Query T0533 3MWB, unknown, 313 residues
Match_columns 313
No_of_seqs 123 out of 1159
Neff 6.2
Searched_HMMs 11830
Date Fri May 21 18:07:07 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0533.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0533.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00800 PDT: Prephenate dehyd 100.0 0 0 401.5 15.5 181 9-191 1-181 (181)
2 PF01842 ACT: ACT domain; Int 98.0 1.2E-05 9.9E-10 52.8 7.5 64 202-270 1-64 (66)
3 PF06153 DUF970: Protein of un 83.4 1.1 9.5E-05 21.2 6.3 55 217-275 14-68 (109)
4 PF09084 NMT1: NMT1/THI5 like; 78.5 1.3 0.00011 20.8 4.5 118 24-150 13-142 (216)
5 PF03401 Bug: Tripartite trica 74.8 2.1 0.00018 19.5 6.4 73 78-151 67-155 (274)
6 PF00585 Thr_dehydrat_C: C-ter 56.4 4.8 0.0004 17.2 5.7 72 197-273 6-77 (91)
7 PF00497 SBP_bac_3: Bacterial 55.9 4.8 0.00041 17.1 5.2 106 30-150 38-154 (225)
8 PF01634 HisG: ATP phosphoribo 48.3 6.4 0.00054 16.4 8.8 125 41-185 4-139 (163)
9 PF02566 OsmC: OsmC-like prote 40.9 8.3 0.0007 15.7 4.1 61 216-276 21-89 (99)
10 PF07485 DUF1529: Domain of Un 38.7 8.9 0.00076 15.4 6.7 50 216-267 70-119 (123)
11 PF03466 LysR_substrate: LysR 34.8 10 0.00087 15.0 15.1 116 27-162 32-160 (209)
12 PF02100 ODC_AZ: Ornithine dec 28.0 13 0.0011 14.3 4.3 51 201-252 137-191 (192)
13 PF01746 tRNA_m1G_MT: tRNA (Gu 21.9 11 0.00094 14.8 0.8 86 6-99 55-149 (186)
14 PF08979 DUF1894: Domain of un 21.7 12 0.00098 14.7 0.9 26 108-133 11-36 (89)
15 PF11966 SSURE: Fibronectin-bi 21.0 18 0.0015 13.5 5.7 46 240-288 16-66 (81)
16 PF01894 UPF0047: Uncharacteri 20.9 16 0.0013 13.9 1.4 14 240-253 94-107 (118)
No 1
>PF00800 PDT: Prephenate dehydratase Caution this is only a partial structure.; InterPro: IPR001086 Prephenate dehydratase (, PDT) catalyses the decarboxylation of prephenate to phenylpyruvate. In microorganisms it is part of the terminal pathway of phenylalanine biosynthesis. In some bacteria such as Escherichia coli PDT is part of a bifunctional enzyme (P-protein) that also catalyzes the transformation of chorismate into prephenate (chorismate mutase, IPR002701 from INTERPRO, 5.4.99.5 from EC) while in other bacteria it is a monofunctional enzyme. The sequence of monofunctional PDT aligns well with the C-terminal part of P-proteins .; GO: 0004664 prephenate dehydratase activity, 0009094 L-phenylalanine biosynthetic process; PDB: 2qmx_A 2qmw_B.
Probab=100.00 E-value=0 Score=401.48 Aligned_cols=181 Identities=46% Similarity=0.770 Sum_probs=172.2
Q ss_pred EEEECCCCCHHHHHHHHHCCCCCCEEECCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHCCCCCEEEEEEEE
Q ss_conf 88808986289999999638999606035998999999854995787760330788604887897742799179999997
Q T0533 9 YTFLGPQGTFTEAALMQVPGAADATRIPCTNVNTALERVRAGEADAAMVPIENSVEGGVTATLDAIATGQELRIIREALV 88 (313)
Q Consensus 9 iayLGP~GSfS~~AA~~~~~~~~~~~v~~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~tlD~L~~~~~l~Iv~E~~l 88 (313)
||||||+|||||+||+++|+..+.++++|+||++||++|++|++||||||||||++|+|.+|||+|.+ ++++|++|+.+
T Consensus 1 Va~LGP~GTfS~~Aa~~~~~~~~~~~v~~~s~~~v~~av~~~~~d~~vvPiENs~~G~V~~t~dlL~~-~~l~i~~E~~l 79 (181)
T PF00800_consen 1 VAYLGPEGTFSEEAALKFFGGPDAEIVPCDSFEEVFEAVESGEADYGVVPIENSTEGSVSETLDLLID-SDLKIVGEIVL 79 (181)
T ss_dssp EEE------HHHHHHCCHH-TTSSEEEE-SSHHHHHHHHCCTSSCEEEEEEEC------HHHHHHHHC-TSCEEEEEEEE
T ss_pred CEECCCCCCHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHCCCCCEEEEEEECCCCCEEHHHHHHHHC-CCCCEEEEEEE
T ss_conf 98647985789999999877614753655999999999976998889997732567895999998752-89824789999
