Query psy6366
Match_columns 101
No_of_seqs 100 out of 634
Neff 7.1
Searched_HMMs 46136
Date Sat Aug 17 00:38:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6366.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6366hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3704|consensus 99.9 2.8E-27 6E-32 175.5 6.4 89 1-91 126-214 (360)
2 KOG3703|consensus 99.8 2.5E-20 5.3E-25 148.9 5.5 95 1-96 614-716 (873)
3 PF00685 Sulfotransfer_1: Sulf 98.4 6.9E-08 1.5E-12 68.7 -0.4 90 2-92 21-129 (267)
4 PLN02164 sulfotransferase 97.4 5.7E-05 1.2E-09 58.3 1.1 25 66-90 164-188 (346)
5 PF03567 Sulfotransfer_2: Sulf 97.0 0.00075 1.6E-08 47.4 3.7 26 67-92 78-103 (253)
6 PF13469 Sulfotransfer_3: Sulf 96.7 0.0054 1.2E-07 41.1 5.5 38 41-90 113-150 (215)
7 PF06990 Gal-3-0_sulfotr: Gala 94.4 0.059 1.3E-06 42.5 4.1 32 59-90 139-171 (402)
8 KOG3922|consensus 93.2 0.082 1.8E-06 40.7 2.7 28 66-93 159-186 (361)
9 KOG3955|consensus 90.7 0.22 4.7E-06 38.1 2.5 28 67-94 158-185 (361)
10 KOG1584|consensus 87.8 0.4 8.7E-06 36.6 2.1 28 66-93 123-150 (297)
11 KOG4651|consensus 85.8 1.5 3.2E-05 33.8 4.3 30 63-92 142-171 (324)
12 KOG3988|consensus 80.9 1.8 3.9E-05 33.4 3.0 38 44-81 150-191 (378)
13 PF09037 Sulphotransf: Stf0 su 80.3 2.7 5.9E-05 30.9 3.7 32 60-91 106-138 (245)
14 PF14545 DBB: Dof, BCAP, and B 61.0 2.1 4.5E-05 29.4 -0.6 21 57-79 4-24 (142)
15 COG3130 Rmf Ribosome modulatio 57.7 6.5 0.00014 22.5 1.1 12 75-86 6-17 (55)
16 PF00056 Ldh_1_N: lactate/mala 56.2 28 0.00061 23.1 4.3 32 56-89 100-131 (141)
17 KOG2782|consensus 56.1 7.6 0.00016 29.1 1.6 31 57-87 57-87 (303)
18 PF05398 PufQ: PufQ cytochrome 53.9 7.9 0.00017 23.7 1.2 12 74-85 52-63 (73)
19 PF08885 GSCFA: GSCFA family; 51.5 14 0.0003 27.5 2.4 18 57-74 157-174 (251)
20 PF09949 DUF2183: Uncharacteri 40.1 31 0.00066 22.0 2.4 19 56-74 53-71 (100)
21 COG2327 WcaK Polysaccharide py 31.9 41 0.00089 26.7 2.4 21 57-77 23-43 (385)
22 PF02254 TrkA_N: TrkA-N domain 29.0 1.2E+02 0.0026 18.6 3.8 26 56-81 78-103 (116)
23 PLN00135 malate dehydrogenase 28.5 54 0.0012 25.0 2.4 26 56-82 89-115 (309)
24 KOG1481|consensus 27.6 79 0.0017 24.7 3.2 28 60-87 340-368 (391)
25 cd00650 LDH_MDH_like NAD-depen 27.5 61 0.0013 23.5 2.5 29 56-85 101-129 (263)
26 PF00072 Response_reg: Respons 26.4 1.1E+02 0.0023 18.1 3.2 39 40-78 44-82 (112)
27 cd05291 HicDH_like L-2-hydroxy 25.9 69 0.0015 23.9 2.6 26 56-82 99-124 (306)
28 cd02068 radical_SAM_B12_BD B12 25.5 35 0.00076 21.8 0.9 25 54-78 55-79 (127)
29 PF07507 WavE: WavE lipopolysa 23.8 65 0.0014 24.7 2.1 19 55-73 23-41 (311)
30 cd00300 LDH_like L-lactate deh 23.7 73 0.0016 23.8 2.4 26 56-82 97-122 (300)
31 PRK14563 ribosome modulation f 23.5 1E+02 0.0022 17.8 2.4 25 75-99 6-30 (55)
32 cd03789 GT1_LPS_heptosyltransf 23.0 1.2E+02 0.0026 21.8 3.4 26 57-82 19-44 (279)
33 COG1519 KdtA 3-deoxy-D-manno-o 22.2 80 0.0017 25.4 2.4 37 56-93 249-285 (419)
34 PF04957 RMF: Ribosome modulat 21.9 79 0.0017 18.2 1.8 25 75-99 6-30 (55)
35 PF07592 DDE_Tnp_ISAZ013: Rhod 21.7 1E+02 0.0023 23.8 2.9 63 29-91 169-246 (311)
36 TIGR01771 L-LDH-NAD L-lactate 21.4 93 0.002 23.4 2.6 31 56-88 95-125 (299)
37 PRK13660 hypothetical protein; 21.3 90 0.0019 22.1 2.3 20 55-74 59-78 (182)
38 PF06855 DUF1250: Protein of u 21.1 74 0.0016 17.2 1.5 8 78-85 38-45 (46)
39 PF00280 potato_inhibit: Potat 20.5 1.2E+02 0.0027 17.6 2.5 19 56-74 14-32 (63)
40 smart00255 TIR Toll - interleu 20.0 1.1E+02 0.0025 19.2 2.5 39 41-79 56-100 (140)
No 1
>KOG3704|consensus
Probab=99.94 E-value=2.8e-27 Score=175.50 Aligned_cols=89 Identities=57% Similarity=1.017 Sum_probs=85.3
Q ss_pred CcCCCCCcccCCCcccccCCCCcchhhHHHHHHhCCCCCCCcEEEecCCCcccCCcHHHHHHhhCCCCcEEEEecChHHH
Q psy6366 1 MLYLHPRIQKAAGEVHYFDRDENYARGLEWYRRQMPPSYAEQVTIEKSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTR 80 (101)
Q Consensus 1 ~L~~HP~i~~~~kE~~ff~~~~~~~~~~~~Y~~~f~~~~~~~~~ge~Sp~Y~~~~~~~~ri~~~~P~~KiI~iLRdPv~R 80 (101)
+|..||||.....|+||||+ +|.+|++||++++|..-++||++|+||+|+...++|+||++++||+|+|+|+||||.|
