189 (321)
T ss_pred HHHHHHHHcCCeEEEeccccHH
Confidence 357778999999999999 873
No 39
>PF08673 RsbU_N: Phosphoserine phosphatase RsbU, N-terminal domain; InterPro: IPR014787 The phosphoserine phosphatase RsbU acts as a positive regulator of the general stress-response factor of Gram-positive organisms, sigma-B. RsbU dephosphorylates rsbV in response to environmental stress conveyed from the rsbXST module. The phosphatase activity of RsbU is stimulated during the stress response by associating with the RsbT kinase. This association leads to the induction of sigmaB activity. The N-terminal domain forms a helix-swapped dimer that is otherwise similar to the KaiA domain dimer. Deletions in the N-terminal domain are deleterious to the activity of RsbU. The C-terminal domain of RsbU is similar to the catalytic domains of PP2C-type phosphatases [].; PDB: 2J6Y_D 2J6Z_A 2J70_A 1W53_A.
Probab=28.15 E-value=31 Score=22.52 Aligned_cols=20 Identities=30% Similarity=0.614 Sum_probs=14.3
Q ss_pred ecchhhhhhchhhhHHHHHH
Q 045775 19 LLPEDITEVNQKMILTLTAS 38 (87)
Q Consensus 19 llpEDIveVk~KMimT~~As 38 (87)
+.|||||++--+.|..+..+
T Consensus 35 I~PEeIv~iH~~~v~~l~~~ 54 (77)
T PF08673_consen 35 ISPEEIVEIHKSAVQELSPS 54 (77)
T ss_dssp --HHHHHHHHHHHHHHH-TT
T ss_pred CCHHHHHHHHHHHHHHHccc
Confidence 68999999988888776654
No 40
>cd08295 double_bond_reductase_like Arabidopsis alkenal double bond reductase and leukotriene B4 12-hydroxydehydrogenase. This group includes proteins identified as the Arabidopsis alkenal double bond reductase and leukotriene B4 12-hydroxydehydrogenase. The Arabidopsis enzyme, a member of the medium chain dehydrogenase/reductase family, catalyzes the reduction of 7-8-double bond of phenylpropanal substrates as a plant defense mechanism. Prostaglandins and related eicosanoids (lipid mediators involved in host defense and inflamation) are metabolized by the oxidation of the 15(S)-hydroxyl group of the NAD+-dependent (type I 15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH) followed by reduction by NADPH/NADH-dependent (type II 15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to 15-keto-13,14,-dihydroprostaglandins. 13-PGR is a bifunctional enzyme, since it also has leukotriene B(4) 12-hydroxydehydrogenase activity. Leukotriene B4 (LTB4) can be metabolized by LTB4 20-hydroxylase in
Probab=28.01 E-value=43 Score=24.61 Aligned_cols=17 Identities=18% Similarity=0.303 Sum_probs=14.3
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||.+|+.|+.+
T Consensus 166 ~~aiqlAk~~G~~Vi~~ 182 (338)
T cd08295 166 QLVGQLAKLKGCYVVGS 182 (338)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 47889999999998874
No 41
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=27.76 E-value=33 Score=30.30 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=20.4
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhhH
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMIL 33 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMim 33 (87)
.-|||.|||++| +|++|++-=-+++-
T Consensus 482 ~S~a~~iA~~~G-----lp~~ii~~A~~~~~ 507 (771)
T TIGR01069 482 ESYAFEIAQRYG-----IPHFIIEQAKTFYG 507 (771)
T ss_pred CcHHHHHHHHhC-----cCHHHHHHHHHHHH
Confidence 359999999999 89999986554443
No 42
>cd08292 ETR_like_2 2-enoyl thioester reductase (ETR) like proteins, child 2. 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordination sites characteristic of the 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordina
Probab=27.71 E-value=44 Score=23.72 Aligned_cols=18 Identities=17% Similarity=0.237 Sum_probs=15.5
