Query T0613 NP_949368.1, RHODOPSEUDOMONAS PALUSTRIS CGA009, 287 residues
Match_columns 287
No_of_seqs 212 out of 1728
Neff 5.5
Searched_HMMs 11830
Date Mon Jul 5 09:15:42 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0613.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0613.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00551 Formyl_trans_N: Formy 100.0 6.4E-44 0 312.7 18.1 179 89-267 1-181 (181)
2 PF01842 ACT: ACT domain; Int 98.3 1.1E-06 9.2E-11 62.4 7.5 64 6-72 1-64 (66)
3 PF01902 ATP_bind_4: ATP-bindi 85.6 0.53 4.5E-05 24.1 4.7 131 89-231 1-149 (218)
4 PF01171 ATP_bind_3: PP-loop f 80.2 1.5 0.00013 21.1 5.3 86 90-176 1-107 (182)
5 PF10406 TAF8_C: Transcription 62.8 0.81 6.8E-05 22.9 0.6 24 195-218 4-27 (51)
6 PF11039 DUF2824: Protein of u 54.8 1.6 0.00013 21.0 0.9 64 167-238 45-114 (151)
7 PF01008 IF-2B: Initiation fac 47.7 7 0.00059 16.6 6.4 72 89-172 106-182 (281)
8 PF05582 Peptidase_U57: YabG p 47.5 7 0.00059 16.6 6.2 130 113-251 103-255 (287)
9 PF01993 MTD: methylene-5,6,7, 46.3 7.3 0.00062 16.5 6.6 68 78-145 18-94 (276)
10 PF04273 DUF442: Putative phos 45.8 7.4 0.00063 16.4 5.4 66 93-164 9-85 (110)
11 PF05088 Bac_GDH: Bacterial NA 40.4 8.9 0.00076 15.9 8.1 74 3-76 15-107 (1528)
12 PF02441 Flavoprotein: Flavopr 39.1 9 0.00076 15.8 2.8 36 89-126 1-38 (122)
13 PF02601 Exonuc_VII_L: Exonucl 39.0 9.4 0.00079 15.7 6.8 46 62-115 57-109 (319)
14 PF01408 GFO_IDH_MocA: Oxidore 36.3 10 0.00087 15.5 8.4 69 90-173 2-70 (120)
15 PF09663 Amido_AtzD_TrzD: Amid 31.7 8.7 0.00074 15.9 1.7 130 102-256 14-176 (365)
16 PF07485 DUF1529: Domain of Un 28.6 14 0.0012 14.6 4.9 51 18-70 69-121 (123)
17 PF05221 AdoHcyase: S-adenosyl 28.4 14 0.0012 14.6 5.9 78 114-204 66-150 (268)
18 PF04359 DUF493: Protein of un 25.6 15 0.0013 14.3 4.4 71 5-79 15-87 (90)
19 PF00535 Glycos_transf_2: Glyc 24.5 16 0.0014 14.1 7.8 91 86-178 25-120 (169)
20 PF04110 APG12: Ubiquitin-like 23.1 17 0.0015 14.0 3.2 52 220-281 2-53 (87)
21 PF09364 XFP_N: XFP N-terminal 22.2 18 0.0015 13.8 4.9 98 62-172 56-163 (379)
22 PF08013 Tagatose_6_P_K: Tagat 21.0 19 0.0016 13.7 5.3 72 101-173 3-89 (424)
23 PF06925 MGDG_synth: Monogalac 20.8 19 0.0016 13.7 3.0 22 153-174 77-98 (169)
No 1
>PF00551 Formyl_trans_N: Formyl transferase; InterPro: IPR002376 A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain (IPR005793 from INTERPRO). The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 1s3i_A 2cfi_A 2bw0_A 2bln_B 1z7e_E 1yrw_A 1fmt_A 2fmt_B 1zgh_A 3dcj_A ....
Probab=100.00 E-value=6.4e-44 Score=312.74 Aligned_cols=179 Identities=28% Similarity=0.405 Sum_probs=170.7
Q ss_pred CCEEEEEECCCCCHHHHHHHHHCCCCCCEEEEEEECCHHH-HHHHHHHCCCCEEECCCCC-CCHHHHHHHHHHHHHHCCC
Q ss_conf 4279998067877799999996689994389997288678-9999995699599828888-8878999999999984489
Q T0613 89 RKVMLLVSQSDHCLADILYRWRVGDLHMIPTAIVSNHPRE-TFSGFDFGDIPFYHFPVNK-DTRRQQEAAITALIAQTHT 166 (287)
Q Consensus 89 ~riavlvSg~g~~l~all~~~~~g~L~~ei~~Visn~~~~-~~~~a~~~~Ip~~~~~~~~-~~r~~~e~~l~~~l~~~~~ 166 (287)
|||++|+||+|+|+++++++++.+.++++|++|+||+++. +..++.+.++|...+.... ..+..++.++.+.++++++
T Consensus 1 mrI~~~~Sg~~~~~~~~l~~l~~~~~~~~iv~Vvt~~~~~~~~~~a~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 80 (181)
T PF00551_consen 1 MRIAFFGSGSGSNLQALLEALKAGGLEAEIVLVVTNPDKARGRKRAIRNGIPAQVIQEKNFQPRSLNDPELLEWLKELNP 80 (181)
T ss_dssp -EEEEEE----HHHHHHHHHHHHTTSEEEEEEEEESSTTEHHHHHHHHHCHCEEECCGGGSSSHHHHHHHHHHHHHHTT-
T ss_pred CEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCC
T ss_conf 97999976997799999999985899977999997885422202466379998996514799846611889999997699
Q ss_pred CEEEEECCCCCCCHHHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHCCCEEEEEEEEEEECCCCCCCEEEEEEEECCCCC
Q ss_conf 99998122101797899841799898330427876663169999981790855689987078887976400157538898
Q T0613 167 DLVVLARYMQILSDEMSARLAGRCINIHHSFLPGFKGAKPYHQAFDRGVKLIGATAHYVTSALDEGPIIDQDVERISHRD 246 (287)
Q Consensus 167 DlivLAgym~iL~~~~~~~~~~riiNiHpSlLP~f~G~~~~~~a~~~Gvk~~G~TvH~V~~~lD~GpII~Q~~v~V~~~d 246 (287)
|++|++|||+||+++|++.|+.++||+||||||+|+|.+|++||+.+|++.+|||+|+|++++|+||||+|..++|.++|
T Consensus 81 Dliv~~~~~~il~~~~l~~~~~~~iNiHpslLP~yrG~~p~~~ai~~g~~~~G~Tih~~~~~~D~G~Ii~q~~~~i~~~d 160 (181)
T PF00551_consen 81 DLIVVAGFGRILPPEFLSAFPGGIINIHPSLLPKYRGAAPIQWAILNGEKETGVTIHYVDEGLDSGPIIAQKEVPIDPDD 160 (181)
T ss_dssp SEEEESS-SS---HHHHCCSTT-EEEEESSSTTTTB-E-HHHHHHH----EEEEEEEE--SSTT--EEEEEEEEE--TT-
T ss_pred CEEEHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHHHHHHHCCCCCCCEEEEEECCCCCCCCEEEEEEEECCCCC
T ss_conf 86895445888707987417777799087728367797399999985999704399997277778984899998649999
Q ss_pred CHHHHHHHHHHHHHHHHHHHH
Q ss_conf 989999999998899999999
Q T0613 247 TPADLVRKGRDIERRVLSRAL 267 (287)
Q Consensus 247 t~e~L~~r~~~~E~~~l~~ai 267 (287)
|.++|.+|+...|+++|++||
T Consensus 161 t~~~l~~r~~~~~~~ll~~av 181 (181)
T PF00551_consen 161 TAESLYDRVAEAEAELLPEAV 181 (181)
T ss_dssp -HHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHC
T ss_conf 999999999999999999769
No 2
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure . ; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3dc2_A 3ddn_B 1ygy_A 2f1f_A 2pc6_A 2fgc_A 1y7p_B 1zpv_B 2f06_A 2phm_A ....