T Consensus 126 ~l~lhpdVra~~~e~hffD~--~y~~gl~wyr~~MP~tl~~qItmEKTPsYFvt~e~P~Rv~~M~pd~KLivvvR~PvtR 203 (360)
T KOG3704|consen 126 FLRLHPDVRAVGSEPHFFDR--NYTRGLDWYRSQMPRTLDGQITMEKTPSYFVTREVPKRVYSMNPDTKLIVVVRDPVTR 203 (360)
T ss_pred HHhhChhhhhhccCCccccc--cccccchhHHhcCCcccCCceEEecCchhhcccccchHHHhcCCCceEEEEEcCchhh
Confidence 47789999998999999996 9999999999999999899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHh
Q psy6366 81 AISDYTQLKIH 91 (101)
Q Consensus 81 a~S~y~~~~~~ 91 (101)
|+|+|.+...+
T Consensus 204 aiSDyTQt~sk 214 (360)
T KOG3704|consen 204 AISDYTQTLSK 214 (360)
T ss_pred hHHHHHHHHhc
Confidence 99999998884
No 2
>KOG3703|consensus
Probab=99.81 E-value=2.5e-20 Score=148.85 Aligned_cols=95 Identities=29% Similarity=0.600 Sum_probs=84.9
Q ss_pred CcCCCCCcccC------CCcccccCCCCcchhhHHHHHHhCCCCC--CCcEEEecCCCcccCCcHHHHHHhhCCCCcEEE
Q psy6366 1 MLYLHPRIQKA------AGEVHYFDRDENYARGLEWYRRQMPPSY--AEQVTIEKSPSYFVTPEAPERIRAMNASIRLLV 72 (101)
Q Consensus 1 ~L~~HP~i~~~------~kE~~ff~~~~~~~~~~~~Y~~~f~~~~--~~~~~ge~Sp~Y~~~~~~~~ri~~~~P~~KiI~ 72 (101)
||+.||+|... -.|..||+. .||.+|++||.+.||-.+ ......|+|.+|+.++.+|+|-.+++|.+|||.
T Consensus 614 FLsmHp~i~sn~psp~tFEEvQFFng-~NY~kGidWYMdfFP~psn~~tdf~FEKSAtYFdse~aPkraasLvP~AKIvt 692 (873)
T KOG3703|consen 614 FLSMHPSISSNTPSPETFEEVQFFNG-NNYHKGIDWYMDFFPVPSNTTTDFLFEKSATYFDSEVAPKRAASLVPHAKIVT 692 (873)
T ss_pred HHhhCcchhcCCCCCCchhheeeccC-CccccchhhHHhcCCCCccccchheeeccccccCCcccchhhhhhCCcceEEE
Confidence 68999999872 459999997 589999999999999422 234569999999999999999999999999999
Q ss_pred EecChHHHHHHHHHHHHHhcCCCC
Q psy6366 73 IVRDPVTRAISDYTQLKIHAAATS 96 (101)
Q Consensus 73 iLRdPv~Ra~S~y~~~~~~~~~~~ 96 (101)
||-||.+||||.|+|+++++++.+
T Consensus 693 ILinPadRAYSWyQHqraH~DpvA 716 (873)
T KOG3703|consen 693 ILINPADRAYSWYQHQRAHEDPVA 716 (873)
T ss_pred EEeChHHhhhHHHHHHhhcCCcce
Confidence 999999999999999999999875
No 3
>PF00685 Sulfotransfer_1: Sulfotransferase domain; InterPro: IPR000863 This family includes a range of sulphotransferase proteins including flavonyl 3-sulphotransferase, aryl sulphotransferase, alcohol sulphotransferase, oestrogen sulphotransferase and phenol-sulphating phenol sulphotransferase. These enzymes are responsible for the transfer of sulphate groups to specific compounds.; GO: 0008146 sulfotransferase activity; PDB: 3MGC_A 3MGB_A 3MG9_A 1G3M_B 1HY3_B 2QP4_A 3F3Y_C 1EFH_A 1OV4_A 1J99_A ....
Probab=98.35 E-value=6.9e-08 Score=68.65 Aligned_cols=90 Identities=28% Similarity=0.423 Sum_probs=51.7
Q ss_pred cCCCCCcccC--CCcccccCCCCcchhhHHHHHHhCCCCCCCc---------------EEEecCCCcccCCcHHH--HHH
Q psy6366 2 LYLHPRIQKA--AGEVHYFDRDENYARGLEWYRRQMPPSYAEQ---------------VTIEKSPSYFVTPEAPE--RIR 62 (101)
Q Consensus 2 L~~HP~i~~~--~kE~~ff~~~~~~~~~~~~Y~~~f~~~~~~~---------------~~ge~Sp~Y~~~~~~~~--ri~ 62 (101)
|+.||++... .+|.++++. ..+..+++++.+.++...... +....++..+....... ...
T Consensus 21 L~~h~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~~~~~~~ 99 (267)
T PF00685_consen 21 LNSHPDIFSFSPFKEPHFFNN-RDYSPFLEWYRDFFPFRIKPQEHIPSFSHVESKIVRLRDLPSPRFIKTHLPLDLLPKK 99 (267)
T ss_dssp HHHHHTTTETHHHTSSHHTTT-HHHSTBTTHHHHTSHEEGTTTEEEGGCTTTETHHHHHHCSCSSEEEEE-S-GGGSHHH
T ss_pred HHhCcccccccccccccccch-hhhhhhhhhhhcccccccccccccccccccchhHHHHhhccCchhhhhcccccccccc
Confidence 6678888874 578888876 556667777766544110000 00001111111000001 111
Q ss_pred hhCCCCcEEEEecChHHHHHHHHHHHHHhc
Q psy6366 63 AMNASIRLLVIVRDPVTRAISDYTQLKIHA 92 (101)
Q Consensus 63 ~~~P~~KiI~iLRdPv~Ra~S~y~~~~~~~ 92 (101)
...|++|+|+|+|||.+++.|.|.+....+
T Consensus 100 ~~~~~~KiI~ivRdP~d~~~S~~~~~~~~~ 129 (267)
T PF00685_consen 100 LLFPNAKIIYIVRDPRDVIVSRYKHSWRSN 129 (267)
T ss_dssp HHHTTEEEEEEE--HHHHHHHHHHHHHHBT
T ss_pred ccccccccceecccccchhHHHHHHHHhcc
Confidence 236999999999999999999999998775
No 4
>PLN02164 sulfotransferase
Probab=97.40 E-value=5.7e-05 Score=58.25 Aligned_cols=25 Identities=32% Similarity=0.408 Sum_probs=22.2
Q ss_pred CCCcEEEEecChHHHHHHHHHHHHH
Q psy6366 66 ASIRLLVIVRDPVTRAISDYTQLKI 90 (101)
Q Consensus 66 P~~KiI~iLRdPv~Ra~S~y~~~~~ 90 (101)
|++|+|+|+|||.|+++|.|++...