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
..++.+|+++|+.||++-
T Consensus 154 ~~~~~~a~~~G~~v~~~~ 171 (324)
T cd08292 154 KLVAMLAAARGINVINLV 171 (324)
T ss_pred HHHHHHHHHCCCeEEEEe
Confidence 467899999999999874
No 43
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=27.41 E-value=51 Score=22.15 Aligned_cols=22 Identities=14% Similarity=0.338 Sum_probs=17.6
Q ss_pred hhhhhhhhhhcceEEecchhhh
Q 045775 4 TYIISIARKLGCSIFLLPEDIT 25 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDIv 25 (87)
-+.+..|.+.|+.|+++|.+=-
T Consensus 72 ~~l~~~a~~~g~~v~iis~~~e 93 (113)
T PF03465_consen 72 EELIELAEQSGAKVEIISSEHE 93 (113)
T ss_dssp HHHHHHHHHTTSEEEEE-TTSH
T ss_pred HHHHHHHHHcCCEEEEEcCCCc
Confidence 4578899999999999998743
No 44
>cd08269 Zn_ADH9 Alcohol dehydrogenases of the MDR family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent i
Probab=27.33 E-value=38 Score=23.80 Aligned_cols=20 Identities=10% Similarity=0.310 Sum_probs=15.8
Q ss_pred chhhhhhhhhhcce-EEecch
Q 045775 3 ATYIISIARKLGCS-IFLLPE 22 (87)
Q Consensus 3 AkyaISiARKlGa~-IfllpE 22 (87)
..+++.+||++|+. |+++--
T Consensus 142 g~~~~~la~~~g~~~v~~~~~ 162 (312)
T cd08269 142 GLLFLQLAAAAGARRVIAIDR 162 (312)
T ss_pred HHHHHHHHHHcCCcEEEEECC
Confidence 35788999999999 887643
No 45
>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain. This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t
Probab=26.72 E-value=58 Score=24.66 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=34.0
Q ss_pred CchhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHH
Q 045775 2 NATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHW 42 (87)
Q Consensus 2 NAkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~ 42 (87)
|++-+|..||+.|..|++-++|.....+..+.-++.-+...
T Consensus 110 ~~~~~i~~ak~~G~~v~~~~~~a~~~~~~~~~~~~~~~~~~ 150 (266)
T cd07944 110 EALPLIKAIKEKGYEVFFNLMAISGYSDEELLELLELVNEI 150 (266)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeecCCCHHHHHHHHHHHHhC
Confidence 46778999999999999999999998888888777655443
No 46
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=26.55 E-value=60 Score=20.49 Aligned_cols=39 Identities=21% Similarity=0.359 Sum_probs=29.0
Q ss_pred hhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHHhhcCC
Q 045775 4 TYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHWFMKQP 47 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~~~~~~ 47 (87)
......|+|..|.|++.-.+ ..|++|=||- ||.+..++.
T Consensus 20 ~~lv~~a~~f~~~i~l~~~~-~~vdaKSil~----llsLg~~~g 58 (82)
T PRK13782 20 ALFVQEANRFHADIFIEKDG-KKVNAKSIMG----LMSLAIGTG 58 (82)
T ss_pred HHHHHHHHhCCCEEEEEECC-eEEecHhHHH----HHhcCCCCC
Confidence 34567899999999998766 5788887764 566666653
No 47
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=26.38 E-value=35 Score=21.80 Aligned_cols=17 Identities=18% Similarity=0.309 Sum_probs=14.4
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
+|++.+|++.|+.+.++
T Consensus 17 ~~a~~~a~~~~~~l~ll 33 (146)
T cd01989 17 KWALDNLATKGQTIVLV 33 (146)
T ss_pred HHHHHhccCCCCcEEEE
Confidence 57888899899998876
No 48
>cd08288 MDR_yhdh Yhdh putative quinone oxidoreductases. Yhdh putative quinone oxidoreductases (QOR). QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catal
Probab=25.63 E-value=50 Score=23.51 Aligned_cols=17 Identities=12% Similarity=0.348 Sum_probs=14.6
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
+.++.+||.+|+.||.+
T Consensus 161 ~~~~~~A~~~G~~vi~~ 177 (324)
T cd08288 161 SVAVALLARLGYEVVAS 177 (324)
T ss_pred HHHHHHHHHCCCeEEEE
Confidence 56889999999998875
No 49