Probab=98.28 E-value=1.1e-06 Score=62.38 Aligned_cols=64 Identities=22% Similarity=0.399 Sum_probs=45.8
Q ss_pred EEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCEECCCCCEEEEEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf 8999984999746999999999759848771110245657689999996287778989999999999
Q T0613 6 YVLTLSCPDRAGIVSAVSTFLFENGQNILDAQQYNDTESGHFFMRVVFNAAAKVIPLASLRTGFGVI 72 (287)
Q Consensus 6 ~VLTv~gpDr~GIVA~Vt~~Lae~g~NI~disQf~d~~~g~FfMri~~~~~~~~~~~~~L~~al~~l 72 (287)
|+|++.|+||||++++|++.|+++|+||.++.+..+.....+++.... .+ ....+++.++++++
T Consensus 1 ~~i~v~~~DrpG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~l~~~ 64 (66)
T PF01842_consen 1 YRISVDVPDRPGILADITSALADHGINIDSIEQSSDGDRSEIMFVVHV-VD--EEDLEEIIEALEKL 64 (66)
T ss_dssp EEEEEEEESSTHHHHHHHHHHHHTT-EEEEEEEEEESSCEEEEEEEEE-EE--GGHHHHHHHHHHHH
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEE-CC--CCCHHHHHHHHHCC
T ss_conf 999999079898999999999987985789999873888479999997-58--21299999999731
No 3
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins. ; PDB: 1ru8_A 3h7e_A 2d13_A.
Probab=85.62 E-value=0.53 Score=24.13 Aligned_cols=131 Identities=15% Similarity=0.198 Sum_probs=74.9
Q ss_pred CCEEEEEECCCCCHHHHHHHHHCCCCCCEEEEEEECC---HH----------HHHHHHHHCCCCEEECCCCCCCHHHHHH
Q ss_conf 4279998067877799999996689994389997288---67----------8999999569959982888888789999
Q T0613 89 RKVMLLVSQSDHCLADILYRWRVGDLHMIPTAIVSNH---PR----------ETFSGFDFGDIPFYHFPVNKDTRRQQEA 155 (287)
Q Consensus 89 ~riavlvSg~g~~l~all~~~~~g~L~~ei~~Visn~---~~----------~~~~~a~~~~Ip~~~~~~~~~~r~~~e~ 155 (287)
+|++++.||.--+..||..+.+. -+|+++++=. .+ .....|+..|||.+..+.+ .+.+.+.+
T Consensus 1 MK~v~l~SGGKDS~~Al~~a~~~----~~V~~L~t~~~~~~~s~~~H~~~~~l~~~qA~algiPl~~~~~~-g~~e~~~~ 75 (218)
T PF01902_consen 1 MKVVALWSGGKDSTLALYRALRQ----HEVVCLLTMVPENGDSYMFHGVNLELLELQAEALGIPLIEIEIS-GSEEDEVE 75 (218)
T ss_dssp -EEEEE-----HHHHHHHHHHHT-----EEEEEE---BSSSSTTTS-STSSTCHHHHHHH----EEE--B----TTCHHH
T ss_pred CCEEEEECCCHHHHHHHHHHHHC----CCCCEEEEEECCCCCEECCCCCCHHHHHHHHHHCCCCEEEEECC-CCCHHHHH
T ss_conf 96999966868999999999872----97459999965998613153558899999999769978999857-86205679
Q ss_pred HHHHHHHHCCCCEEEEECCCCCCCHHHHHHCCC--CEEEECCCCCCCCCCCCH---HHHHHHCCCEEEEEEEEEEECCCC
Q ss_conf 999999844899999812210179789984179--989833042787666316---999998179085568998707888
Q T0613 156 AITALIAQTHTDLVVLARYMQILSDEMSARLAG--RCINIHHSFLPGFKGAKP---YHQAFDRGVKLIGATAHYVTSALD 230 (287)
Q Consensus 156 ~l~~~l~~~~~DlivLAgym~iL~~~~~~~~~~--riiNiHpSlLP~f~G~~~---~~~a~~~Gvk~~G~TvH~V~~~lD 230 (287)
.+.+.+++.++|-+| |.-|.+..--...++ +-.++- ++.|-+. .+. .++-++.|.+..=++|- ..+||
T Consensus 76 ~l~~~l~~~~v~~vv---~GdI~~~~~r~~~e~vc~~lGl~-~~~PLW~-~d~~~ll~e~i~~Gf~aiIv~V~--~~~L~ 148 (218)
T PF01902_consen 76 DLKEALKELKVEAVV---FGDIFSEYQRNRIERVCERLGLE-SLFPLWG-RDQEELLREMIDSGFEAIIVKVA--AYGLD 148 (218)
T ss_dssp HHHHHH--------B-------S-CCHHHHHHHHHHH------B-TTTT---HHHHHHHHHH---EEEEEEE--------
T ss_pred HHHHHHHHHCCCEEE---ECCCCCHHHHHHHHHHHHHCCCE-EEECCCC-CCHHHHHHHHHHCCCEEEEEEEE--CCCCC
T ss_conf 999999972988999---99787788999999999973999-9802558-99999999999879959999973--37899
Q ss_pred C
Q ss_conf 7
Q T0613 231 E 231 (287)
Q Consensus 231 ~ 231 (287)
.
T Consensus 149 ~ 149 (218)
T PF01902_consen 149 E 149 (218)
T ss_dssp G
T ss_pred H
T ss_conf 7
No 4
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This group of proteins belongs to the PP-loop superfamily . ; PDB: 2e89_B 2e21_C 1wy5_A 1ni5_A.
Probab=80.19 E-value=1.5 Score=21.11 Aligned_cols=86 Identities=13% Similarity=0.158 Sum_probs=54.0
Q ss_pred CEEEEEECCC-C-CHHHHHHHHHCCCCCCEEEEEEECCH---HH------HHHHHHHCCCCEEECCCCC----CC-----
Q ss_conf 2799980678-7-77999999966899943899972886---78------9999995699599828888----88-----
Q T0613 90 KVMLLVSQSD-H-CLADILYRWRVGDLHMIPTAIVSNHP---RE------TFSGFDFGDIPFYHFPVNK----DT----- 149 (287)
Q Consensus 90 riavlvSg~g-~-~l~all~~~~~g~L~~ei~~Visn~~---~~------~~~~a~~~~Ip~~~~~~~~----~~----- 149 (287)
|++|-+||.- | +|-.++..+ ..+.+.++.++--||. .. ....++..|||+++..... ..