T Consensus 164 ~~~KiIyv~RnPkDv~VS~yhf~~~ 188 (346)
T PLN02164 164 SGCKMVYIWRDPKDTFISMWTFLHK 188 (346)
T ss_pred CCceEEEEecCchhheeeHHHHHhh
Confidence 5899999999999999999987543
No 5
>PF03567 Sulfotransfer_2: Sulfotransferase family; InterPro: IPR005331 This entry consists of a number of carbohydrate sulphotransferases that transfer sulphate to carbohydrate groups in glycoproteins and glycolipids. These include: Carbohydrate sulphotransferases 8 and 9, which transfer sulphate to position 4 of non-reducing N-acetylgalactosamine (GalNAc) residues in both N-glycans and O-glycans []. They function in the biosynthesis of glycoprotein hormones lutropin and thyrotropin, by mediating sulphation of their carbohydrate structures. Carbohydrate sulphotransferase 10, which transfers sulphate to position 3 of the terminal glucuronic acid in both protein- and lipid-linked oligosaccharides []. It directs the biosynthesis of the HNK-1 carbohydrate structure, a sulphated glucuronyl-lactosaminyl residue carried by many neural recognition molecules, which is involved in cell interactions during ontogenetic development and in synaptic plasticity in the adult. Carbohydrate sulphotransferases 11 - 13, which catalyze the transfer of sulphate to position 4 of the GalNAc residue of chondroitin []. Chondroitin sulphate constitutes the predominant proteoglycan present in cartilage and is distributed on the surfaces of many cells and extracellular matrices. Some, thought not all, of these enzymes also transfer sulphate to dermatan. Carbohydrate sulphotransferase D4ST1, which transfers sulphate to position 4 of the GalNAc residue of dermatan sulphate []. Heparan sulphate 2-O-sulphotransferase (HS2ST). Heparan sulphate (HS) is a co-receptor for a number of growth factors, morphogens, and adhesion proteins. HS biosynthetic modifications may determine the strength and outcome of HS-ligand interactions. Mice that lack HS2ST undergo developmental failure only after midgestation,the most dramatic effect being the complete failure of kidney development []. Heparan-sulphate 6-O-sulphotransferase (HS6ST), which catalyses the transfer of sulphate from adenosine 3'-phosphate, 5'-phosphosulphate to the 6th position of the N -sulphoglucosamine residue in heparan sulphate []. Chondroitin 6-sulphotransferase catalyses the transfer of sulphate to position 6 of the N-acetylgalactosamine residue of chondroitin []. ; GO: 0008146 sulfotransferase activity, 0016021 integral to membrane; PDB: 3F5F_A.
Probab=97.04 E-value=0.00075 Score=47.42 Aligned_cols=26 Identities=35% Similarity=0.422 Sum_probs=19.6
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHhc
Q psy6366 67 SIRLLVIVRDPVTRAISDYTQLKIHA 92 (101)
Q Consensus 67 ~~KiI~iLRdPv~Ra~S~y~~~~~~~ 92 (101)
+...|.++|||++|++|.|.+....+
T Consensus 78 ~~~~~t~vRdP~~R~vS~y~~~~~~~ 103 (253)
T PF03567_consen 78 SYFKFTFVRDPVDRLVSAYYDKIRRG 103 (253)
T ss_dssp --EEEEEE--HHHHHHHHHHHHHH-B
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhcC
Confidence 68899999999999999999988744
No 6
>PF13469 Sulfotransfer_3: Sulfotransferase family; PDB: 3AP1_B 3AP3_B 3AP2_B 3RNL_A 2Z6V_A 2ZQ5_A.
Probab=96.69 E-value=0.0054 Score=41.12 Aligned_cols=38 Identities=29% Similarity=0.263 Sum_probs=27.8
Q ss_pred CcEEEecCCCcccCCcHHHHHHhhCCCCcEEEEecChHHHHHHHHHHHHH
Q psy6366 41 EQVTIEKSPSYFVTPEAPERIRAMNASIRLLVIVRDPVTRAISDYTQLKI 90 (101)
Q Consensus 41 ~~~~ge~Sp~Y~~~~~~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y~~~~~ 90 (101)
....++++|..+ ..|+ |||.|+|||++-+.|...+...
T Consensus 113 ~~~~~~k~~~~~-----------~~p~-~~V~i~RdP~~~~~S~~~~~~~ 150 (215)
T PF13469_consen 113 RPPWLLKSPRHL-----------LFPD-RFVHIVRDPRDVAASWLRMFLR 150 (215)
T ss_dssp -SEEEEESCGHH-----------HSTT-EEEEEE--HHHHHHHHHHHCHH
T ss_pred cceeeecChHHh-----------hCCC-eEEEEEeChHHHHhhHHHHhhh
Confidence 455666776555 7999 9999999999999998777643
No 7
>PF06990 Gal-3-0_sulfotr: Galactose-3-O-sulfotransferase ; InterPro: IPR009729 This family consists of several mammalian galactose-3-O-sulphotransferase proteins. Gal-3-O-sulphotransferase is thought to play a critical role in 3'-sulphation of N-acetyllactosamine in both O- and N-glycans [].; GO: 0001733 galactosylceramide sulfotransferase activity, 0009058 biosynthetic process, 0005794 Golgi apparatus, 0016021 integral to membrane
Probab=94.44 E-value=0.059 Score=42.48 Aligned_cols=32 Identities=25% Similarity=0.462 Sum_probs=27.3
Q ss_pred HHHHhhCC-CCcEEEEecChHHHHHHHHHHHHH
Q psy6366 59 ERIRAMNA-SIRLLVIVRDPVTRAISDYTQLKI 90 (101)
Q Consensus 59 ~ri~~~~P-~~KiI~iLRdPv~Ra~S~y~~~~~ 90 (101)
..+.+..| |++.|-|||||+++..|.|.+...