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=25.22 E-value=51 Score=20.42 Aligned_cols=17 Identities=12% Similarity=0.286 Sum_probs=13.9
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
++++.+|++.|+.++++
T Consensus 17 ~~a~~la~~~~~~l~ll 33 (124)
T cd01987 17 RRAARLADRLKAPWYVV 33 (124)
T ss_pred HHHHHHHHHhCCCEEEE
Confidence 57788999999988765
No 50
>cd08291 ETR_like_1 2-enoyl thioester reductase (ETR) like proteins, child 1. 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordination sites characteristic of the 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordin
Probab=25.17 E-value=52 Score=23.93 Aligned_cols=17 Identities=6% Similarity=0.323 Sum_probs=14.2
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||.+|+.|+++
T Consensus 158 ~~a~q~a~~~G~~vi~~ 174 (324)
T cd08291 158 RMLVRLCKADGIKVINI 174 (324)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46788999999998875
No 51
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=24.91 E-value=40 Score=29.79 Aligned_cols=25 Identities=44% Similarity=0.749 Sum_probs=19.8
Q ss_pred chhhhhhhhhhcceEEecchhhhhhchhhh
Q 045775 3 ATYIISIARKLGCSIFLLPEDITEVNQKMI 32 (87)
Q Consensus 3 AkyaISiARKlGa~IfllpEDIveVk~KMi 32 (87)
.-|||.+||++| +|++|++-=-+++
T Consensus 487 ~S~a~~iA~~~G-----lp~~ii~~A~~~~ 511 (782)
T PRK00409 487 KSNAFEIAKRLG-----LPENIIEEAKKLI 511 (782)
T ss_pred CcHHHHHHHHhC-----cCHHHHHHHHHHH
Confidence 358999999999 8999998654443
No 52
>cd08244 MDR_enoyl_red Possible enoyl reductase. Member identified as possible enoyl reductase of the MDR family. 2-enoyl thioester reductase (ETR) catalyzes the NADPH-dependent dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordination sites characteristic of the alcohol dehydrogenases in this family. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydr
Probab=24.73 E-value=55 Score=23.17 Aligned_cols=18 Identities=11% Similarity=0.379 Sum_probs=15.3
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
..++.+||++|+.||.+-
T Consensus 157 ~~~~~la~~~g~~v~~~~ 174 (324)
T cd08244 157 SLLVQLAKAAGATVVGAA 174 (324)
T ss_pred HHHHHHHHHCCCEEEEEe
Confidence 568899999999998863
No 53
>PF02348 CTP_transf_3: Cytidylyltransferase; InterPro: IPR003329 Synonym(s): CMP-N-acetylneuraminic acid synthetase Acylneuraminate cytidylyltransferase (2.7.7.43 from EC) (CMP-NeuAc synthetase) catalyzes the reaction of CTP and NeuAc to form CMP-NeuAc, which is the nucleotide sugar donor used by sialyltransferases []. The outer membrane lipooligosaccharides of some microorganisms contain terminal sialic acid attached to N-acetyllactosamine and so this modification may be important in pathogenesis.; GO: 0009103 lipopolysaccharide biosynthetic process; PDB: 3K8D_C 1VH1_B 3K8E_C 1QWJ_A 3EWI_A 1VIC_B 3DUV_A 1VH3_C 3TQD_A 2Y6P_C ....
Probab=24.65 E-value=74 Score=21.86 Aligned_cols=31 Identities=16% Similarity=0.348 Sum_probs=23.8
Q ss_pred hhhhhhhhcceEEecchhhhhhchhhhHHHH
Q 045775 6 IISIARKLGCSIFLLPEDITEVNQKMILTLT 36 (87)
Q Consensus 6 aISiARKlGa~IfllpEDIveVk~KMimT~~ 36 (87)
...+|++.|+.|+..|+++..+..+++-.+-
T Consensus 52 i~~~~~~~g~~v~~~~~~~~~~~~r~~~~~~ 82 (217)
T PF02348_consen 52 IDDIAEEYGAKVIFRRGSLADDTDRFIEAIK 82 (217)
T ss_dssp HHHHHHHTTSEEEE--TTSSSHHHHHHHHHH
T ss_pred HHHHHHHcCCeeEEcChhhcCCcccHHHHHH
Confidence 4578999999999999999999888764443
No 54
>cd01516 FBPase_glpX Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core structure around the active site is well preserved. In E. coli, FBPase II is part of the glp regulon, which mediates growth on glycerol or sn-glycerol 3-phosphate as the sole carbon source.