Q ss_pred EEEEEEEECCCCCHHHCEEEEECCCHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCCEECCCHHHHHHHCCCE
Q ss_conf 25678875479973121188974631788999999837896699716528999999835785311001347888751971
Q T0533 89 PITFVLVARPGVELSDIKRISTHGHAWAQCRLWVDEHLPNADYVPGSSTAASAMGLLEDDAPYEAAICAPLIAAEQPGLN 168 (313)
Q Consensus 89 ~I~~~L~~~~~~~l~~I~~V~SHPqal~QC~~fL~~~~p~~~~v~~~STa~Aa~~v~~~~~~~~aaa~~~~~aa~~ygL~ 168 (313)
||+|||+++++.++++|++||||||+|+||++||++++|+++++++.||++||+++++.+++..||| +++.||++|||+
T Consensus 80 ~I~~~L~~~~~~~l~~I~~V~SHpqal~Qc~~~L~~~~p~~~~~~~~STa~Aa~~v~~~~~~~~aAI-~~~~aa~~y~L~ 158 (181)
T PF00800_consen 80 PIHHCLLARPGTSLSDIKTVYSHPQALAQCREFLEEHLPGAEIIPASSTAEAAKMVAAAEDPGDAAI-ASEIAAELYGLE 158 (181)
T ss_dssp E--EEEE------CCC--EEEE-HHHHHHTHHHHHHT-TTSEEEE-SSHHHHHHCHHHCT-TTEEEE-EES---------
T ss_pred EEEEEEECCCCCCHHHCEEEEEEHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCEEEE-CCHHHHHHCCCC
T ss_conf 7033798179998646459998778999999999860999689975999999999986079998998-896788665960
Q ss_pred EEECCCCCCCCCEEEEEEEECCC
Q ss_conf 56403467778715899971576
Q T0533 169 VLAEDIGDNPDAVTRFILVSRPG 191 (313)
Q Consensus 169 il~~~I~d~~~N~TRF~ii~~~~ 191 (313)
+|+++|||.++|+|||+||+|++
T Consensus 159 il~~~I~d~~~N~TRF~vi~~~~ 181 (181)
T PF00800_consen 159 ILAENIQDNPNNYTRFLVIGKEP 181 (181)
T ss_dssp -SECS-SSSTT-EEEEEEEECTT
T ss_pred CHHHCCCCCCCCEEEEEEEECCC
T ss_conf 54537989999825489995699
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=97.97 E-value=1.2e-05 Score=52.79 Aligned_cols=64 Identities=23% Similarity=0.528 Sum_probs=49.8
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf 789998537871179999999997389556764125888984569999986588838899999999875
Q T0533 202 TTVVVPLPEDHPGALMEILDQFASRGVNLSRIESRPTGQYLGHYFFSIDADGHATDSRVADALAGLHRI 270 (313)
Q Consensus 202 tsi~~~~~~d~pGaL~~vL~~F~~~gINLtkIeSRP~~~~~~~Y~F~id~eg~~~d~~v~~al~eL~~~ 270 (313)
+++.+..+ |+||.|.++++.|+++|+|+..+++++.+.+ +.+.|.+..... ...++++++|++.
T Consensus 1 ~~i~v~~~-DrpG~l~~i~~~l~~~~inI~~i~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~l~~~ 64 (66)
T PF01842_consen 1 YRISVDVP-DRPGILADITSALADHGINIDSIEQSSDGDR-SEIMFVVHVVDE---EDLEEIIEALEKL 64 (66)
T ss_dssp EEEEEEEE-SSTHHHHHHHHHHHHTT-EEEEEEEEEESSC-EEEEEEEEEEEG---GHHHHHHHHHHHH
T ss_pred CEEEEEEC-CCCCHHHHHHHHHHHCCCCEEEEEEEECCCC-CEEEEEEEECCC---CCHHHHHHHHHCC
T ss_conf 99999907-9898999999999987985789999873888-479999997582---1299999999731
No 3
>PF06153 DUF970: Protein of unknown function (DUF970); InterPro: IPR010375 This is a family of uncharacterised bacterial proteins.
Probab=83.42 E-value=1.1 Score=21.17 Aligned_cols=55 Identities=16% Similarity=0.199 Sum_probs=45.4
Q ss_pred HHHHHHHHHCCCCEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHCCEEE
Q ss_conf 99999999738955676412588898456999998658883889999999987518367
Q T0533 217 MEILDQFASRGVNLSRIESRPTGQYLGHYFFSIDADGHATDSRVADALAGLHRISPATR 275 (313)
Q Consensus 217 ~~vL~~F~~~gINLtkIeSRP~~~~~~~Y~F~id~eg~~~d~~v~~al~eL~~~~~~vk 275 (313)
.++.+.|.++|+-.|||-|-----+.|.-.|.|-+ +|++++++|+-+++.|..-+
T Consensus 14 ~~l~~aL~~~g~~~TkLaStGGFLr~GNtTlLIGv----ede~vd~vl~iIk~~c~~R~ 68 (109)
T PF06153_consen 14 NRLSDALTENGFRATKLASTGGFLREGNTTLLIGV----EDERVDEVLDIIKKNCKERE 68 (109)
T ss_pred HHHHHHHHHCCCCEEEEECCCCEECCCCEEEEEEE----EHHHHHHHHHHHHHHHCCCE
T ss_conf 99999999879108999856654006986899984----28888999999998502652
No 4
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine , , . They are regulated by thiamine . ; PDB: 3e4r_A 1us4_A 1us5_A.