T Consensus 139 ~~~~~lmP~dt~yiTILRdP~~~feS~f~Yy~~ 171 (402)
T PF06990_consen 139 PEVRKLMPPDTKYITILRDPVSHFESSFNYYKR 171 (402)
T ss_pred HHHHHhCCCCCeEEEEEcCHHHHHHhHHHHhhc
Confidence 34677776 799999999999999999998754
No 8
>KOG3922|consensus
Probab=93.15 E-value=0.082 Score=40.70 Aligned_cols=28 Identities=32% Similarity=0.465 Sum_probs=21.8
Q ss_pred CCCcEEEEecChHHHHHHHHHHHHHhcC
Q psy6366 66 ASIRLLVIVRDPVTRAISDYTQLKIHAA 93 (101)
Q Consensus 66 P~~KiI~iLRdPv~Ra~S~y~~~~~~~~ 93 (101)
++---|-|+||||+|..|+|.+.+...+
T Consensus 159 ~~PIYINvIRdPveRllS~yyflRfgd~ 186 (361)
T KOG3922|consen 159 ARPIYINVIRDPVERLLSYYYFLRFGDN 186 (361)
T ss_pred CCceEEeeeccHHHHHHhHhhhhccccc
Confidence 4445677899999999999988765433
No 9
>KOG3955|consensus
Probab=90.74 E-value=0.22 Score=38.11 Aligned_cols=28 Identities=29% Similarity=0.562 Sum_probs=23.2
Q ss_pred CCcEEEEecChHHHHHHHHHHHHHhcCC
Q psy6366 67 SIRLLVIVRDPVTRAISDYTQLKIHAAA 94 (101)
Q Consensus 67 ~~KiI~iLRdPv~Ra~S~y~~~~~~~~~ 94 (101)
+---|.+||||++|.+|+|+|..+.+.-
T Consensus 158 ~~fY~t~Lr~p~~r~~se~rhvqrgatw 185 (361)
T KOG3955|consen 158 NFHYITILRDPVSRYLSEWRHVQRGATW 185 (361)
T ss_pred ceEEEEEecCchHHHHHHHHHHHhcchh
Confidence 4446889999999999999998887543
No 10
>KOG1584|consensus
Probab=87.79 E-value=0.4 Score=36.59 Aligned_cols=28 Identities=14% Similarity=0.310 Sum_probs=24.5
Q ss_pred CCCcEEEEecChHHHHHHHHHHHHHhcC
Q psy6366 66 ASIRLLVIVRDPVTRAISDYTQLKIHAA 93 (101)
Q Consensus 66 P~~KiI~iLRdPv~Ra~S~y~~~~~~~~ 93 (101)
.+.|||++.|||=|=++|-|++.+....
T Consensus 123 ~~cKvVYv~RNpKD~~VSy~hf~~~~~~ 150 (297)
T KOG1584|consen 123 SKCKVVYVCRNPKDVLVSYYHFNRMLKT 150 (297)
T ss_pred CCCcEEEEecCccceeeeHHHHHhhhcc
Confidence 4899999999999999999998877543
No 11
>KOG4651|consensus
Probab=85.80 E-value=1.5 Score=33.80 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=24.7
Q ss_pred hhCCCCcEEEEecChHHHHHHHHHHHHHhc
Q psy6366 63 AMNASIRLLVIVRDPVTRAISDYTQLKIHA 92 (101)
Q Consensus 63 ~~~P~~KiI~iLRdPv~Ra~S~y~~~~~~~ 92 (101)
..+.+.--++++|||++|.+|.|.-..-+.
T Consensus 142 ~~~~~~~kfaFIRDP~eRFVS~y~dKcv~~ 171 (324)
T KOG4651|consen 142 KNLKDTVKFAFIRDPFERFVSAYLDKCVNE 171 (324)
T ss_pred hcccCeEEEEEecCcHHHHHHHHHHHHhcc
Confidence 446777778889999999999999876654
No 12
>KOG3988|consensus
Probab=80.89 E-value=1.8 Score=33.38 Aligned_cols=38 Identities=18% Similarity=0.237 Sum_probs=25.4
Q ss_pred EEecCCCccc-CCcHH---HHHHhhCCCCcEEEEecChHHHH
Q psy6366 44 TIEKSPSYFV-TPEAP---ERIRAMNASIRLLVIVRDPVTRA 81 (101)
Q Consensus 44 ~ge~Sp~Y~~-~~~~~---~ri~~~~P~~KiI~iLRdPv~Ra 81 (101)
-||-+|.-.. +|-+. .-+.+++||+||++++||==+-+
T Consensus 150 Hge~AprLCNKDPftlk~~~yl~rLfPNAKfllMvRDgRAtV 191 (378)
T KOG3988|consen 150 HGEPAPRLCNKDPFTLKSLVYLSRLFPNAKFLLMVRDGRATV 191 (378)
T ss_pred cCCcccccccCCchHHHHHHHHHHHCCCceEEEEEecchHHH
Confidence 4666674333 44333 35788899999999999964433
No 13
>PF09037 Sulphotransf: Stf0 sulphotransferase; InterPro: IPR024628 Members of this family are essential for the biosynthesis of sulpholipid-1 in prokaryotes. They adopt a structure that belongs to the sulphotransferase superfamily, consisting of a single domain with a core four-stranded parallel beta-sheet flanked by alpha-helices []. ; PDB: 1TEX_B.
Probab=80.32 E-value=2.7 Score=30.89 Aligned_cols=32 Identities=16% Similarity=0.271 Sum_probs=25.0
Q ss_pred HHHhhCCCCcEEEEec-ChHHHHHHHHHHHHHh
Q psy6366 60 RIRAMNASIRLLVIVR-DPVTRAISDYTQLKIH 91 (101)
Q Consensus 60 ri~~~~P~~KiI~iLR-dPv~Ra~S~y~~~~~~ 91 (101)
.|...+|++|+|.+-| |-++.|+|.+.....+
T Consensus 106 ~i~~~~~~~~~I~L~R~d~l~QAvS~~~A~qtg 138 (245)
T PF09037_consen 106 FIEDLFGDVKFIHLRRRDLLRQAVSLWRARQTG 138 (245)
T ss_dssp HHHHHHTS-EEEEEE-S-HHHHHHHHHHHHHHS
T ss_pred HHHHHcCCeEEEEEEeCCHHHHHHHHHHHHhCC
Confidence 5777788999999997 9999999999886655
No 14
>PF14545 DBB: Dof, BCAP, and BANK (DBB) motif,
Probab=60.98 E-value=2.1 Score=29.41 Aligned_cols=21 Identities=38% Similarity=0.808 Sum_probs=16.7
Q ss_pred HHHHHHhhCCCCcEEEEecChHH
Q psy6366 57 APERIRAMNASIRLLVIVRDPVT 79 (101)
Q Consensus 57 ~~~ri~~~~P~~KiI~iLRdPv~ 79 (101)
.|.+|+.-.+ ||++|||||++
T Consensus 4 ~P~rI~cg~~--~vfIiL~~~l~ 24 (142)
T PF14545_consen 4 QPSRIRCGQP--EVFIILRDPLD 24 (142)
T ss_pred cCceeecCCC--EEEEEEeCCCC
Confidence 3567777666 99999999985
No 15
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=57.67 E-value=6.5 Score=22.46 Aligned_cols=12 Identities=33% Similarity=0.255 Sum_probs=10.0
Q ss_pred cChHHHHHHHHH
Q psy6366 75 RDPVTRAISDYT 86 (101)
Q Consensus 75 RdPv~Ra~S~y~ 86 (101)
|||++||.|.=.