Probab=24.48 E-value=53 Score=27.02 Aligned_cols=20 Identities=35% Similarity=0.642 Sum_probs=17.7
Q ss_pred hhhhhhhhhcceEEecch-hh
Q 045775 5 YIISIARKLGCSIFLLPE-DI 24 (87)
Q Consensus 5 yaISiARKlGa~IfllpE-DI 24 (87)
..|.-.|+.||+|.|+++ ||
T Consensus 168 ~lI~eiR~~Gari~Li~DGDV 188 (309)
T cd01516 168 ALIEEIREAGARIKLIPDGDV 188 (309)
T ss_pred HHHHHHHHcCCeEEEeccccH
Confidence 457788999999999999 87
No 55
>COG1064 AdhP Zn-dependent alcohol dehydrogenases [General function prediction only]
Probab=24.46 E-value=50 Score=26.96 Aligned_cols=11 Identities=36% Similarity=0.534 Sum_probs=5.7
Q ss_pred hhhhcceEEec
Q 045775 10 ARKLGCSIFLL 20 (87)
Q Consensus 10 ARKlGa~Ifll 20 (87)
||||||..++.
T Consensus 206 a~~lGAd~~i~ 216 (339)
T COG1064 206 AKKLGADHVIN 216 (339)
T ss_pred HHHhCCcEEEE
Confidence 45555555554
No 56
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=24.30 E-value=80 Score=23.39 Aligned_cols=42 Identities=10% Similarity=0.126 Sum_probs=34.9
Q ss_pred CchhhhhhhhhhcceEEecchhhhhhchhhhHHHHHHHHHHh
Q 045775 2 NATYIISIARKLGCSIFLLPEDITEVNQKMILTLTASIMHWF 43 (87)
Q Consensus 2 NAkyaISiARKlGa~IfllpEDIveVk~KMimT~~AsLM~~~ 43 (87)
|++-++..||+.|..|.+-++|.-...+..+.-++.-+....
T Consensus 111 ~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G 152 (259)
T cd07939 111 QLRRLVGRAKDRGLFVSVGAEDASRADPDFLIEFAEVAQEAG 152 (259)
T ss_pred HHHHHHHHHHHCCCeEEEeeccCCCCCHHHHHHHHHHHHHCC
Confidence 345678899999999999999999999999988888665543
No 57
>cd05286 QOR2 Quinone oxidoreductase (QOR). Quinone oxidoreductase (QOR) and 2-haloacrylate reductase. QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. 2-haloacrylate reductase, a member of this subgroup, catalyzes the NADPH-dependent reduction of a carbon-carbon double bond in organohalogen compounds. Although similar to QOR, Burkholderia 2-haloacrylate reductase does not act on the quinones 1,4-benzoquinone
Probab=24.18 E-value=55 Score=22.44 Aligned_cols=17 Identities=18% Similarity=0.296 Sum_probs=14.8
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+||.+|+.||.+
T Consensus 151 ~~~~~~a~~~g~~v~~~ 167 (320)
T cd05286 151 LLLTQWAKALGATVIGT 167 (320)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46789999999999886
No 58
>cd07574 nitrilase_Rim1_like Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases). Some members of this subgroup are implicated in post-translational modification, as they contain an N-terminal GCN5-related N-acetyltransferase (GNAT) protein RimI family domain. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 12. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=24.17 E-value=41 Score=24.28 Aligned_cols=21 Identities=24% Similarity=0.536 Sum_probs=16.5
Q ss_pred hhhhhhhhhhcceEEecchhh
Q 045775 4 TYIISIARKLGCSIFLLPEDI 24 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDI 24 (87)
+-.|.-|.+-||.+.++||--
T Consensus 24 ~~~i~~A~~~gadlivfPE~~ 44 (280)
T cd07574 24 EYWVAEAAGYGADLLVFPEYF 44 (280)
T ss_pred HHHHHHHHHcCCCEEECchHh
Confidence 345667788899999999953
No 59
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=23.95 E-value=74 Score=18.67 Aligned_cols=23 Identities=17% Similarity=0.479 Sum_probs=17.5
Q ss_pred hhhhhhhhhhcceEEecchhhhh
Q 045775 4 TYIISIARKLGCSIFLLPEDITE 26 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDIve 26 (87)
+..+..+++.|..|+.+++++.+
T Consensus 33 ~~i~~~~~~~~i~v~~v~~~~l~ 55 (76)
T PF08032_consen 33 KEILKLAKKKGIPVYEVSKKVLD 55 (76)
T ss_dssp HHHHHHHHHCT-EEEEE-HHHHH
T ss_pred HHHHHHHHHcCCeEEEeCHHHHH
Confidence 45788899999999999998754
No 60
>COG1916 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]
Probab=23.79 E-value=49 Score=28.09 Aligned_cols=24 Identities=33% Similarity=0.463 Sum_probs=20.8
Q ss_pred hhhhhhhhhhcceEEecchhhhhh
Q 045775 4 TYIISIARKLGCSIFLLPEDITEV 27 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDIveV 27 (87)
|=||-+||++||.|++.--||-=.