T Consensus 1 kilvavSGGkDS~~Ll~ll~~~-~~~~~~~~~~~~vdh~~~~~s~~~~~~v~~~~~~~gi~~~~~~~~~~~~~~~~~e~~ 79 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKDL-NRRLGIKLIVVHVDHGIRSESDEEAEFVEEYCEKLGIPLIIKRLDESKQKGSNFEAC 79 (182)
T ss_dssp EEEEE-----HHHHHHHHHHHH-CTTTT-EEEEEEE--SSSTCHHHHHHHHHHHHHHTT-EEEEE---HHHHTT--TTTH
T ss_pred CEEEEECCCHHHHHHHHHHHHH-HHHCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEHHCCCCCHHHH
T ss_conf 9999976779999999999999-986799789999847888644489999999999819976999987610257898999
Q ss_pred -HHHHHHHHHHHHHHCCCCEEEEECCCC
Q ss_conf -789999999999844899999812210
Q T0613 150 -RRQQEAAITALIAQTHTDLVVLARYMQ 176 (287)
Q Consensus 150 -r~~~e~~l~~~l~~~~~DlivLAgym~ 176 (287)
|..--..+.+...+++.|.|+++=-+-
T Consensus 80 aR~~R~~~l~~~a~~~~~~~l~~gHh~d 107 (182)
T PF01171_consen 80 ARKLRYQFLNEIARENGADKLATGHHLD 107 (182)
T ss_dssp HHHHHHHHHHHCHHH----EEE---BHH
T ss_pred HHHHHHHHHHHHHHHCCCCCEEECCCCH
T ss_conf 9999999999876540000132236751
No 5
>PF10406 TAF8_C: Transcription factor TFIID complex subunit 8 C-term
Probab=62.77 E-value=0.81 Score=22.89 Aligned_cols=24 Identities=17% Similarity=0.238 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCHHHHHHHCCCEEE
Q ss_conf 042787666316999998179085
Q T0613 195 HSFLPGFKGAKPYHQAFDRGVKLI 218 (287)
Q Consensus 195 pSlLP~f~G~~~~~~a~~~Gvk~~ 218 (287)
|+.||.|++.+.|.+.-.....++
T Consensus 4 P~~lP~FP~~HTY~~Tp~~~~~~~ 27 (51)
T PF10406_consen 4 PDWLPPFPDPHTYKRTPVYNEPET 27 (51)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 544799899744024898777779
No 6
>PF11039 DUF2824: Protein of unknown function (DUF2824)
Probab=54.76 E-value=1.6 Score=20.96 Aligned_cols=64 Identities=14% Similarity=0.246 Sum_probs=43.3
Q ss_pred CEEEEECCCCCCCHHHHHHCCCCEEEECCCCCCCCCCCCH------HHHHHHCCCEEEEEEEEEEECCCCCCCEEEEE
Q ss_conf 9999812210179789984179989833042787666316------99999817908556899870788879764001
Q T0613 167 DLVVLARYMQILSDEMSARLAGRCINIHHSFLPGFKGAKP------YHQAFDRGVKLIGATAHYVTSALDEGPIIDQD 238 (287)
Q Consensus 167 DlivLAgym~iL~~~~~~~~~~riiNiHpSlLP~f~G~~~------~~~a~~~Gvk~~G~TvH~V~~~lD~GpII~Q~ 238 (287)
+-.+|+|+-.+ +.+.+..+-.||-++|.|+|-.. .+|-+++ ..--|..-||-+.---|..|.|.
T Consensus 45 eg~~l~G~~~v------~~i~~~~vecHavy~P~fRG~a~~~~~~F~rwll~N--s~f~~viT~vp~kt~~Gr~ic~l 114 (151)
T PF11039_consen 45 EGLQLGGIVYV------QEIRPLVVECHAVYDPGFRGYALEIGRLFCRWLLEN--STFQNVITFVPDKTRYGRVICRL 114 (151)
T ss_pred ECEEEEEEEEE------EEEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCC--CCEEEEEEECCCCCCCHHHHHHH
T ss_conf 24289889999------997610699874106552437899889999998508--84578899625667303889988
No 7
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyzes the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) . This enzyme participates in the methionine salvage pathway catalyzing the isomerization of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate . The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1t9k_C 2yrf_B 2yvk_C 2a0u_A 1w2w_J 1vb5_A 1t5o_B.
Probab=47.66 E-value=7 Score=16.60 Aligned_cols=72 Identities=17% Similarity=0.214 Sum_probs=38.5
Q ss_pred CCEEEEEECCCCC-HHHHHHHHHCCCCCCEEEEEEECCHHH-HH---HHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHH
Q ss_conf 4279998067877-799999996689994389997288678-99---999956995998288888878999999999984
Q T0613 89 RKVMLLVSQSDHC-LADILYRWRVGDLHMIPTAIVSNHPRE-TF---SGFDFGDIPFYHFPVNKDTRRQQEAAITALIAQ 163 (287)
Q Consensus 89 ~riavlvSg~g~~-l~all~~~~~g~L~~ei~~Visn~~~~-~~---~~a~~~~Ip~~~~~~~~~~r~~~e~~l~~~l~~ 163 (287)
.+-.||.-|.+++ +..|..+++.|. +.++.++ -.+|.. +. ......|||..+++- ..+...++.
T Consensus 106 ~~~~ILT~~~S~~v~~~l~~a~~~~~-~f~V~v~-es~P~~eG~~~a~~L~~~Gi~vt~i~d---------s~v~~~m~~ 174 (281)
T PF01008_consen 106 DGDVILTHGYSSTVLKFLLHAHKQGK-KFRVIVT-ESRPYNEGRLTAKELSEAGIPVTLIPD---------SAVGYIMPR 174 (281)
T ss_dssp SCEEEEEES--HHCCHHHHHHHHTTB-EEEEEEE---TTTT---SHHHHHHHCT-EEEEE-G---------GGHHHHHHH
T ss_pred CCCEEEEECCCHHHHHHHHHHHHCCC-CEEEEEE-CCCCCCCCCHHHHHHHHCCCCEEEECH---------HHHHHHHHH
T ss_conf 99889996894899999999998699-3799994-689762450899999877995899768---------899999997
Q ss_pred CCCCEEEEE
Q ss_conf 489999981
Q T0613 164 THTDLVVLA 172 (287)
Q Consensus 164 ~~~DlivLA 172 (287)
.+|.|++.
T Consensus 175 -~vd~VllG 182 (281)
T PF01008_consen 175 -MVDKVLLG 182 (281)
T ss_dssp -TESEEEE-
T ss_pred -HCCEEEEE
T ss_conf -59999982
No 8
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of Bacillus subtilis .