T Consensus 6 RDrLERA~~rGY 17 (55)
T COG3130 6 RDRLERAHQRGY 17 (55)
T ss_pred hhHHHHHHHHHH
Confidence 899999998643
No 16
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=56.21 E-value=28 Score=23.10 Aligned_cols=32 Identities=19% Similarity=0.322 Sum_probs=21.2
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHHHHHHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAISDYTQLK 89 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y~~~~ 89 (101)
+..+.|.+..|+.++ +++-||++ +.....+..
T Consensus 100 ~~~~~i~~~~p~~~v-ivvtNPvd-~~t~~~~~~ 131 (141)
T PF00056_consen 100 EIAKKIAKYAPDAIV-IVVTNPVD-VMTYVAQKY 131 (141)
T ss_dssp HHHHHHHHHSTTSEE-EE-SSSHH-HHHHHHHHH
T ss_pred HHHHHHHHhCCccEE-EEeCCcHH-HHHHHHHHh
Confidence 455678888899965 45599999 555444443
No 17
>KOG2782|consensus
Probab=56.13 E-value=7.6 Score=29.13 Aligned_cols=31 Identities=19% Similarity=0.421 Sum_probs=26.9
Q ss_pred HHHHHHhhCCCCcEEEEecChHHHHHHHHHH
Q psy6366 57 APERIRAMNASIRLLVIVRDPVTRAISDYTQ 87 (101)
Q Consensus 57 ~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y~~ 87 (101)
--.+|.+-.|++|.-++-|||++|..-+++-
T Consensus 57 Ht~~ilqk~se~k~yalDrDP~A~~La~~~s 87 (303)
T KOG2782|consen 57 HTSSILQKHSELKNYALDRDPVARKLAHFHS 87 (303)
T ss_pred chHHHHHhCcHhhhhhhccChHHHHHHHHhh
Confidence 3567888899999999999999999988765
No 18
>PF05398 PufQ: PufQ cytochrome subunit; InterPro: IPR008800 This family consists of bacterial PufQ proteins. PufQ is required for bacteriochlorophyll biosynthesis serving a regulatory function in the formation of photosynthetic complexes [].; GO: 0015979 photosynthesis, 0030494 bacteriochlorophyll biosynthetic process
Probab=53.87 E-value=7.9 Score=23.67 Aligned_cols=12 Identities=33% Similarity=0.562 Sum_probs=10.3
Q ss_pred ecChHHHHHHHH
Q psy6366 74 VRDPVTRAISDY 85 (101)
Q Consensus 74 LRdPv~Ra~S~y 85 (101)
.+.|+.||||+=
T Consensus 52 ~~GPiarAwseA 63 (73)
T PF05398_consen 52 EKGPIARAWSEA 63 (73)
T ss_pred ccChhHHHHHhc
Confidence 589999999974
No 19
>PF08885 GSCFA: GSCFA family; InterPro: IPR014982 This group of proteins are functionally uncharacterised. They have been named GSCFA after a highly conserved N-terminal motif in the alignment, they are functionally uncharacterised.
Probab=51.53 E-value=14 Score=27.45 Aligned_cols=18 Identities=22% Similarity=0.551 Sum_probs=15.3
Q ss_pred HHHHHHhhCCCCcEEEEe
Q psy6366 57 APERIRAMNASIRLLVIV 74 (101)
Q Consensus 57 ~~~ri~~~~P~~KiI~iL 74 (101)
..++|++.+|++|||+.+
T Consensus 157 ~~~~l~~~nP~~kiilTV 174 (251)
T PF08885_consen 157 IIDLLRSINPDIKIILTV 174 (251)
T ss_pred HHHHHHhhCCCceEEEEe
Confidence 366788899999999987
No 20
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=40.12 E-value=31 Score=22.03 Aligned_cols=19 Identities=21% Similarity=0.200 Sum_probs=16.3
Q ss_pred cHHHHHHhhCCCCcEEEEe
Q psy6366 56 EAPERIRAMNASIRLLVIV 74 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iL 74 (101)
...++|.+.+|+.|+|+|-
T Consensus 53 ~~i~~i~~~fP~~kfiLIG 71 (100)
T PF09949_consen 53 DNIERILRDFPERKFILIG 71 (100)
T ss_pred HHHHHHHHHCCCCcEEEEe
Confidence 4677888999999999985
No 21
>COG2327 WcaK Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]
Probab=31.92 E-value=41 Score=26.69 Aligned_cols=21 Identities=29% Similarity=0.542 Sum_probs=17.6
Q ss_pred HHHHHHhhCCCCcEEEEecCh
Q psy6366 57 APERIRAMNASIRLLVIVRDP 77 (101)
Q Consensus 57 ~~~ri~~~~P~~KiI~iLRdP 77 (101)
..+.|++..||+|+++|.|.|
T Consensus 23 ll~~l~~~~~~~~~~~~~~~p 43 (385)
T COG2327 23 LLDMLRRLNPDAKVLVMGRRP 43 (385)
T ss_pred HHHHHHhhCcccceeeeecCC
Confidence 455677788999999999988
No 22
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=28.99 E-value=1.2e+02 Score=18.56 Aligned_cols=26 Identities=27% Similarity=0.373 Sum_probs=21.6
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRA 81 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra 81 (101)
.+...+++++|++++|+.+.++-...