Probab=78.53 E-value=1.3 Score=20.80 Aligned_cols=118 Identities=22% Similarity=0.241 Sum_probs=70.1
Q ss_pred HHHCCCC--CCEEECCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHCCCCCEEEEEEEEEEEEEEEECCCC-
Q ss_conf 9963899--9606035998999999854995787760330788604887897742799179999997256788754799-
Q T0533 24 MQVPGAA--DATRIPCTNVNTALERVRAGEADAAMVPIENSVEGGVTATLDAIATGQELRIIREALVPITFVLVARPGV- 100 (313)
Q Consensus 24 ~~~~~~~--~~~~v~~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~tlD~L~~~~~l~Iv~E~~l~I~~~L~~~~~~- 100 (313)
+-||... +.+++.+.+-.++.+++.+|++|+++.+.. ..+....+..++.+++...-.-..+++++++.
T Consensus 13 ~G~f~~~Gl~ve~~~~~~~~~~~~al~~G~~D~a~~~~~--------~~~~~~~~g~~i~~i~~~~~~~~~~~~~~~~~~ 84 (216)
T PF09084_consen 13 KGFFKKEGLDVELVPFSGGSDAIQALAAGEADIAVGGMP--------AVIQARAQGVPIKIIAAIVQSSGNALVVRKDSG 84 (216)
T ss_dssp --------------------HHHHHHCEEEHHHHHHHHH--------HHHCCCC----ECCEEEEEEECCCEEEEETT--
T ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEECCH--------HHHHHHHCCCCEEEEEEECCCCCCEEEEECCCC
T ss_conf 222222222223567797577799995798228832878--------999878707998999984356863698748999
Q ss_pred --CHHHC--EEEEECC--CHHHHHHHHHHHHC---CCCEEEECCCHHHHHHHHHHCCCC
Q ss_conf --73121--1889746--31788999999837---896699716528999999835785
Q T0533 101 --ELSDI--KRISTHG--HAWAQCRLWVDEHL---PNADYVPGSSTAASAMGLLEDDAP 150 (313)
Q Consensus 101 --~l~~I--~~V~SHP--qal~QC~~fL~~~~---p~~~~v~~~STa~Aa~~v~~~~~~ 150 (313)
+++|+ |+|...+ ..-..-+.+|+++. -.++.+..... ..+..+.+++-.
T Consensus 85 i~s~~dL~GKkig~~~~s~~~~~~~~~l~~~gl~~~~v~~v~~~~~-~~~~al~~g~id 142 (216)
T PF09084_consen 85 IKSPKDLKGKKIGVPSGSSSEYVLRALLKKNGLDPDDVEIVNVGPP-DLAQALLQGQID 142 (216)
T ss_dssp --SGGGG---EEEE----HHHHHHHHHHHH----GGGSEEEE--CH-HHHHHHHTTS-S
T ss_pred CCCHHHHCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEEECCCH-HHHHHHHCCCCC
T ss_conf 8997993959998578551689998999984998040899967928-999999889970
No 5
>PF03401 Bug: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 These probable extra-cytoplasmic solute receptors are strongly overrepresented in several beta-proteobacteria .; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2f5x_B 2dvz_A 2qpq_C.
Probab=74.79 E-value=2.1 Score=19.47 Aligned_cols=73 Identities=16% Similarity=0.101 Sum_probs=42.8
Q ss_pred CCCEEEEEEEEEEEEEEEECCCCCHHHC------------EEEEECCC--HH--HHHHHHHHHHCCCCEEEECCCHHHHH
Q ss_conf 9917999999725678875479973121------------18897463--17--88999999837896699716528999
Q T0533 78 QELRIIREALVPITFVLVARPGVELSDI------------KRISTHGH--AW--AQCRLWVDEHLPNADYVPGSSTAASA 141 (313)
Q Consensus 78 ~~l~Iv~E~~l~I~~~L~~~~~~~l~~I------------~~V~SHPq--al--~QC~~fL~~~~p~~~~v~~~STa~Aa 141 (313)
.++..++-+. .-.+.|+++++..++.+ +..|++.- .. -....+.+...-.+..+++.+++.+.
T Consensus 67 ~df~pv~~~~-~~~~vl~v~~dsp~~t~~dli~~aK~~p~~~~~g~~G~G~~~~l~~~~l~~~~G~~~~~Vpy~G~~~~~ 145 (274)
T PF03401_consen 67 DDFTPVARLA-RDPFVLVVRADSPYKTLEDLIEAAKANPGKLSFGSSGPGSSSHLAAALLAKAAGIKFNHVPYKGGAEAL 145 (274)
T ss_dssp TSEEEEEEEE-EEEEEEEEETTSS-SSHHHHHHHHHCCCGG-EEEE-----HHHH---HHHHHHT---EEEE----HHHH
T ss_pred HHHHHHHHHH-HCCEEEEEECCCCCCCHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCHHH
T ss_conf 8789999998-088599980899866899999999858997058469999799999999998619975885007950878
Q ss_pred HHHHHCCCCC
Q ss_conf 9998357853
Q T0533 142 MGLLEDDAPY 151 (313)
Q Consensus 142 ~~v~~~~~~~ 151 (313)
..+..+.-..