Probab=47.47 E-value=7 Score=16.58 Aligned_cols=130 Identities=15% Similarity=0.140 Sum_probs=71.1
Q ss_pred CCCCEEEEEEECCHHHH--HHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCC------------
Q ss_conf 99943899972886789--9999956995998288888878999999999984489999981221017------------
Q T0613 113 DLHMIPTAIVSNHPRET--FSGFDFGDIPFYHFPVNKDTRRQQEAAITALIAQTHTDLVVLARYMQIL------------ 178 (287)
Q Consensus 113 ~L~~ei~~Visn~~~~~--~~~a~~~~Ip~~~~~~~~~~r~~~e~~l~~~l~~~~~DlivLAgym~iL------------ 178 (287)
..|+.|--+=++.+=+. +..-++.+||.+=.-.. ..+.-..+.++|++|+||.+|+-|---++
T Consensus 103 ~~PGkVLHiDGD~~YL~~Cl~~Ykql~i~a~G~~~~---E~~qp~~i~~ll~~~~PDIlViTGHD~~~K~~~d~~dl~~Y 179 (287)
T PF05582_consen 103 QRPGKVLHIDGDEEYLKKCLKVYKQLGIPAVGVHIP---EKEQPEKIVDLLEEYRPDILVITGHDAYLKNKGDFSDLNNY 179 (287)
T ss_pred CCCCEEEEECCCHHHHHHHHHHHHHHCCCEEEEEEC---CCCCCHHHHHHHHHHCCCEEEEECCHHHHCCCCCHHHHHHH
T ss_conf 898617875598999999999999809854899825---31261999999986199989996843651277873366665
Q ss_pred --CHHHHHHCCC-CEEEECCCCCCCCCCC--CHHHHHHHCCCEEE----EEEEEEEECCCCCCCEEEEEEEECCCCCCHH
Q ss_conf --9789984179-9898330427876663--16999998179085----5689987078887976400157538898989
Q T0613 179 --SDEMSARLAG-RCINIHHSFLPGFKGA--KPYHQAFDRGVKLI----GATAHYVTSALDEGPIIDQDVERISHRDTPA 249 (287)
Q Consensus 179 --~~~~~~~~~~-riiNiHpSlLP~f~G~--~~~~~a~~~Gvk~~----G~TvH~V~~~lD~GpII~Q~~v~V~~~dt~e 249 (287)
|..|++.-+. |-.+=+.-=|==|.|| .-|+.-+++|.-.. -+-+|-.+ |+..-+.+...+-+..=
T Consensus 180 rnSkyFveaV~~aR~~~~~~D~LVIFAGACQS~fEail~AGANFASSP~RvlIHalD------PV~i~eKia~T~i~~~V 253 (287)
T PF05582_consen 180 RNSKYFVEAVKEARKYEPNLDDLVIFAGACQSHFEAILDAGANFASSPSRVLIHALD------PVFIVEKIAYTSIMEVV 253 (287)
T ss_pred HCCHHHHHHHHHHHHCCCCCCCEEEECCHHHHHHHHHHHCCCCCCCCCCCEEEECCC------CEEEEEEEEECCCCCEE
T ss_conf 410889999999982389954289982054788999997176644795215676058------51578765304535503
Q ss_pred HH
Q ss_conf 99
Q T0613 250 DL 251 (287)
Q Consensus 250 ~L 251 (287)
.+
T Consensus 254 ~i 255 (287)
T PF05582_consen 254 SI 255 (287)
T ss_pred CH
T ss_conf 39
No 9
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 .; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis; PDB: 1u6i_J 1u6j_F 1qv9_A 1u6k_C.
Probab=46.27 E-value=7.3 Score=16.46 Aligned_cols=68 Identities=15% Similarity=0.088 Sum_probs=39.6
Q ss_pred CCHHHCCCCCCCCEEEEEECCCCCHHHH-HHHHHC---CCCCCEEEEEEECCHHH-HHHHH----HHCCCCEEECCC
Q ss_conf 2010001356342799980678777999-999966---89994389997288678-99999----956995998288
Q T0613 78 MGWHMRDRETRRKVMLLVSQSDHCLADI-LYRWRV---GDLHMIPTAIVSNHPRE-TFSGF----DFGDIPFYHFPV 145 (287)
Q Consensus 78 ~~i~i~~~~~~~riavlvSg~g~~l~al-l~~~~~---g~L~~ei~~Visn~~~~-~~~~a----~~~~Ip~~~~~~ 145 (287)
++.-++....+..|-+.+-|+|..++-= +++... .+.+.+.+.+||-++.+ ++..| ...|||+.++.-
T Consensus 18 ~dLlLDErAdRedi~vrv~gsGaKM~pe~ve~v~~~~~~~~~pDf~i~isPN~a~PGP~~ARE~l~~~~iP~ivI~D 94 (276)
T PF01993_consen 18 IDLLLDERADREDIDVRVVGSGAKMQPEQVERVVTKMLKDWDPDFVIVISPNPAAPGPKKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp TTGGGSTTS--SSEEEEEE-ETT--SHHHHHHHHHHHHHHH--SEEEE----TT----HHHHHHHHTSSS-EEE---
T ss_pred HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCHHHHHHHHHCCCCEEEECC
T ss_conf 99987654034686389842666678788999889999850899899978988899957789998766998799758
No 10
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 This is a family of largely hypothetical proteins of unknown function. ; PDB: 3gxh_A.
Probab=45.76 E-value=7.4 Score=16.41 Aligned_cols=66 Identities=17% Similarity=0.204 Sum_probs=37.8
Q ss_pred EEEECCCCCHHHHHHHHHCCCCCCEEEEEEECCHHH----------HHHHHHHCCCCEEECCCCCCCHH-HHHHHHHHHH
Q ss_conf 998067877799999996689994389997288678----------99999956995998288888878-9999999999
Q T0613 93 LLVSQSDHCLADILYRWRVGDLHMIPTAIVSNHPRE----------TFSGFDFGDIPFYHFPVNKDTRR-QQEAAITALI 161 (287)
Q Consensus 93 vlvSg~g~~l~all~~~~~g~L~~ei~~Visn~~~~----------~~~~a~~~~Ip~~~~~~~~~~r~-~~e~~l~~~l 161 (287)
+.+||.-+ -.++-...+. -+.-||.||++. -...|+.+|+.|+++|+....-. +.=.+..+.+
T Consensus 9 ~~va~Q~~-~~di~~la~~-----GfktVIn~Rpd~E~~~qp~~~~~~~~a~~~GL~y~~iPv~~~~~~~~~v~~f~~~l 82 (110)
T PF04273_consen 9 LSVAGQPS-PEDIAQLAAQ-----GFKTVINNRPDGEDPGQPSSAEEREAAEAAGLEYVHIPVDSGQITPEDVEAFAAAL 82 (110)
T ss_dssp EEEE-----HHHHHHHHH---------EEEE-S-TTSTTS-T---T---HHHH---EEEE----TTS--HHHHHHHHHHH
T ss_pred EEECCCCC-HHHHHHHHHC-----CCCEEEECCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHH
T ss_conf 78858989-9999999978-----97399989989888899741999999998699289951378889999999999999
Q ss_pred HHC
Q ss_conf 844
Q T0613 162 AQT 164 (287)
Q Consensus 162 ~~~ 164 (287)
++.