T Consensus 78 ~~~~~~r~~~~~~~ii~~~~~~~~~~ 103 (116)
T PF02254_consen 78 LIALLARELNPDIRIIARVNDPENAE 103 (116)
T ss_dssp HHHHHHHHHTTTSEEEEEESSHHHHH
T ss_pred HHHHHHHHHCCCCeEEEEECCHHHHH
Confidence 46667888899999999999987744
No 23
>PLN00135 malate dehydrogenase
Probab=28.47 E-value=54 Score=24.97 Aligned_cols=26 Identities=12% Similarity=0.322 Sum_probs=20.2
Q ss_pred cHHHHHHhh-CCCCcEEEEecChHHHHH
Q psy6366 56 EAPERIRAM-NASIRLLVIVRDPVTRAI 82 (101)
Q Consensus 56 ~~~~ri~~~-~P~~KiI~iLRdPv~Ra~ 82 (101)
+..+.|.+. .|++++|++- ||++=.-
T Consensus 89 ~i~~~i~~~~~p~aivivvs-NPvDv~t 115 (309)
T PLN00135 89 SQASALEKHAAPDCKVLVVA-NPANTNA 115 (309)
T ss_pred HHHHHHHHhcCCCeEEEEeC-CcHHHHH
Confidence 456678884 8999988877 9998554
No 24
>KOG1481|consensus
Probab=27.61 E-value=79 Score=24.70 Aligned_cols=28 Identities=18% Similarity=0.376 Sum_probs=23.1
Q ss_pred HH-HhhCCCCcEEEEecChHHHHHHHHHH
Q psy6366 60 RI-RAMNASIRLLVIVRDPVTRAISDYTQ 87 (101)
Q Consensus 60 ri-~~~~P~~KiI~iLRdPv~Ra~S~y~~ 87 (101)
|+ +.+-|.-.|+.||||+-.|-.|.+.-
T Consensus 340 ~vAk~LgpG~~iVtilCDsG~rh~sk~~~ 368 (391)
T KOG1481|consen 340 RVAKTLGPGHTIVTILCDSGSRHLSKLFS 368 (391)
T ss_pred HHHHhcCCCceEEEEEeCCcchHHHHhcC
Confidence 44 44568999999999999999998764
No 25
>cd00650 LDH_MDH_like NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family. Members of this family include ubiquitous enzymes like L-lactate dehydrogenases (LDH), L-2-hydroxyisocaproate dehydrogenases, and some malate dehydrogenases (MDH). LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH/MDH-like proteins are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains
Probab=27.50 E-value=61 Score=23.52 Aligned_cols=29 Identities=17% Similarity=0.250 Sum_probs=22.0
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAISDY 85 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y 85 (101)
+..+.|.+.+|++++|++ -||++-.-.-.
T Consensus 101 ~i~~~i~~~~p~a~~i~~-tNP~d~~t~~~ 129 (263)
T cd00650 101 EIGDNIEKYSPDAWIIVV-SNPVDIITYLV 129 (263)
T ss_pred HHHHHHHHHCCCeEEEEe-cCcHHHHHHHH
Confidence 456678888899997777 79998765444
No 26
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=26.37 E-value=1.1e+02 Score=18.07 Aligned_cols=39 Identities=23% Similarity=0.250 Sum_probs=30.3
Q ss_pred CCcEEEecCCCcccCCcHHHHHHhhCCCCcEEEEecChH
Q psy6366 40 AEQVTIEKSPSYFVTPEAPERIRAMNASIRLLVIVRDPV 78 (101)
Q Consensus 40 ~~~~~ge~Sp~Y~~~~~~~~ri~~~~P~~KiI~iLRdPv 78 (101)
++.+..|..-.-....++.+.|++..|++++|++..+.-
T Consensus 44 ~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~ 82 (112)
T PF00072_consen 44 PDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDD 82 (112)
T ss_dssp ESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTS
T ss_pred ceEEEEEeeeccccccccccccccccccccEEEecCCCC
Confidence 567777766544556678999999889999999997655
No 27
>cd05291 HicDH_like L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases. L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. This subfamily is composed of HicDHs and some bacterial L-lactate dehydrogenases (LDH). LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Bacterial LDHs can be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. Members of this subfamily with known structures such as the HicDH of Lactobacillus confusus, the non-allosteric LDH of Lactobacillus pentosus, and the allosteric LDH of Bacillus stearothermophilus, show that they exist as homotetramers. The HicDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine
Probab=25.94 E-value=69 Score=23.91 Aligned_cols=26 Identities=19% Similarity=0.232 Sum_probs=18.6
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAI 82 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~ 82 (101)
+..+.|.+..|++++| ++-||++-.-
T Consensus 99 ~~~~~i~~~~~~~~vi-vvsNP~d~~~ 124 (306)
T cd05291 99 SIVPKIKASGFDGIFL-VASNPVDVIT 124 (306)
T ss_pred HHHHHHHHhCCCeEEE-EecChHHHHH
Confidence 4556788888999754 5559999544
No 28
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=25.54 E-value=35 Score=21.82 Aligned_cols=25 Identities=8% Similarity=0.018 Sum_probs=18.4
Q ss_pred CCcHHHHHHhhCCCCcEEEEecChH
Q psy6366 54 TPEAPERIRAMNASIRLLVIVRDPV 78 (101)
Q Consensus 54 ~~~~~~ri~~~~P~~KiI~iLRdPv 78 (101)
.....+++++..|++++|+---.+.
T Consensus 55 ~~~~~~~ik~~~p~~~iv~GG~~~t 79 (127)
T cd02068 55 ALELAKIAKEVLPNVIVVVGGPHAT 79 (127)
T ss_pred HHHHHHHHHHHCCCCEEEECCcchh
Confidence 3457788999999999887654443
No 29
>PF07507 WavE: WavE lipopolysaccharide synthesis; InterPro: IPR011122 These proteins are encoded by putative wav gene clusters, which are responsible for the synthesis of the core oligosaccharide (OS) region of Vibrio cholerae lipopolysaccharide [].