T Consensus 146 ~allgG~vd~ 155 (274)
T PF03401_consen 146 TALLGGHVDA 155 (274)
T ss_dssp HHH----SSE
T ss_pred HHHHCCCEEE
T ss_conf 9985793148
No 6
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see ) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region .; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1tdj_A.
Probab=56.38 E-value=4.8 Score=17.18 Aligned_cols=72 Identities=19% Similarity=0.411 Sum_probs=48.7
Q ss_pred CCCCEEEEEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHCCE
Q ss_conf 88852789998537871179999999997389556764125888984569999986588838899999999875183
Q T0533 197 TGADKTTVVVPLPEDHPGALMEILDQFASRGVNLSRIESRPTGQYLGHYFFSIDADGHATDSRVADALAGLHRISPA 273 (313)
Q Consensus 197 ~~~~ktsi~~~~~~d~pGaL~~vL~~F~~~gINLtkIeSRP~~~~~~~Y~F~id~eg~~~d~~v~~al~eL~~~~~~ 273 (313)
....+..+.|..| .+||||.+.|+.+..+. |+|.++=|-.....+.-..=|++.. ...+++.++.|++..-.
T Consensus 6 g~~~E~~~~v~fP-ErpGal~~F~~~l~~~~-nIT~F~YR~~~~~~g~vlvGi~~~~---~~~~~~l~~~l~~~g~~ 77 (91)
T PF00585_consen 6 GEGREALFAVTFP-ERPGALKKFLELLGPRN-NITEFHYRNKGNDYGRVLVGIQVPD---KEDFEELIERLKELGYP 77 (91)
T ss_dssp S---EEEEEEE---B----HHHHHHC----B---SEEEEE---SSB-EEEEEEE--------HHHHHHHHHT----E
T ss_pred CCCCEEEEEEECC-CCCCHHHHHHHHHCCCC-CEEEEEEECCCCCCCEEEEEEEECC---HHHHHHHHHHHHHCCCC
T ss_conf 7886689999777-89879999999848914-1758998702887531999999587---88899999999986998
No 7
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see ) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homolog proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homolog with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2q88_A 2q89_A 1xt8_B 2v25_B 2vha_B 2ia4_B 2v3t_B 2v3u_A 2a5t_B 2a5s_A ....
Probab=55.86 E-value=4.8 Score=17.13 Aligned_cols=106 Identities=16% Similarity=0.224 Sum_probs=63.8
Q ss_pred CCCEEECCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHCCCCCEEEEEEEEEEEEEEEECCCC-----CH--
Q ss_conf 99606035998999999854995787760330788604887897742799179999997256788754799-----73--
Q T0533 30 ADATRIPCTNVNTALERVRAGEADAAMVPIENSVEGGVTATLDAIATGQELRIIREALVPITFVLVARPGV-----EL-- 102 (313)
Q Consensus 30 ~~~~~v~~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~tlD~L~~~~~l~Iv~E~~l~I~~~L~~~~~~-----~l-- 102 (313)
-..++++. ++..++.++++|++|.++-++-. +.+. . ..+.... -+......++++++. ++
T Consensus 38 ~~~~~~~~-~~~~~~~~l~~g~~D~~~~~~~~--------~~~r--~-~~~~~s~-p~~~~~~~~~~~~~~~~~~~~~~~ 104 (225)
T PF00497_consen 38 LKVEFVPV-PWSRLLQALESGKIDIIIGGVSY--------TPER--E-KQFDFSD-PYYTSPIALVVRKKDAKNISSINS 104 (225)
T ss_dssp EEEEEEEE-EGGGHHHHHHTTSSSEEESSEB---------BHHH--H-TTEEEES-ESEEEEEEEEEETTTSS-SSSHHS
T ss_pred CCCCCCCC-CHHHHHHHHHCCCCCEEEEECCC--------CCCC--C-CCCCCCC-EEEHHHHHHHHCCCCCCCCCCHHH
T ss_conf 86300457-76778888624446478874144--------3332--0-0024441-111224443430355422110136
Q ss_pred -HHC--EEEEECCCHHHHHHHHHHHHCC-CCEEEECCCHHHHHHHHHHCCCC
Q ss_conf -121--1889746317889999998378-96699716528999999835785
Q T0533 103 -SDI--KRISTHGHAWAQCRLWVDEHLP-NADYVPGSSTAASAMGLLEDDAP 150 (313)
Q Consensus 103 -~~I--~~V~SHPqal~QC~~fL~~~~p-~~~~v~~~STa~Aa~~v~~~~~~ 150 (313)
+++ ++|..-.-. .. ..+|.+..+ +++++.+.|..++.+++..+...