T Consensus 83 ~~~ 85 (110)
T PF04273_consen 83 EEL 85 (110)
T ss_dssp HHT
T ss_pred HHC
T ss_conf 848
No 11
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase; InterPro: IPR007780 This family consists of several bacterial proteins which are closely related to NAD-glutamate dehydrogenase found in Streptomyces clavuligerus. Glutamate dehydrogenases (GDHs) are a broadly distributed group of enzymes that catalyse the reversible oxidative deamination of glutamate to ketoglutarate and ammonia .
Probab=40.38 E-value=8.9 Score=15.87 Aligned_cols=74 Identities=16% Similarity=0.168 Sum_probs=45.8
Q ss_pred CCEEEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCEE-----CC-------C-----CCEE--EEEEEEECCCCCCCHH
Q ss_conf 97089999849997469999999997598487711102-----45-------6-----5768--9999996287778989
Q T0613 3 HHQYVLTLSCPDRAGIVSAVSTFLFENGQNILDAQQYN-----DT-------E-----SGHF--FMRVVFNAAAKVIPLA 63 (287)
Q Consensus 3 ~~~~VLTv~gpDr~GIVA~Vt~~Lae~g~NI~disQf~-----d~-------~-----~g~F--fMri~~~~~~~~~~~~ 63 (287)
+.+.++.++++|.|=+|..|+..|..+|..|.-+.+-+ |. . ++.- +|.++++-....-..+
T Consensus 15 s~~tvi~Iv~dDmPFLVDSv~~~l~r~g~~i~~~~Hpvl~v~Rd~~G~l~~v~~~~~~~~~~ES~i~ieid~~~~~~~~~ 94 (1528)
T PF05088_consen 15 STHTVIEIVNDDMPFLVDSVTMELNRQGLTIHLVLHPVLNVRRDADGKLVEVLPADDPGGRRESWIHIEIDRQSDPEELE 94 (1528)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHCCCCEEEEECCCEEEEECCCCCEEEECCCCCCCCCEEEEEEEEECCCCCHHHHH
T ss_conf 89638999659988099999999996799658996584899999999788830678888852689999967999999999
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 9999999999872
Q T0613 64 SLRTGFGVIAAKF 76 (287)
Q Consensus 64 ~L~~al~~la~~~ 76 (287)
+|++++..+-++.
T Consensus 95 ~L~~~L~~vL~dV 107 (1528)
T PF05088_consen 95 ELEEDLQRVLADV 107 (1528)
T ss_pred HHHHHHHHHHHHH
T ss_conf 9999999999999
No 12
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN . This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance . Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC .; GO: 0003824 catalytic activity; PDB: 1g63_L 1g5q_D 1p3y_1 1e20_A 1mvl_A 1mvn_A 1qzu_A 2ejb_A 1sbz_A.
Probab=39.06 E-value=9 Score=15.85 Aligned_cols=36 Identities=11% Similarity=0.181 Sum_probs=27.0
Q ss_pred CCEEEEEECCCCCHHHH--HHHHHCCCCCCEEEEEEECCH
Q ss_conf 42799980678777999--999966899943899972886
Q T0613 89 RKVMLLVSQSDHCLADI--LYRWRVGDLHMIPTAIVSNHP 126 (287)
Q Consensus 89 ~riavlvSg~g~~l~al--l~~~~~g~L~~ei~~Visn~~ 126 (287)
||+++.+||+...+... +.+.+. ...++.+|+|+..
T Consensus 1 k~i~v~itGs~~~~~~~~~l~~L~~--~~~~v~vv~S~~A 38 (122)
T PF02441_consen 1 KRILVGITGSSAAYKAPDLLRRLKK--PGVEVRVVLSKAA 38 (122)
T ss_dssp -EEEEEE-S-GGGGGHHHHHHHHHT--TTSEEEEEE-HHH
T ss_pred CEEEEEEECHHHHHHHHHHHHHHHH--CCCEEEEEECCCH
T ss_conf 9799999488999999999999976--8998999989639
No 13
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR003753 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones . Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N-terminus.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex
Probab=38.95 E-value=9.4 Score=15.73 Aligned_cols=46 Identities=7% Similarity=0.032 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHCCCHHHCCCCCCCCEEEEEECCCC-------CHHHHHHHHHCCCCC
Q ss_conf 899999999999872520100013563427999806787-------779999999668999
Q T0613 62 LASLRTGFGVIAAKFTMGWHMRDRETRRKVMLLVSQSDH-------CLADILYRWRVGDLH 115 (287)
Q Consensus 62 ~~~L~~al~~la~~~~~~i~i~~~~~~~riavlvSg~g~-------~l~all~~~~~g~L~ 115 (287)
..++.+++..+...- .....-+.|++=|.|| |=..+..++..=.+|
T Consensus 57 ~~~I~~al~~~~~~~--------~~~~~Dviii~RGGGS~eDL~~FNde~varaI~~~~iP 109 (319)
T PF02601_consen 57 AASIVRALRRANQRG--------TADDYDVIIIARGGGSIEDLWAFNDEEVARAIAASPIP 109 (319)
T ss_pred HHHHHHHHHHHHHCC--------CCCCCCEEEEECCCCCHHHHHHCCCHHHHHHHHCCCCC
T ss_conf 999999999987277--------76798889996688788885555809999999809998
No 14
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyze the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 3cea_A 3ec7_D 3euw_A 3ezy_B 3e18_A 2p2s_A 3dty_B 1tlt_B 1xea_D 3bio_A ....
Probab=36.29 E-value=10 Score=15.45 Aligned_cols=69 Identities=19% Similarity=0.189 Sum_probs=37.0
Q ss_pred CEEEEEECCCCCHHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCCEE
Q ss_conf 27999806787779999999668999438999728867899999956995998288888878999999999984489999
Q T0613 90 KVMLLVSQSDHCLADILYRWRVGDLHMIPTAIVSNHPRETFSGFDFGDIPFYHFPVNKDTRRQQEAAITALIAQTHTDLV 169 (287)
Q Consensus 90 riavlvSg~g~~l~all~~~~~g~L~~ei~~Visn~~~~~~~~a~~~~Ip~~~~~~~~~~r~~~e~~l~~~l~~~~~Dli 169 (287)
|+++... |+--...+.++..-.-+.+++.+.+..+......++.+++|++- + +.+.++..++|+|
T Consensus 2 rv~iIG~--G~~~~~~~~~~~~~~~~~~v~av~d~~~~~~~~~~~~~~~~~~~------~-------~~~~l~~~~~D~v 66 (120)
T PF01408_consen 2 RVGIIGA--GRIGKRHLRALRRSPPGVEVVAVVDPDPERAEAFAKEFGIPVYT------D-------LEELLEDPKIDAV 66 (120)
T ss_dssp EEEEECE---THHHHHHHHHHHTTTTEEEEEEESSSHHHHHHHHHHTTSEEES------S-------HHHHHTHTTESEE
T ss_pred EEEEECC--CHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHCCCCCC------C-------HHHHHHCCCCCEE
T ss_conf 8999938--39999999999964999389999879999999999982997428------8-------9999725588989
Q ss_pred EEEC
Q ss_conf 9812
Q T0613 170 VLAR 173 (287)
Q Consensus 170 vLAg 173 (287)
+.+-
T Consensus 67 ~I~t 70 (120)
T PF01408_consen 67 IIAT 70 (120)
T ss_dssp EEES
T ss_pred EEEC
T ss_conf 9957
No 15
>PF09663 Amido_AtzD_TrzD: Amidohydrolase ring-opening protein (Amido_AtzD_TrzD)
Probab=31.71 E-value=8.7 Score=15.95 Aligned_cols=130 Identities=18% Similarity=0.194 Sum_probs=61.9
Q ss_pred HHHHHHHHHCCCCC-CEEEEEEECCHHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHH----------HCCCCEEE
Q ss_conf 79999999668999-43899972886789999995699599828888887899999999998----------44899999
Q T0613 102 LADILYRWRVGDLH-MIPTAIVSNHPRETFSGFDFGDIPFYHFPVNKDTRRQQEAAITALIA----------QTHTDLVV 170 (287)
Q Consensus 102 l~all~~~~~g~L~-~ei~~Visn~~~~~~~~a~~~~Ip~~~~~~~~~~r~~~e~~l~~~l~----------~~~~Dliv 170 (287)
-..|-..+.+|.++ .+|++|+.-.+--+. +++.+|.-....+..+|. ..++-+|.