T Consensus 102 k~AIe~A~e~ga~V~lIDRdI~vT 125 (388)
T COG1916 102 KAAIEAARELGAPVALIDRDIGVT 125 (388)
T ss_pred HHHHHHHHHcCCCEEEecccHHHH
Confidence 558999999999999999998543
No 61
>COG1494 GlpX Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]
Probab=23.43 E-value=56 Score=27.29 Aligned_cols=19 Identities=26% Similarity=0.506 Sum_probs=16.5
Q ss_pred hhhhhhhhhcceEEecchh
Q 045775 5 YIISIARKLGCSIFLLPED 23 (87)
Q Consensus 5 yaISiARKlGa~IfllpED 23 (87)
..|.-.|..||+|+|+|+-
T Consensus 169 ~lI~~ir~~GarV~li~DG 187 (332)
T COG1494 169 ELIAEIRAAGARVRLIPDG 187 (332)
T ss_pred HHHHHHHHhCCEEEEecCc
Confidence 4678889999999999983
No 62
>cd08270 MDR4 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group is a member of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, but lacks the zinc-binding sites of the zinc-dependent alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcoh
Probab=23.34 E-value=60 Score=22.81 Aligned_cols=18 Identities=11% Similarity=0.327 Sum_probs=15.3
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
+.++.+||++|+.||.+-
T Consensus 147 ~~~~~~a~~~g~~v~~~~ 164 (305)
T cd08270 147 RFAVQLAALAGAHVVAVV 164 (305)
T ss_pred HHHHHHHHHcCCEEEEEe
Confidence 567899999999998873
No 63
>cd08261 Zn_ADH7 Alcohol dehydrogenases of the MDR family. This group contains members identified as related to zinc-dependent alcohol dehydrogenase and other members of the MDR family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group includes various activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase,
Probab=23.28 E-value=54 Score=23.82 Aligned_cols=17 Identities=18% Similarity=0.436 Sum_probs=15.0
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+||++|+.||++
T Consensus 173 ~~a~~lA~~~g~~v~~~ 189 (337)
T cd08261 173 LGVIQVAKARGARVIVV 189 (337)
T ss_pred HHHHHHHHHcCCeEEEE
Confidence 56899999999999977
No 64
>cd05280 MDR_yhdh_yhfp Yhdh and yhfp-like putative quinone oxidoreductases. Yhdh and yhfp-like putative quinone oxidoreductases (QOR). QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and so
Probab=23.14 E-value=56 Score=23.12 Aligned_cols=17 Identities=29% Similarity=0.534 Sum_probs=13.7
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+||.+|+.||++
T Consensus 161 ~~~~~~a~~~g~~v~~~ 177 (325)
T cd05280 161 SIAVAILAKLGYTVVAL 177 (325)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 45788999999998865
No 65
>PF08889 WbqC: WbqC-like protein family; InterPro: IPR014985 This family of proteins are functionally uncharacterised. However, it is found in an O-antigen gene cluster in Escherichia coli [] and other bacteria [] suggesting a role in O-antigen production. It has been suggested that wbnG may code for a glycine transferase [].