T Consensus 105 ~~dl~~~~i~~~~g~-~~-~~~l~~~~~~~~~i~~~~~~~~~~~~l~~g~~D 154 (225)
T PF00497_consen 105 LEDLKGKTIGVVRGS-SY-EDFLKQQFPENINIVEVDSNEQALDMLLNGRVD 154 (225)
T ss_dssp HGGGTTSEEEEETTS-HH-HHHHHHHHHCHHEEEEESSHHHHHHHHHTTSSS
T ss_pred HHHHCCCEEEEEECC-HH-HHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCC
T ss_conf 787457569997344-38-999987432230000124589997775225663
No 8
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions . ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity . This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined , . The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; PDB: 1usy_F 1o63_B 1o64_A 1z7n_G 1z7m_H 1nh8_A 1nh7_A 1h3d_A 1q1k_A 2vd3_A ....
Probab=48.33 E-value=6.4 Score=16.38 Aligned_cols=125 Identities=18% Similarity=0.139 Sum_probs=73.2
Q ss_pred HHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHCCC--CCEEEEEEEEEEEEE---EEECCCC---CHHHCE---EEE
Q ss_conf 99999985499578776033078860488789774279--917999999725678---8754799---731211---889
Q T0533 41 NTALERVRAGEADAAMVPIENSVEGGVTATLDAIATGQ--ELRIIREALVPITFV---LVARPGV---ELSDIK---RIS 109 (313)
Q Consensus 41 ~~vf~aV~~g~~d~gVvPiENS~~G~V~~tlD~L~~~~--~l~Iv~E~~l~I~~~---L~~~~~~---~l~~I~---~V~ 109 (313)
.|+-.-|+.|.+|+||+- .|.|.+.. .-.+..-..|....| +.+..+. ++++.+ +|.
T Consensus 4 ~DIp~yV~~G~~DlGI~G------------~D~l~E~~~~~~~v~~~~dL~fG~crl~vAvP~~~~~~~~~dl~~~~RIA 71 (163)
T PF01634_consen 4 QDIPTYVEDGAADLGITG------------RDVLLESGLGNADVYELLDLGFGKCRLVVAVPEDWDYQSVEDLKEGLRIA 71 (163)
T ss_dssp GHHHHHHH-----B--B--------------HHHHHSSHH--CEEEEEEEEECEEEEEEEEETTSCGCCCGGGSS-EEEE
T ss_pred HHHHHHHHCCCCCEEEEE------------EEEECCCCCCCCCEEEEECCCCCCEEEEEEEECCCCCCCHHHHCCCCEEE
T ss_conf 778899858996287843------------11433278764485474427966689999987888889978926898899
Q ss_pred ECCCHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCCEECCCHHHHHHHCCCEEEECCCCCCCCCEEEEE
Q ss_conf 7463178899999983789669971652899999983578531100134788875197156403467778715899
Q T0533 110 THGHAWAQCRLWVDEHLPNADYVPGSSTAASAMGLLEDDAPYEAAICAPLIAAEQPGLNVLAEDIGDNPDAVTRFI 185 (313)
Q Consensus 110 SHPqal~QC~~fL~~~~p~~~~v~~~STa~Aa~~v~~~~~~~~aaa~~~~~aa~~ygL~il~~~I~d~~~N~TRF~ 185 (313)
+...-+. ++|++++.-+++++...-..++|-.+--.. ..+=+.++-.--...||++++ -|- +-.+|++
T Consensus 72 TkYp~it--~~yf~~~g~~~~ii~l~GsvE~ap~~glAD--~IvDiv~TG~TLr~NgLk~i~-~I~---~s~A~LI 139 (163)
T PF01634_consen 72 TKYPNIT--RRYFAKKGVNVEIIKLSGSVELAPPLGLAD--AIVDIVETGTTLRANGLKEIE-TIL---ESSARLI 139 (163)
T ss_dssp ES-HHHH--HHHHHHTT--EEEEE----TTHHHH----S--EEEEEE----HHHHTTEEEEE-EEE---EEEEEEE
T ss_pred ECCHHHH--HHHHHHCCCCEEEEEEECCEECCCCCCCCC--EEEEEECCHHHHHHCCCEEEE-EEE---EEEEEEE
T ss_conf 6787899--999997699569998307370146788630--778510678899987999836-899---7689999
No 9
>PF02566 OsmC: OsmC-like protein; InterPro: IPR003718 Osmotically inducible protein C (OsmC)) is a stress -induced protein found in Escherichia coli. The transcription of the osmC gene of Escherichia coli is regulated as a function of the phase of growth and is induced during the decelerating phase, before entry into stationary phase. The transcription is initiated by two overlapping promoters, osmCp1 and osmCp2 . An organic hydroperoxide detoxification protein (OHR) from Xanthomonas campestris pv. phaseoli is highly induced by organic hydroperoxides, weakly induced by H2O2, and not induced at all by a superoxide generator. Ohr may be a new type of organic hydroperoxide detoxification protein .; GO: 0006950 response to stress; PDB: 3cje_A 2d7v_B 2onf_B 3eer_A 2bjo_A 1usp_B 1n2f_A 1zb8_A 1zb9_B 1nye_A ....