T Consensus 14 vs~L~~lId~G~i~p~~IvAvlGKTEGNG~--------------VNDfTR~~A~~a~~~~l~~~~~~s~~ev~~~v~~Vm 79 (365)
T PF09663_consen 14 VSGLAALIDAGVIDPARIVAVLGKTEGNGC--------------VNDFTRGYATRAFRELLARHLGRSPEEVVARVAIVM 79 (365)
T ss_pred HHHHHHHHHCCCCCCCCEEEEEEECCCCCC--------------CHHHHHHHHHHHHHHHHHHHCCCCHHHHHCCCCEEE
T ss_conf 799999997289781027999850467775--------------003558999999999999862741777623542897
Q ss_pred EECCCCCCCHHHHH----------HCCCCEEE----ECCCCCCCCCCCCHHHHHHHCCC----EEEEE----EEEEEECC
Q ss_conf 81221017978998----------41799898----33042787666316999998179----08556----89987078
Q T0613 171 LARYMQILSDEMSA----------RLAGRCIN----IHHSFLPGFKGAKPYHQAFDRGV----KLIGA----TAHYVTSA 228 (287)
Q Consensus 171 LAgym~iL~~~~~~----------~~~~riiN----iHpSlLP~f~G~~~~~~a~~~Gv----k~~G~----TvH~V~~~ 228 (287)
.-|-=-+|||.|+= +..++-+- .-|.|||.--|....-....++| ...|. -||||
T Consensus 80 SGGTEGvlSPH~tVFa~~~~~~~~~~~~~rLavg~a~T~~~~pEeiGR~a~v~~vA~aV~~AM~~AGI~dpaDVH~V--- 156 (365)
T PF09663_consen 80 SGGTEGVLSPHATVFARRPADAAPKPDEPRLAVGVAMTRDFLPEEIGRMAQVEEVAAAVRRAMADAGITDPADVHFV--- 156 (365)
T ss_pred ECCCCCCCCCCEEEEEECCCCCCCCCCCCCEEEEEECCCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHCEEE---
T ss_conf 17866555762699985465556788786257666327888947848489999999999999997499985663078---
Q ss_pred CCCCCEEEEEEEECCCCCCHHHHHHHHH
Q ss_conf 8879764001575388989899999999
Q T0613 229 LDEGPIIDQDVERISHRDTPADLVRKGR 256 (287)
Q Consensus 229 lD~GpII~Q~~v~V~~~dt~e~L~~r~~ 256 (287)
|-+.|.+-.++..+-..|++
T Consensus 157 --------QiKcPLLT~~~i~~A~~RG~ 176 (365)
T PF09663_consen 157 --------QIKCPLLTPERIADAKARGE 176 (365)
T ss_pred --------EECCCCCCHHHHHHHHHCCC
T ss_conf --------73276578788888985698
No 16
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=28.64 E-value=14 Score=14.63 Aligned_cols=51 Identities=20% Similarity=0.155 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHCCCCEEECCCEECCCCC-EEEEEEEEECCCCCCCHHH-HHHHHH
Q ss_conf 6999999999759848771110245657-6899999962877789899-999999
Q T0613 18 IVSAVSTFLFENGQNILDAQQYNDTESG-HFFMRVVFNAAAKVIPLAS-LRTGFG 70 (287)
Q Consensus 18 IVA~Vt~~Lae~g~NI~disQf~d~~~g-~FfMri~~~~~~~~~~~~~-L~~al~ 70 (287)
=|..|.+.|-++|++|+-+..|--.++. .|||.+.-. +.+..++. ++++|+
T Consensus 69 EVn~v~~al~~~GI~VtAlHNH~l~e~Prl~ymH~~~~--gdp~~lA~~vr~Ald 121 (123)
T PF07485_consen 69 EVNPVMSALRKNGIEVTALHNHWLFEQPRLMYMHIWGV--GDPAKLARKVRAALD 121 (123)
T ss_pred HHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEEEEC--CCHHHHHHHHHHHHH
T ss_conf 88899999997895699975467778986899999853--999999999999861
No 17
>PF05221 AdoHcyase: S-adenosyl-L-homocysteine hydrolase; InterPro: IPR000043 S-adenosyl-L-homocysteine hydrolase (3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. AdoHcyase is an ubiquitous enzyme which binds and requires NAD^+ as a cofactor. AdoHcyase is a highly conserved protein of about 430 to 470 amino acids. The family contains a glycine-rich region in the central part of AdoHcyase; a region thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity, 0006730 one-carbon compound metabolic process; PDB: 3d64_B 3glq_B 1v8b_D 3ce6_A 2zj0_D 2zj1_C 2ziz_A 3dhy_B 3gvp_A 3g1u_C ....
Probab=28.36 E-value=14 Score=14.59 Aligned_cols=78 Identities=12% Similarity=0.006 Sum_probs=51.5
Q ss_pred CCCEEEEEEECC----HHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHH---HCCCCEEEEECCCCCCCHHHHHHC
Q ss_conf 994389997288----6789999995699599828888887899999999998---448999998122101797899841
Q T0613 114 LHMIPTAIVSNH----PRETFSGFDFGDIPFYHFPVNKDTRRQQEAAITALIA---QTHTDLVVLARYMQILSDEMSARL 186 (287)
Q Consensus 114 L~~ei~~Visn~----~~~~~~~a~~~~Ip~~~~~~~~~~r~~~e~~l~~~l~---~~~~DlivLAgym~iL~~~~~~~~ 186 (287)
+.|++...-||. ++.++.-+ ..||+.+- ++..+.++|...+.+.|. +.+||+|+=-|--- +...