Probab=23.06 E-value=53 Score=24.50 Aligned_cols=18 Identities=22% Similarity=0.497 Sum_probs=15.4
Q ss_pred hhhhhhhhhhcceEEecc
Q 045775 4 TYIISIARKLGCSIFLLP 21 (87)
Q Consensus 4 kyaISiARKlGa~Ifllp 21 (87)
..+|.++|++||+-|+-|
T Consensus 144 ~~vi~i~~~~ga~~Yi~~ 161 (219)
T PF08889_consen 144 ERVIDICKALGADTYING 161 (219)
T ss_pred HHHHHHHHHcCCCeeecC
Confidence 468999999999999754
No 66
>cd08293 PTGR2 Prostaglandin reductase. Prostaglandins and related eicosanoids are metabolized by the oxidation of the 15(S)-hydroxyl group of the NAD+-dependent (type I 15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH) followed by reduction by NADPH/NADH-dependent (type II 15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to 15-keto-13,14,-dihydroprostaglandins. 13-PGR is a bifunctional enzyme, since it also has leukotriene B(4) 12-hydroxydehydrogenase activity. These 15-PGDH and related enzymes are members of the medium chain dehydrogenase/reductase family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acid
Probab=22.84 E-value=61 Score=23.54 Aligned_cols=17 Identities=29% Similarity=0.530 Sum_probs=14.1
Q ss_pred hhhhhhhhhhcc-eEEec
Q 045775 4 TYIISIARKLGC-SIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa-~Ifll 20 (87)
.++|.+||.+|+ .||++
T Consensus 169 ~~aiqlAk~~G~~~Vi~~ 186 (345)
T cd08293 169 SLAGQIGRLLGCSRVVGI 186 (345)
T ss_pred HHHHHHHHHcCCCEEEEE
Confidence 468899999998 68875
No 67
>cd08243 quinone_oxidoreductase_like_1 Quinone oxidoreductase (QOR). NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. The medium chain alcohol dehydrogenase family (MDR) have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit.
Probab=22.33 E-value=60 Score=22.67 Aligned_cols=17 Identities=18% Similarity=0.337 Sum_probs=14.3
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+|+..|+.||++
T Consensus 157 ~~~~~~a~~~g~~v~~~ 173 (320)
T cd08243 157 LAALKLAKALGATVTAT 173 (320)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46789999999999875
No 68
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=22.09 E-value=35 Score=25.64 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=20.2
Q ss_pred CchhhhhhhhhhcceEEecchhhhhhc
Q 045775 2 NATYIISIARKLGCSIFLLPEDITEVN 28 (87)
Q Consensus 2 NAkyaISiARKlGa~IfllpEDIveVk 28 (87)
|..++.++|+|+-.. .+-.+||+++-
T Consensus 49 ~l~LV~~iA~~y~~~-g~~~~DLiQeG 74 (264)
T PRK07122 49 CLPLADHIARRFDGR-GEPRDDLVQVA 74 (264)
T ss_pred hHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence 678999999998554 45688998764
No 69
>cd08289 MDR_yhfp_like Yhfp putative quinone oxidoreductases. yhfp putative quinone oxidoreductases (QOR). QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH
Probab=21.59 E-value=61 Score=23.10 Aligned_cols=17 Identities=29% Similarity=0.425 Sum_probs=13.9
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+||.+|+.||++
T Consensus 161 ~~~~~~a~~~g~~v~~~ 177 (326)
T cd08289 161 SLAVSILAKLGYEVVAS 177 (326)
T ss_pred HHHHHHHHHCCCeEEEE
Confidence 46788999999998864
No 70
>cd08296 CAD_like Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl alcohol dehydrogenases (CAD), members of the medium chain dehydrogenase/reductase family, reduce cinnamaldehydes to cinnamyl alcohols in the last step of monolignal metabolism in plant cells walls. CAD binds 2 zinc ions and is NADPH- dependent. CAD family members are also found in non-plant species, e.g. in yeast where they have an aldehyde reductase activity. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catal
Probab=21.44 E-value=67 Score=23.52 Aligned_cols=17 Identities=18% Similarity=0.315 Sum_probs=14.7
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||.+|+.|+++
T Consensus 177 ~~~~~~a~~~G~~vi~~ 193 (333)
T cd08296 177 HLAVQYAAKMGFRTVAI 193 (333)
T ss_pred HHHHHHHHHCCCeEEEE
Confidence 57889999999998876
No 71
>PRK12415 fructose 1,6-bisphosphatase II; Reviewed
Probab=21.22 E-value=67 Score=26.52 Aligned_cols=21 Identities=29% Similarity=0.415 Sum_probs=17.9
Q ss_pred hhhhhhhhhcceEEecch-hhh
Q 045775 5 YIISIARKLGCSIFLLPE-DIT 25 (87)
Q Consensus 5 yaISiARKlGa~IfllpE-DIv 25 (87)
..|.-.|+.||+|.|+++ ||.