Probab=23.82 E-value=65 Score=24.72 Aligned_cols=19 Identities=11% Similarity=0.144 Sum_probs=16.1
Q ss_pred CcHHHHHHhhCCCCcEEEE
Q psy6366 55 PEAPERIRAMNASIRLLVI 73 (101)
Q Consensus 55 ~~~~~ri~~~~P~~KiI~i 73 (101)
.++...+++.+|+++||+-
T Consensus 23 ~~~l~siR~~~P~A~IILS 41 (311)
T PF07507_consen 23 KNCLASIRKHFPGAEIILS 41 (311)
T ss_pred HHHHHHHHHhCCCCEEEEE
Confidence 3578899999999999983
No 30
>cd00300 LDH_like L-lactate dehydrogenase-like enzymes. Members of this subfamily are tetrameric NAD-dependent 2-hydroxycarboxylate dehydrogenases including LDHs, L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and LDH-like malate dehydrogenases (MDH). Dehydrogenases catalyze the conversion of carbonyl compounds to alcohols or amino acids. LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Vertebrate LDHs are non-allosteric, but some bacterial LDHs are activated by an allosteric effector such as fructose-1,6-bisphosphate. L-HicDH catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of prot
Probab=23.66 E-value=73 Score=23.80 Aligned_cols=26 Identities=15% Similarity=0.285 Sum_probs=20.0
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAI 82 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~ 82 (101)
+..+.|.+..|++++|++- ||++-.-
T Consensus 97 ~~~~~i~~~~p~~~viv~s-NP~d~~~ 122 (300)
T cd00300 97 SVITNLKKYGPDAIILVVS-NPVDILT 122 (300)
T ss_pred HHHHHHHHhCCCeEEEEcc-ChHHHHH
Confidence 4566788888999977766 9998554
No 31
>PRK14563 ribosome modulation factor; Provisional
Probab=23.53 E-value=1e+02 Score=17.81 Aligned_cols=25 Identities=32% Similarity=0.300 Sum_probs=15.5
Q ss_pred cChHHHHHHHHHHHHHhcCCCCCCC
Q psy6366 75 RDPVTRAISDYTQLKIHAAATSPGP 99 (101)
Q Consensus 75 RdPv~Ra~S~y~~~~~~~~~~~~~~ 99 (101)
||..+||+|.=.+.=-.|.....-|
T Consensus 6 RD~l~RA~~rGYqAGv~GrSke~CP 30 (55)
T PRK14563 6 RDRLERAFSRGYQAGIAGRSKEMCP 30 (55)
T ss_pred hhhHHHHHHHHHhhhccCCCcccCC
Confidence 7899999987555444444444333
No 32
>cd03789 GT1_LPS_heptosyltransferase Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from ADP-heptose to 3-deoxy-D-manno-octulosonic acid (KDO), a part of the inner core component of LPS. This family belongs to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=23.03 E-value=1.2e+02 Score=21.81 Aligned_cols=26 Identities=12% Similarity=0.110 Sum_probs=13.9
Q ss_pred HHHHHHhhCCCCcEEEEecChHHHHH
Q psy6366 57 APERIRAMNASIRLLVIVRDPVTRAI 82 (101)
Q Consensus 57 ~~~ri~~~~P~~KiI~iLRdPv~Ra~ 82 (101)
+.+.+++..|+++|.++.+....-.+
T Consensus 19 ~l~~Lk~~~P~~~I~~l~~~~~~~l~ 44 (279)
T cd03789 19 LLRALKARYPDARITVLAPPWFAPLL 44 (279)
T ss_pred HHHHHHHHCCCCEEEEEEChhhHHHH
Confidence 34455555566666666555444433
No 33
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=22.20 E-value=80 Score=25.42 Aligned_cols=37 Identities=19% Similarity=0.270 Sum_probs=28.6
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHHHHHHHHHHhcC
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAISDYTQLKIHAA 93 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y~~~~~~~~ 93 (101)
++-+++++..||+++|++=|+| +|.-+--....+.|.
T Consensus 249 ~~~~~l~~~~~~~llIlVPRHp-ERf~~v~~l~~~~gl 285 (419)
T COG1519 249 DAHQALKKQFPNLLLILVPRHP-ERFKAVENLLKRKGL 285 (419)
T ss_pred HHHHHHHhhCCCceEEEecCCh-hhHHHHHHHHHHcCC
Confidence 3566777888999999999999 677776666666653
No 34
>PF04957 RMF: Ribosome modulation factor; InterPro: IPR007040 This entry contains ribosome modulation factors (RMF). They associate with 70s ribosomes and converts them to a dimeric form (100S ribosomes) which appear during the transition from the exponential growth phase to the stationary phase of Escherichia colicells [, ]. It has been proposed that RMF mediates the formation of a 'storage ribosome', the 100S particle, in stationary phase by inactivating excess ribosomes to protect them from degradation and to maintain the required balance between the concentrations of ribosomes and protein synthesis factors in order to maintain translational elongation efficiency [, ]. ; PDB: 2JRM_A 3V24_V 3V22_V.
Probab=21.87 E-value=79 Score=18.18 Aligned_cols=25 Identities=28% Similarity=0.271 Sum_probs=15.8
Q ss_pred cChHHHHHHHHHHHHHhcCCCCCCC
Q psy6366 75 RDPVTRAISDYTQLKIHAAATSPGP 99 (101)
Q Consensus 75 RdPv~Ra~S~y~~~~~~~~~~~~~~ 99 (101)
||..+||+++=.+.=-.|.....-|
T Consensus 6 RD~l~RA~~~GYqAG~~Grske~CP 30 (55)
T PF04957_consen 6 RDRLERAYSRGYQAGLSGRSKELCP 30 (55)
T ss_dssp HHHHHHHHHHHHHHHCTTTSGCC--
T ss_pred hhHHHHHHHHHHHhhccCCCcccCC
Confidence 7899999998655554554444444
No 35
>PF07592 DDE_Tnp_ISAZ013: Rhodopirellula transposase DDE domain; InterPro: IPR011518 These transposases are found in the planctomycete Rhodopirellula baltica, the cyanobacterium Nostoc, and the Gram-positive bacterium Streptomyces. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=21.73 E-value=1e+02 Score=23.79 Aligned_cols=63 Identities=16% Similarity=0.209 Sum_probs=43.8
Q ss_pred HHHHHh----CCCCCCCcEEEecCCCcccCC-cHHHHHHhhCCCCcEEEEec---------ChHH-HHHHHHHHHHHh
Q psy6366 29 EWYRRQ----MPPSYAEQVTIEKSPSYFVTP-EAPERIRAMNASIRLLVIVR---------DPVT-RAISDYTQLKIH 91 (101)
Q Consensus 29 ~~Y~~~----f~~~~~~~~~ge~Sp~Y~~~~-~~~~ri~~~~P~~KiI~iLR---------dPv~-Ra~S~y~~~~~~ 91 (101)
.|+... |+.+..=.|+.|.-++--+.. ..-.+|.++.-.+.+-+.++ |||+ |.+|+--++++.