T Consensus 66 ~GAeV~~~~sNPlSTQDdvAAAL~-~~Gi~VfA--~~get~eey~~~l~~~L~~~~~~~P~iiiDDG~Dl------~~~l 136 (268)
T PF05221_consen 66 GGAEVRWTGSNPLSTQDDVAAALA-EEGIPVFA--WKGETPEEYYWCLEKALDWQDDHGPDIIIDDGADL------TTLL 136 (268)
T ss_dssp ---EEEEEBSSSST--HHHHHHHH-HTTEEEEE---TT--HHHHHHHHHHHHS-SSTS--SEEEE----H------HHHH
T ss_pred CCCEEEEECCCCCCCCHHHHHHHH-HCCCEEEE--ECCCCHHHHHHHHHHHHCCCCCCCCCEEECCCHHH------HHHH
T ss_conf 598799851684322468999887-37935999--68999799999999986368999988775253789------9999
Q ss_pred CCCEEEECCCCCCCCCCC
Q ss_conf 799898330427876663
Q T0613 187 AGRCINIHHSFLPGFKGA 204 (287)
Q Consensus 187 ~~riiNiHpSlLP~f~G~ 204 (287)
. .-+|.+++...|.
T Consensus 137 h----~~~~~l~~~i~G~ 150 (268)
T PF05221_consen 137 H----TKRPELLKNIIGG 150 (268)
T ss_dssp H----HHHHHHHCT----
T ss_pred H----HHHHHHHHHEEEE
T ss_conf 9----9998667642410
No 18
>PF04359 DUF493: Protein of unknown function (DUF493); InterPro: IPR007454 This family includes several proteins of uncharacterised function.; PDB: 1rwu_A 2joq_A 2h9z_A.
Probab=25.64 E-value=15 Score=14.28 Aligned_cols=71 Identities=11% Similarity=0.156 Sum_probs=49.4
Q ss_pred EEEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCEE-CCCCCEEEE-EEEEECCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 089999849997469999999997598487711102-456576899-999962877789899999999999872520
Q T0613 5 QYVLTLSCPDRAGIVSAVSTFLFENGQNILDAQQYN-DTESGHFFM-RVVFNAAAKVIPLASLRTGFGVIAAKFTMG 79 (287)
Q Consensus 5 ~~VLTv~gpDr~GIVA~Vt~~Lae~g~NI~disQf~-d~~~g~FfM-ri~~~~~~~~~~~~~L~~al~~la~~~~~~ 79 (287)
.|-+.++|++..+..+.|...+.++..+..+..-.. .--+|.|.. .+.+.. -+.+++.+-++++++.=++.
T Consensus 15 ~~~~Kvig~~~~~~~~~v~~vv~~~~~~~~~~~~~~k~Ss~GkY~Svtv~v~v----~s~eqv~~iy~~L~~~~~Vk 87 (90)
T PF04359_consen 15 DYPFKVIGPADEDFEEAVVEVVQKHAPDFDDEAITSKPSSKGKYVSVTVTVTV----ESEEQVDAIYQELKAHPGVK 87 (90)
T ss_dssp EEEEEEEES-STTHHHHHHHHCCCCTSSEE--EEECECSTTSS-EEEEEEEEE----SSHHHHHHHHHHHTTSSSEE
T ss_pred CCEEEEEEECCCCHHHHHHHHHHHHCCCCCCCCCEECCCCCCEEEEEEEEEEE----CCHHHHHHHHHHHHCCCCEE
T ss_conf 87579997178449999999999858664446426316999768999999998----79999999999984499879
No 19
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described . This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site . The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids. ; PDB: 3e26_A 3e25_A 3ckv_A 3cko_A 3ckj_A 3ckq_A 3ckn_A 2ffv_A 2ffu_A 2d7i_A ....
Probab=24.53 E-value=16 Score=14.14 Aligned_cols=91 Identities=10% Similarity=0.045 Sum_probs=37.6
Q ss_pred CCCCCEEEEEECCCCCHHHHHHHHHCCCCCCEEEEEEECCH-H-HHHH--HHHHCCCCEEEC-CCCCCCHHHHHHHHHHH
Q ss_conf 56342799980678777999999966899943899972886-7-8999--999569959982-88888878999999999
Q T0613 86 ETRRKVMLLVSQSDHCLADILYRWRVGDLHMIPTAIVSNHP-R-ETFS--GFDFGDIPFYHF-PVNKDTRRQQEAAITAL 160 (287)
Q Consensus 86 ~~~~riavlvSg~g~~l~all~~~~~g~L~~ei~~Visn~~-~-~~~~--~a~~~~Ip~~~~-~~~~~~r~~~e~~l~~~ 160 (287)
....++.|...++.....+++.++.. .+..+..+-.... . .+.. ..+...=++..+ +-...-...+=..+++.
T Consensus 25 ~~~~eiiivdd~s~d~~~~~~~~~~~--~~~~i~~~~~~~~~g~~~~~n~~~~~a~~~~i~~lD~D~~~~~~~l~~l~~~ 102 (169)
T PF00535_consen 25 YPNFEIIIVDDGSTDETVEILEEFQK--SDPNIRVIRNPENLGKARARNRGIKLAKGDYILFLDDDDILEPNWLEELLEF 102 (169)
T ss_dssp GCEEEEEEEE-S-SSSHHHHHHHHHC--TSTTEEEEEHCCH-HHHHHHHHHHHS--SSEEEEEETTEEE-TTHHHHHHHH
T ss_pred CCCEEEEEEECCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHH
T ss_conf 79879999824543112221111122--2222222211111222222232111111358998138754328999999999
Q ss_pred HHHCCCCEEEEECCCCCC
Q ss_conf 984489999981221017
Q T0613 161 IAQTHTDLVVLARYMQIL 178 (287)
Q Consensus 161 l~~~~~DlivLAgym~iL 178 (287)
+++.+.+.++..++...-
T Consensus 103 ~~~~~~~~~~~~~~~~~~ 120 (169)
T PF00535_consen 103 LEKNPADVVGGNRIIIDD 120 (169)
T ss_dssp HHHHTTCEEEEEEEEEEC
T ss_pred HHCCCCCEEEEEEEEECC
T ss_conf 980899499998898658
No 20
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 In yeast, 15 autophagy (Apg) proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells . Apg12 is covalently bound to Apg5 .; GO: 0000045 autophagic vacuole formation, 0005737 cytoplasm; PDB: 1wz3_A.