Probab=40.94 E-value=8.3 Score=15.66 Aligned_cols=61 Identities=13% Similarity=0.216 Sum_probs=37.8
Q ss_pred HHHHHHHHHHCCCCEEEEECCCCCC----CC----CCEEEEEEEECCCCCHHHHHHHHHHHHHCCEEEE
Q ss_conf 9999999997389556764125888----98----4569999986588838899999999875183678
Q T0533 216 LMEILDQFASRGVNLSRIESRPTGQ----YL----GHYFFSIDADGHATDSRVADALAGLHRISPATRF 276 (313)
Q Consensus 216 L~~vL~~F~~~gINLtkIeSRP~~~----~~----~~Y~F~id~eg~~~d~~v~~al~eL~~~~~~vkv 276 (313)
...+....+++|+++..++-+-... .+ -++.+.++..+..+++.++++++...+.|.-.+.
T Consensus 21 ~~~~~~~a~~~~i~~~~~~v~v~~~~~~~~~~~~~i~~~~~v~~~~~~~~~~~~~~~~~a~~~Cpv~~~ 89 (99)
T PF02566_consen 21 AMTFRMIAEKKGIDIEDLEVEVEGELDPEGPRFERIHVKVSVDSPDDDSEEELQRLIEKAEKRCPVSNT 89 (99)
T ss_dssp HHHHHHHHHHTT-CESEEEEEEEEEEETTTTEEEEEEEEEEEEESSCHHHHHHHHHHHHHHHHSHHHHH
T ss_pred HHHHHHHHHHCCCCCCCCEEEEEEEECCCCCCEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHCCHHHH
T ss_conf 999999999869996541799999863788745699999995069864699999999999852959999
No 10
>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=38.71 E-value=8.9 Score=15.44 Aligned_cols=50 Identities=6% Similarity=0.143 Sum_probs=40.7
Q ss_pred HHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHH
Q ss_conf 9999999997389556764125888984569999986588838899999999
Q T0533 216 LMEILDQFASRGVNLSRIESRPTGQYLGHYFFSIDADGHATDSRVADALAGL 267 (313)
Q Consensus 216 L~~vL~~F~~~gINLtkIeSRP~~~~~~~Y~F~id~eg~~~d~~v~~al~eL 267 (313)
+-.+++.+.++||+.|-|..--....|- .||+-++|+-+-.++.+.+++-
T Consensus 70 Vn~v~~al~~~GI~VtAlHNH~l~e~Pr--l~ymH~~~~gdp~~lA~~vr~A 119 (123)
T PF07485_consen 70 VNPVMSALRKNGIEVTALHNHWLFEQPR--LMYMHIWGVGDPAKLARKVRAA 119 (123)
T ss_pred HHHHHHHHHHCCCEEEEEECCCCCCCCC--EEEEEEEECCCHHHHHHHHHHH
T ss_conf 8899999997895699975467778986--8999998539999999999998
No 11
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins . This domain is found in members of the LysR family of prokaryotic transcriptional regulatory proteins IPR000847 from INTERPRO which share sequence similarities over approximately 280 residues including a putative helix-turn-helix DNA-binding motif at their N terminus.; PDB: 2hxr_B 3hfu_C 1utb_B 1uth_A 2uye_B 2uyf_A 2esn_D 2qsx_A 3fd3_A 2fyi_C ....
Probab=34.78 E-value=10 Score=15.05 Aligned_cols=116 Identities=21% Similarity=0.180 Sum_probs=64.1
Q ss_pred CCCCCCEEECCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHCCCCCEEEEEEEEEEEEEEEECCCCCHHH--
Q ss_conf 389996060359989999998549957877603307886048878977427991799999972567887547997312--
Q T0533 27 PGAADATRIPCTNVNTALERVRAGEADAAMVPIENSVEGGVTATLDAIATGQELRIIREALVPITFVLVARPGVELSD-- 104 (313)
Q Consensus 27 ~~~~~~~~v~~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~tlD~L~~~~~l~Iv~E~~l~I~~~L~~~~~~~l~~-- 104 (313)
++.-..++. ..+..++++.+.+|++|+|+++... ... .+..+......+++++.++..+.+
T Consensus 32 ~P~i~l~i~-~~~~~~~~~~l~~g~~Dl~i~~~~~--------------~~~--~~~~~~l~~~~~~~~~~~~~pl~~~~ 94 (209)
T PF03466_consen 32 HPDIELEIS-EGSSDELIEALLNGEIDLAIVYGPP--------------PPP--GLESEPLGEEPLVLVVSPDHPLAQKE 94 (209)
T ss_dssp STTSEEEEE-ETTHHHHHHHHHTTS-SEEEESSSS--------------TCT--TEEEEEEEEEEEEEEEETTSTTGGTS
T ss_pred CCCEEEEEE-ECCHHHHHHHHHHCCCEEEEEEEEC--------------CCC--EEECCCCCCCCCCCCCCCCCCHHHCC
T ss_conf 898299997-1403768999861323688866403--------------341--00001221000211122233200012
Q ss_pred ------C---EEEEE--CCCHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCCEECCCHHHHH
Q ss_conf ------1---18897--4631788999999837896699716528999999835785311001347888
Q T0533 105 ------I---KRIST--HGHAWAQCRLWVDEHLPNADYVPGSSTAASAMGLLEDDAPYEAAICAPLIAA 162 (313)
Q Consensus 105 ------I---~~V~S--HPqal~QC~~fL~~~~p~~~~v~~~STa~Aa~~v~~~~~~~~aaa~~~~~aa 162 (313)
+ ..|.- ......+..+|++++......+...++..++......+.+ .+++ +...+