T Consensus 169 ~lI~eir~~Gari~Li~DGDV~ 190 (322)
T PRK12415 169 DIIDRVRAKGARVKLFGDGDVG 190 (322)
T ss_pred HHHHHHHHcCCeEEEeccccHH
Confidence 357778999999999999 873
No 72
>PF15240 Pro-rich: Proline-rich
Probab=20.89 E-value=96 Score=23.66 Aligned_cols=21 Identities=14% Similarity=0.354 Sum_probs=14.8
Q ss_pred hhHHHHHHHHHHhhcCCcccc
Q 045775 31 MILTLTASIMHWFMKQPVEEK 51 (87)
Q Consensus 31 MimT~~AsLM~~~~~~~~~~~ 51 (87)
+|++|.|.|++++-.+..++-
T Consensus 2 LlVLLSvALLALSSAQ~~dEd 22 (179)
T PF15240_consen 2 LLVLLSVALLALSSAQSTDED 22 (179)
T ss_pred hhHHHHHHHHHhhhccccccc
Confidence 355566899999887765443
No 73
>cd08242 MDR_like Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group contains members identified as related to zinc-dependent alcohol dehydrogenase and other members of the MDR family, including threonine dehydrogenase. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group includes various activities, including the founding alcohol dehydrogenase (ADH), quinone reducta
Probab=20.82 E-value=65 Score=23.12 Aligned_cols=17 Identities=18% Similarity=0.256 Sum_probs=14.4
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+|+++|+.|+++
T Consensus 169 ~~~~q~a~~~G~~vi~~ 185 (319)
T cd08242 169 LLIAQVLALTGPDVVLV 185 (319)
T ss_pred HHHHHHHHHcCCeEEEE
Confidence 46789999999998876
No 74
>KOG0024 consensus Sorbitol dehydrogenase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=20.58 E-value=61 Score=27.22 Aligned_cols=15 Identities=20% Similarity=0.377 Sum_probs=13.2
Q ss_pred hhhhhhhhcceEEec
Q 045775 6 IISIARKLGCSIFLL 20 (87)
Q Consensus 6 aISiARKlGa~Ifll 20 (87)
.|.+|||+||++|.-
T Consensus 206 Rle~Ak~~Ga~~~~~ 220 (354)
T KOG0024|consen 206 RLELAKKFGATVTDP 220 (354)
T ss_pred HHHHHHHhCCeEEee
Confidence 578999999999975
No 75
>cd05288 PGDH Prostaglandin dehydrogenases. Prostaglandins and related eicosanoids are metabolized by the oxidation of the 15(S)-hydroxyl group of the NAD+-dependent (type I 15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH) followed by reduction by NADPH/NADH-dependent (type II 15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to 15-keto-13,14,-dihydroprostaglandins. 13-PGR is a bifunctional enzyme, since it also has leukotriene B(4) 12-hydroxydehydrogenase activity. These 15-PGDH and related enzymes are members of the medium chain dehydrogenase/reductase family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
Probab=20.44 E-value=68 Score=22.88 Aligned_cols=17 Identities=24% Similarity=0.368 Sum_probs=14.4
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
.+++.+||+.|+.|+.+
T Consensus 160 ~~~~~~a~~~G~~vi~~ 176 (329)
T cd05288 160 SVVGQIAKLLGARVVGI 176 (329)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 56789999999998876
No 76
>cd08267 MDR1 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group is a member of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, but lacks the zinc-binding sites of the zinc-dependent alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcoh
Probab=20.28 E-value=70 Score=22.31 Aligned_cols=17 Identities=29% Similarity=0.550 Sum_probs=14.8
Q ss_pred hhhhhhhhhhcceEEec
Q 045775 4 TYIISIARKLGCSIFLL 20 (87)
Q Consensus 4 kyaISiARKlGa~Ifll 20 (87)
..++.+||.+|+.||.+
T Consensus 158 ~~~~~la~~~g~~v~~~ 174 (319)
T cd08267 158 TFAVQIAKALGAHVTGV 174 (319)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46789999999999986
No 77
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=20.16 E-value=69 Score=21.30 Aligned_cols=21 Identities=29% Similarity=0.539 Sum_probs=18.0
Q ss_pred hhhhhhhhhhcceEEecchhh
Q 045775 4 TYIISIARKLGCSIFLLPEDI 24 (87)
Q Consensus 4 kyaISiARKlGa~IfllpEDI 24 (87)
+.+|..|+++|--+|.+|.++
T Consensus 89 ~~~i~~A~~~~lPli~ip~~~ 109 (123)
T PF07905_consen 89 EEIIELADELGLPLIEIPWEV 109 (123)
T ss_pred HHHHHHHHHcCCCEEEeCCCC
Confidence 457889999999999999864
No 78
>cd05285 sorbitol_DH Sorbitol dehydrogenase. Sorbitol and aldose reductase are NAD(+) binding proteins of the polyol pathway, which interconverts glucose and fructose. Sorbitol dehydrogenase is tetrameric and has a single catalytic zinc per subunit. Aldose reductase catalyzes the NADP(H)-dependent conversion of glucose to sorbital, and SDH uses NAD(H) in the conversion of sorbitol to fructose. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. The medium chain alcohol dehydrogenase family (MDR) have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit.