Probab=23.15 E-value=17 Score=13.97 Aligned_cols=52 Identities=19% Similarity=0.268 Sum_probs=36.9
Q ss_pred EEEEEEECCCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEECCE
Q ss_conf 68998707888797640015753889898999999999889999999998859838982674
Q T0613 220 ATAHYVTSALDEGPIIDQDVERISHRDTPADLVRKGRDIERRVLSRALHYHLDDRVILNGRK 281 (287)
Q Consensus 220 ~TvH~V~~~lD~GpII~Q~~v~V~~~dt~e~L~~r~~~~E~~~l~~ai~~~~e~rv~v~~~k 281 (287)
+|++|..-+ +-||+-|..+.|..+++.+.+.+-.+. -+++-..+.+++|=|-
T Consensus 2 V~v~fk~iG--~aPilk~~~~kis~~~~f~~vi~FLrk--------~Lk~~~~~slflYin~ 53 (87)
T PF04110_consen 2 VTVRFKPIG--SAPILKQKKFKISASQTFSTVIKFLRK--------KLKLQASESLFLYINN 53 (87)
T ss_dssp EEEEEEEE--------S--EEEE----BTHHHHHHHHH--------HCT----SS-EEEEEE
T ss_pred EEEEEEECC--CCCCCCCCEEEECCCCCHHHHHHHHHH--------HHCCCCCCCEEEEECC
T ss_conf 799998668--986334654997799887999999999--------8677578839999856
No 21
>PF09364 XFP_N: XFP N-terminal domain
Probab=22.23 E-value=18 Score=13.85 Aligned_cols=98 Identities=16% Similarity=0.159 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHCCCHHHCCCCCCCCEEEEEECCCCCHHHHHH-HHHCCCCCCEEEEEEECCH-HHHHHHHHH---C
Q ss_conf 8999999999998725201000135634279998067877799999-9966899943899972886-789999995---6
Q T0613 62 LASLRTGFGVIAAKFTMGWHMRDRETRRKVMLLVSQSDHCLADILY-RWRVGDLHMIPTAIVSNHP-RETFSGFDF---G 136 (287)
Q Consensus 62 ~~~L~~al~~la~~~~~~i~i~~~~~~~riavlvSg~g~~l~all~-~~~~g~L~~ei~~Visn~~-~~~~~~a~~---~ 136 (287)
++-+=.-+..+-.+.+. -.++++|.|||-.+++. .+-.|.+. |+--=+|..+ .......++ .
T Consensus 56 lnfvyahlNrlI~~~~l------------~~~~v~GpGHg~pa~~A~~yLeGsys-e~yp~~~~d~~Gl~rL~~qFS~Pg 122 (379)
T PF09364_consen 56 LNFVYAHLNRLIRKYDL------------DMIYVMGPGHGGPAIVANAYLEGSYS-EFYPEISQDEEGLQRLFRQFSFPG 122 (379)
T ss_pred HHHHHHHHHHHHHHCCC------------CEEEEECCCCCCHHHHHHHHHCCCCH-HHCCCCCCCHHHHHHHHHHCCCCC
T ss_conf 88999999999985489------------66999669877516766766436615-315776778899999998678889
Q ss_pred CCCEEECCCCCCCHHHH---HHHHHHHHHH--CCCCEEEEE
Q ss_conf 99599828888887899---9999999984--489999981
Q T0613 137 DIPFYHFPVNKDTRRQQ---EAAITALIAQ--THTDLVVLA 172 (287)
Q Consensus 137 ~Ip~~~~~~~~~~r~~~---e~~l~~~l~~--~~~DlivLA 172 (287)
|||.|+-|.+..+--+- --.+....-+ -+||+||.+
T Consensus 123 GipSH~~petPGsIhEGGELGYsLsha~GA~~DnPdliva~ 163 (379)
T PF09364_consen 123 GIPSHVAPETPGSIHEGGELGYSLSHAFGAVFDNPDLIVAC 163 (379)
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCEEEEE
T ss_conf 88565688898754655421079988744012799838999
No 22
>PF08013 Tagatose_6_P_K: Tagatose 6 phosphate kinase; InterPro: IPR012062 Escherichia coli and other enteric bacteria contain two closely related D-tagatose 1,6-bisphosphate (TagBP)-specific aldolases involved in catabolism of galactitol (genes gatY gatZ) and of N-acetyl-galactosamine and D-galactosamine (genes kbaY, kbaZ, also called agaY, agaZ). The catalytic subunits GatY/KbaY alone are sufficient to show aldolase activity and contain most or all of the residues that have been identified as essential in substrate/product recognition and catalysis for class II aldolases , . However, these aldolases differ from other Class II aldolases (which are homodimeric enzymes) in that they require subunits GatZ/KbaZ for full activity and for good in vivo and in vitro stability. The Z subunits alone do not show any aldolase activity . It should be noted that the previous suggestion of a tagatose 6P-kinase function for AgaZ and other members of this family turned out to be erroneous , .; GO: 0009024 tagatose-6-phosphate kinase activity, 0019402 galactitol metabolic process; PDB: 2fiq_D.
Probab=20.99 E-value=19 Score=13.68 Aligned_cols=72 Identities=17% Similarity=0.221 Sum_probs=40.0
Q ss_pred CHHHHHHHHHCCCCCCEEEEEEECCHH---HHHHHHHHCCCCEEECCCC----------CCCHHHHHHHHHHHHHHCC--
Q ss_conf 779999999668999438999728867---8999999569959982888----------8887899999999998448--
Q T0613 101 CLADILYRWRVGDLHMIPTAIVSNHPR---ETFSGFDFGDIPFYHFPVN----------KDTRRQQEAAITALIAQTH-- 165 (287)
Q Consensus 101 ~l~all~~~~~g~L~~ei~~Visn~~~---~~~~~a~~~~Ip~~~~~~~----------~~~r~~~e~~l~~~l~~~~-- 165 (287)
.|++|+.+.++|+ +.-|..|.|.|+. ++.+.|...+-|..+.... .-+..+|-.-+.++-++.+
T Consensus 3 ~l~~lv~~~k~G~-~~gI~SVCSahp~VieAAl~~a~~~~~~vLiEAT~NQVnq~GGYTGMtP~dF~~~V~~iA~~~gf~ 81 (424)
T PF08013_consen 3 PLEDLVKRHKAGE-QVGIYSVCSAHPLVIEAALEQAKEDDSPVLIEATSNQVNQFGGYTGMTPADFRDFVEEIADEVGFP 81 (424)
T ss_dssp --HHHHHHHH--------EEE----HHHHHHHHHHTTTS---EEE---TTTSS---------HHHHHHHHHHHHHH----
T ss_pred HHHHHHHHHHCCC-CCCEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf 7999999853688-771466658999999999999875499179996543224568867998899999999999972997
Q ss_pred CCEEEEEC
Q ss_conf 99999812
Q T0613 166 TDLVVLAR 173 (287)
Q Consensus 166 ~DlivLAg 173 (287)
.|.++|.|
T Consensus 82 ~~~iiLGG 89 (424)
T PF08013_consen 82 RDRIILGG 89 (424)
T ss_dssp GGGEE---
T ss_pred HHHEEECC
T ss_conf 76488426
No 23
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This family represents a conserved region of approximately 180 residues within plant and bacterial monogalactosyldiacylglycerol (MGDG) synthase (2.4.1.46 from EC). In Arabidopsis, there are two types of MGDG synthase which differ in their N-terminal portion: type A and type B .
Probab=20.83 E-value=19 Score=13.66 Aligned_cols=22 Identities=14% Similarity=0.241 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHCCCCEEEEECC
Q ss_conf 9999999998448999998122
Q T0613 153 QEAAITALIAQTHTDLVVLARY 174 (287)
Q Consensus 153 ~e~~l~~~l~~~~~DlivLAgy 174 (287)
...++.+.|++++||+||.--.
T Consensus 77 ~~~~l~~~i~~~~PDvII~Thp 98 (169)
T PF06925_consen 77 FARKLRKLIEEYRPDVIISTHP 98 (169)
T ss_pred HHHHHHHHHHHCCCCEEEECCC
T ss_conf 9999999999809599999980
Done!