T Consensus 95 ~i~~~~l~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~g--i~~~-p~~~~ 160 (209)
T PF03466_consen 95 PISLEDLADYPLILLSPGSPLRDQIDRWLREHGIDPNIVIEVDSLEAILSLVAAGDG--IAIL-PESLA 160 (209)
T ss_dssp CEEHHGHTTSEEEEESTTTTHHHHHHHHHHH---EEEEEEEESSHHHHHHHHHHSS---BEEE-EHHHH
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCC--CCCC-CCCCC
T ss_conf 322222222221100222212212222222222222222222232213457713773--0046-64444
No 12
>PF02100 ODC_AZ: Ornithine decarboxylase antizyme; InterPro: IPR002993 Ornithine decarboxylase antizyme (ODC-AZ) binds to, and destabilizes, ornithine decarboxylase (ODC), a key enzyme in polyamine synthesis. ODC is then rapidly degraded. The expression of ODC-AZ requires programmed, ribosomal frameshifting which is modulated according to the cellular concentration of polyamines. High levels of polyamines induce a +1 ribosomal frameshift in the translation of mRNA for the antizyme leading to the expression of a full- length protein. At least two forms of ODC-AZ exist in mammals and the protein has been found in Drosophila (protein Gutfeeling).; GO: 0004857 enzyme inhibitor activity, 0008073 ornithine decarboxylase inhibitor activity; PDB: 1zo0_A.
Probab=28.00 E-value=13 Score=14.33 Aligned_cols=51 Identities=14% Similarity=0.166 Sum_probs=33.7
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCC----CCEEEEEEEE
Q ss_conf 278999853787117999999999738955676412588898----4569999986
Q T0533 201 KTTVVVPLPEDHPGALMEILDQFASRGVNLSRIESRPTGQYL----GHYFFSIDAD 252 (313)
Q Consensus 201 ktsi~~~~~~d~pGaL~~vL~~F~~~gINLtkIeSRP~~~~~----~~Y~F~id~e 252 (313)
...+++.+.+|++. +..+|.-|..-|-++++......+... -++.||+.++
T Consensus 137 c~~v~ic~~k~~~d-~~~Llr~l~~vGFelv~~~~~~~~~~~~~~~s~~~lfm~~~ 191 (192)
T PF02100_consen 137 CSHVVICFDKDRPD-RASLLRTLSWVGFELVTPGHPSVPPRPDNFLSNKWLFMVYE 191 (192)
T ss_dssp ---EEEEE---SS--HHHHHHHHTT---EEE-----S-SS-S--------EEEEE-
T ss_pred CCEEEEEEECCCHH-HHHHHHHEEEECEEECCCCCCCCCCCCCCCCEEEEEEEEEE
T ss_conf 87899998289523-88876530730108226877788886665323379999986
No 13
>PF01746 tRNA_m1G_MT: tRNA (Guanine-1)-methyltransferase; InterPro: IPR016009 In transfer RNA many different modified nucleosides are found, especially in the anticodon region. tRNA (guanine-N1-)-methyltransferase 2.1.1.31 from EC is one of several nucleases operating together with the tRNA-modifying enzymes before the formation of the mature tRNA. It catalyses the reaction: S-adenosyl-L-methionine + tRNA -> S-adenosyl-L-homocysteine + tRNA containing N1-methylguanine methylating guanosine(G) to N1-methylguanine (1-methylguanosine (m1G)) at position 37 of tRNAs that read CUN (leucine), CCN(proline), and CGG (arginine) codons. The presence of m1G improves the cellular growth rate and the polypeptide steptime and also prevents the tRNA from shifting the reading frame . The mechanism of the trmD3-induced frameshift involving mutant tRNA(Pro) and tRNA(Leu) species has been investigated . It has been suggested that the conformation of the anticodon loop may be a major determining element for the formation of m1G37 in vivo . ; PDB: 1uaj_A 1uam_A 1ual_A 1uak_A 1p9p_A 1oy5_B.
Probab=21.87 E-value=11 Score=14.85 Aligned_cols=86 Identities=26% Similarity=0.351 Sum_probs=52.5
Q ss_pred CCEEEEECCCC-CHHHHHHHHHCCCCCCEEECCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHH--------HHHHC
Q ss_conf 55388808986-2899999996389996060359989999998549957877603307886048878--------97742
Q T0533 6 AVTYTFLGPQG-TFTEAALMQVPGAADATRIPCTNVNTALERVRAGEADAAMVPIENSVEGGVTATL--------DAIAT 76 (313)
Q Consensus 6 ~~~iayLGP~G-SfS~~AA~~~~~~~~~~~v~~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~tl--------D~L~~ 76 (313)
+.++-++.|.| +|++..+..++...+. .+-|+..+++.+.+..+.++ +=++.|.|-..- |+...