Probab=20.15 E-value=63 Score=23.70 Aligned_cols=18 Identities=11% Similarity=0.390 Sum_probs=15.0
Q ss_pred chhhhhhhhhhcce-EEec
Q 045775 3 ATYIISIARKLGCS-IFLL 20 (87)
Q Consensus 3 AkyaISiARKlGa~-Ifll 20 (87)
...++.+||++|+. ||++
T Consensus 175 G~~a~~lak~~G~~~v~~~ 193 (343)
T cd05285 175 GLLTAAVAKAFGATKVVVT 193 (343)
T ss_pred HHHHHHHHHHcCCcEEEEE
Confidence 35789999999998 8776
No 79
>COG0604 Qor NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]
Probab=20.08 E-value=66 Score=24.91 Aligned_cols=15 Identities=27% Similarity=0.578 Sum_probs=10.8
Q ss_pred hhhhhhhhhhcceEE
Q 045775 4 TYIISIARKLGCSIF 18 (87)
Q Consensus 4 kyaISiARKlGa~If 18 (87)
.++|++|+++|+++.
T Consensus 157 ~~aiQlAk~~G~~~v 171 (326)
T COG0604 157 SAAIQLAKALGATVV 171 (326)
T ss_pred HHHHHHHHHcCCcEE
Confidence 468888888885543
No 80
>KOG2380 consensus Prephenate dehydrogenase (NADP+) [Amino acid transport and metabolism]
Probab=20.08 E-value=35 Score=29.57 Aligned_cols=28 Identities=32% Similarity=0.440 Sum_probs=25.4
Q ss_pred hhhhhhcceEEecchhhhhhchhhhHHH
Q 045775 8 SIARKLGCSIFLLPEDITEVNQKMILTL 35 (87)
Q Consensus 8 SiARKlGa~IfllpEDIveVk~KMimT~ 35 (87)
|.|+|+|+.-|-++-|+||-.|..|+.-
T Consensus 88 saa~~yg~~~ft~lhdlcerhpDvvLlc 115 (480)
T KOG2380|consen 88 SAAEKYGSAKFTLLHDLCERHPDVVLLC 115 (480)
T ss_pred HHHHHhcccccccHHHHHhcCCCEEEEE
Confidence 6899999999999999999999988753
No 81
>cd08297 CAD3 Cinnamyl alcohol dehydrogenases (CAD). These alcohol dehydrogenases are related to the cinnamyl alcohol dehydrogenases (CAD), members of the medium chain dehydrogenase/reductase family. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Cinnamyl alcohol dehydrogenases (CAD) reduce cinnamaldehydes to cinnamyl alcohols in the last step of monolignal metabolism in plant cells walls. CAD binds 2 zinc ions and is NADPH- dependent. CAD family members are also found in non-plant species, e.g. in yeast where they have an aldehyde reductase activity. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short cha
Probab=20.05 E-value=71 Score=23.17 Aligned_cols=18 Identities=11% Similarity=0.305 Sum_probs=15.5
Q ss_pred chhhhhhhhhhcceEEec
Q 045775 3 ATYIISIARKLGCSIFLL 20 (87)
Q Consensus 3 AkyaISiARKlGa~Ifll 20 (87)
..+++.+||.+|+.||++
T Consensus 179 g~~~~~~a~~~g~~v~~~ 196 (341)
T cd08297 179 GHLGVQYAKAMGLRVIAI 196 (341)
T ss_pred HHHHHHHHHHCCCeEEEE
Confidence 357899999999999886
Done!