T Consensus 169 ~WW~~~g~~~yp~a~~lli~~D~GgsN~~r~r~wk~~L~~la~~~gl~I~v~hyPP~tSKwN~IEHRlfs~is~~w~G 246 (311)
T PF07592_consen 169 RWWEEMGKARYPHAKRLLITADNGGSNGSRRRLWKKRLQELADETGLSIRVCHYPPGTSKWNPIEHRLFSHISRNWRG 246 (311)
T ss_pred HHHHHhChhhcCchheEEEeccCCCCccchhHHHHHHHHHHHHHhCCEEEEEEcCCCcccccchhhhHhHhhhhhcCC
Confidence 466554 555555567888877766543 34456666666777777776 8999 999999888764
No 36
>TIGR01771 L-LDH-NAD L-lactate dehydrogenase. This model represents the NAD-dependent L-lactate dehydrogenases from bacteria and eukaryotes. This enzyme function as as the final step in anaerobic glycolysis. Although lactate dehydrogenases have in some cases been mistaken for malate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of malate dehydrogenases.
Probab=21.39 E-value=93 Score=23.37 Aligned_cols=31 Identities=13% Similarity=0.064 Sum_probs=20.6
Q ss_pred cHHHHHHhhCCCCcEEEEecChHHHHHHHHHHH
Q psy6366 56 EAPERIRAMNASIRLLVIVRDPVTRAISDYTQL 88 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iLRdPv~Ra~S~y~~~ 88 (101)
+..+.|.+..|++++|++- ||++ +...+.+.
T Consensus 95 ~~~~~i~~~~p~~~vivvs-NP~d-~~t~~~~~ 125 (299)
T TIGR01771 95 SIVPEVVKSGFDGIFLVAT-NPVD-ILTYVAWK 125 (299)
T ss_pred HHHHHHHHhCCCeEEEEeC-CHHH-HHHHHHHH
Confidence 3556677788999966555 9999 44444433
No 37
>PRK13660 hypothetical protein; Provisional
Probab=21.31 E-value=90 Score=22.11 Aligned_cols=20 Identities=20% Similarity=0.308 Sum_probs=16.8
Q ss_pred CcHHHHHHhhCCCCcEEEEe
Q psy6366 55 PEAPERIRAMNASIRLLVIV 74 (101)
Q Consensus 55 ~~~~~ri~~~~P~~KiI~iL 74 (101)
.++.-.++...|++|+++++
T Consensus 59 aEvvl~LK~~yp~lkL~~~~ 78 (182)
T PRK13660 59 AEVVLELKEEYPDLKLAVIT 78 (182)
T ss_pred HHHHHHHHhhCCCeEEEEEe
Confidence 45667788889999999997
No 38
>PF06855 DUF1250: Protein of unknown function (DUF1250); InterPro: IPR023089 This entry represents the YozE-like domain found in a group of proteins of unknown function.; PDB: 2KVS_A 2FJ6_A 2O6K_B.
Probab=21.07 E-value=74 Score=17.20 Aligned_cols=8 Identities=50% Similarity=0.476 Sum_probs=3.7
Q ss_pred HHHHHHHH
Q psy6366 78 VTRAISDY 85 (101)
Q Consensus 78 v~Ra~S~y 85 (101)
++||||.|
T Consensus 38 fd~aw~~Y 45 (46)
T PF06855_consen 38 FDRAWSLY 45 (46)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 34444444
No 39
>PF00280 potato_inhibit: Potato inhibitor I family; InterPro: IPR000864 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of proteinase inhibitors belong to MEROPS inhibitor family I13, clan IG. They inhibit peptidases of the S1 (IPR001254 from INTERPRO) and S8 (IPR000209 from INTERPRO) families []. Potato inhibitor type I sequences are not solely restricted to potatoes but are found in other plant species for example: barley endosperm chymotrypsin inhibitor [], and pumpkin trypsin inhibitor. Exceptions are found in leech's, e.g.Hirudo medicinalis (Medicinal leech), but not other metazoa []. In general, the proteins have retained a specificity towards chymotrypsin-like and elastase-like proteases []. Structurally these inhibitors are small (60 to 90 residues) and in contrast with other families of protease inhibitors, they lack disulphide bonds. The inhibitor is a wedge-shaped molecule, its pointed edge formed by the protease-binding loop, which contains the scissile bond. The loop binds tightly to the protease active site, subsequent cleavage of the scissile bond causing inhibition of the enzyme []. The inhibitors (designated type I and II) are synthesised in potato tubers, increasing in concentration as the tuber develops. Synthesis of the inhibitors throughout the plant is also induced by leaf damage; this systemic response being triggered by the release of a putative plant hormone []. Examples found in the bacteria and archaea are probable false positives.; GO: 0004867 serine-type endopeptidase inhibitor activity, 0009611 response to wounding; PDB: 1TEC_I 1SBN_I 1ACB_I 1EGP_A 3TEC_I 2SEC_I 1EGL_A 2TEC_I 1SIB_I 1MEE_I ....
Probab=20.46 E-value=1.2e+02 Score=17.65 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=15.5
Q ss_pred cHHHHHHhhCCCCcEEEEe
Q psy6366 56 EAPERIRAMNASIRLLVIV 74 (101)
Q Consensus 56 ~~~~ri~~~~P~~KiI~iL 74 (101)
++...|.+.+|+++++++.
T Consensus 14 ~A~~~I~~e~P~v~v~vlp 32 (63)
T PF00280_consen 14 EAKAIIERENPDVTVVVLP 32 (63)
T ss_dssp HHHHHHHHHSTTSEEEEEE
T ss_pred HHHHHHHHHCCCCeEEEEe
Confidence 4677889999999999663
No 40
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=20.01 E-value=1.1e+02 Score=19.21 Aligned_cols=39 Identities=15% Similarity=0.228 Sum_probs=27.5
Q ss_pred CcEEEecCCCcccCCcHHHHHHhhC------CCCcEEEEecChHH
Q psy6366 41 EQVTIEKSPSYFVTPEAPERIRAMN------ASIRLLVIVRDPVT 79 (101)
Q Consensus 41 ~~~~ge~Sp~Y~~~~~~~~ri~~~~------P~~KiI~iLRdPv~ 79 (101)
..++.=.||.|+.++-+...+.... .+.+||-|+-+++.
T Consensus 56 ~~~i~vlS~~~~~S~w~~~E~~~a~~~~~~~~~~~iIPI~~~~~~ 100 (140)
T smart00255 56 RIAIVVLSPNYAESEWCLDELVAALENALEEGGLRVIPIFYEVIP 100 (140)
T ss_pred cEEEEEECcccccChhHHHHHHHHHHHHHHcCCCeEEEEEEecCh
Confidence 4555569999999886655443321 56899999988773
Done!