T Consensus 55 ~~~~~~~~~~g~~~~q~~~~~l~~~~~l-V~L~~d~e~~l~~v~~~~~~------~yiIGg~Vd~~~~~~~~~~~~~~~a 127 (186)
T PF01746_consen 55 GWKVIFLSPQGKPFTQESAEELFPKENL-VYLCGDYEGVLERVDPDKDD------VYIIGGIVDRGGEKGALTLIDAVKA 127 (186)
T ss_dssp --EEEEEEEE-EE--HHHHHHHHT-SBE-EEE---B----HHHHHHHSS------EEE----------HHHHHHHHHHHT
T ss_pred HHCEEEEEECCCCCCHHHHHHHCCCCCE-EEEECCCCCHHHHHHCCCCC------EEEEEEEEECCCCHHHHHHHHHHHH
T ss_conf 1023888631775222779974167988-99918974401333227774------7999679956983333357655577
Q ss_pred CCCCEEEEEEEEEEEEEEEECCC
Q ss_conf 79917999999725678875479
Q T0533 77 GQELRIIREALVPITFVLVARPG 99 (313)
Q Consensus 77 ~~~l~Iv~E~~l~I~~~L~~~~~ 99 (313)
...-|...--||++-.|+..++
T Consensus 128 -~~~Gv~~~~rLp~~~~l~~~p~ 149 (186)
T PF01746_consen 128 -LRPGVLNTARLPIESFLLEYPQ 149 (186)
T ss_dssp -T-----------SSTT------
T ss_pred -HCCCCCCCCCCCCCCCCCCCCC
T ss_conf -6189786133675542227899
No 14
>PF08979 DUF1894: Domain of unknown function (DUF1894); InterPro: IPR012031 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1z9v_A.
Probab=21.68 E-value=12 Score=14.72 Aligned_cols=26 Identities=19% Similarity=0.475 Sum_probs=18.6
Q ss_pred EEECCCHHHHHHHHHHHHCCCCEEEE
Q ss_conf 89746317889999998378966997
Q T0533 108 ISTHGHAWAQCRLWVDEHLPNADYVP 133 (313)
Q Consensus 108 V~SHPqal~QC~~fL~~~~p~~~~v~ 133 (313)
|..+-..+.||++|+++|....-.++
T Consensus 11 ILlk~~sfkEc~~yI~k~~~e~y~v~ 36 (89)
T PF08979_consen 11 ILLKGASFKECEEYIRKNYREVYEVP 36 (89)
T ss_dssp -SS-EE---HHHHHHHHTTS-EEEE-
T ss_pred EEECCCCHHHHHHHHHHCCCEEEEEC
T ss_conf 78747997999999985396689808
No 15
>PF11966 SSURE: Fibronectin-binding repeat
Probab=20.97 E-value=18 Score=13.49 Aligned_cols=46 Identities=24% Similarity=0.470 Sum_probs=35.0
Q ss_pred CCCCCEEEEEEEECCCCCHHHHHHHHHHHHHC-----CEEEEEEEECCCCCCCC
Q ss_conf 89845699999865888388999999998751-----83678664234678776
Q T0533 240 QYLGHYFFSIDADGHATDSRVADALAGLHRIS-----PATRFLGSYARADKQPA 288 (313)
Q Consensus 240 ~~~~~Y~F~id~eg~~~d~~v~~al~eL~~~~-----~~vkvLGsYp~~~~~p~ 288 (313)
-..+.|++=||+.|+..-..-|..|+.|+... ..+||-|. .+.+|.
T Consensus 16 l~kG~YFYevdLnGnt~Gk~gqaLldqlraNgt~~Y~aTvkvYga---kdGK~D 66 (81)
T PF11966_consen 16 LTKGKYFYEVDLNGNTTGKEGQALLDQLRANGTHTYQATVKVYGA---KDGKPD 66 (81)
T ss_pred CCCCCEEEEEECCCCCCCCCHHHHHHHHHHCCCEEEEEEEEEEEC---CCCCCC
T ss_conf 346517999963786457007899999986686233689999834---789844
No 16
>PF01894 UPF0047: Uncharacterised protein family UPF0047; InterPro: IPR001602 This family contains small uncharacterised proteins of 14 to 16 kDa mainly from bacteria although the signatures also occur in a hypothetical protein from archaea and from yeast.; PDB: 2cu5_A 1xbf_B 1vmh_A 1vmf_A 1vmj_A 2p6c_A 2p6h_B 1vph_C 1ve0_A.
Probab=20.88 E-value=16 Score=13.88 Aligned_cols=14 Identities=14% Similarity=0.123 Sum_probs=12.4
Q ss_pred CCCCCEEEEEEEEC
Q ss_conf 89845699999865
Q T0533 240 QYLGHYFFSIDADG 253 (313)
Q Consensus 240 ~~~~~Y~F~id~eg 253 (313)
.+.|+.+||+|++|
T Consensus 94 LGtWQ~Iyl~E~d~ 107 (118)
T PF01894_consen 94 LGTWQGIYLVEFDG 107 (118)
T ss_dssp -----EEEEEE---
T ss_pred CCCCCEEEEEECCC
T ss_conf 45766799998889
Done!