Query 042556
Match_columns 591
No_of_seqs 328 out of 1113
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 07:19:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042556.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042556hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12143 PPO1_KFDV: Protein of 100.0 1.1E-41 2.5E-46 311.2 14.7 129 460-588 1-130 (130)
2 PF00264 Tyrosinase: Common ce 100.0 3.1E-37 6.7E-42 305.6 5.9 195 161-372 1-223 (223)
3 PF12142 PPO1_DWL: Polyphenol 99.7 5.3E-18 1.1E-22 131.6 0.2 54 378-431 1-54 (54)
4 PF14830 Haemocyan_bet_s: Haem 95.5 0.085 1.8E-06 47.0 8.4 74 492-576 12-87 (103)
5 PF00372 Hemocyanin_M: Hemocya 85.8 0.25 5.5E-06 51.6 0.2 46 322-367 226-277 (278)
6 PLN00042 photosystem II oxygen 57.3 13 0.00027 38.6 4.0 26 40-73 37-62 (260)
7 PF10518 TAT_signal: TAT (twin 53.5 9.2 0.0002 25.7 1.5 16 59-75 1-16 (26)
8 TIGR02811 formate_TAT formate 53.1 11 0.00024 31.0 2.3 13 59-72 8-20 (66)
9 cd06445 ATase The DNA repair p 22.8 32 0.0007 28.9 0.3 24 147-170 3-26 (79)
10 cd00318 Phosphoglycerate_kinas 22.6 46 0.00099 36.8 1.6 28 486-514 102-147 (397)
11 TIGR03595 Obg_CgtA_exten Obg f 22.0 53 0.0011 27.1 1.5 20 548-567 42-61 (69)
12 TIGR00589 ogt O-6-methylguanin 21.5 37 0.00081 28.9 0.5 52 147-203 5-56 (80)
No 1
>PF12143 PPO1_KFDV: Protein of unknown function (DUF_B2219); InterPro: IPR022740 This domain represents the C terminus of polyphenol oxidases. This region is primarily found in eukaryotes, although a few bacterial members also exist. It is typically between 138 and 152 amino acids in length and the family is found in association with PF00264 from PFAM and PF12142 from PFAM. Many members are plant or plastid polyphenol oxidases, and there is a highly conserved KFDV sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process
Probab=100.00 E-value=1.1e-41 Score=311.19 Aligned_cols=129 Identities=70% Similarity=1.086 Sum_probs=121.3
Q ss_pred cccccCcceEEEeeCCccccccccccccceEEEEeeeeecCCcceEEEEEEcCCCCCCCCCCCCccceeeeecccCCCcC
Q 042556 460 FPIVLDRVISTVVPRPKKSRSKKEKEEEEEVLVVDNIEFERDARVKFDVYINEDEDEMPIGPDNSEFAGSFVNVPHKHKH 539 (591)
Q Consensus 460 fp~~L~~~~~~~V~rp~~~rs~~~k~~~eevLviegi~~~~~~~v~fdVfvn~~~~~~~~~~~~~efaGsf~~~ph~~~~ 539 (591)
||+.||+++++.|+||+++|+++||+++|||||||||+++.+.++|||||||+++++...+++++||||||+++||.|++
T Consensus 1 fP~~Ld~~v~~~V~RP~~~rs~~ek~~~EEVLvIegIe~d~~~~vkFDVfvN~~~~~~~~~~~~~EfaGSF~~vpH~~~~ 80 (130)
T PF12143_consen 1 FPLTLDKTVSVEVKRPKKSRSKKEKEEEEEVLVIEGIEIDDDVYVKFDVFVNVPEDDKPSGPDCAEFAGSFVNVPHKHHK 80 (130)
T ss_pred CCeeccceeEEEEeCCccccccccccCceEEEEEccEEecCCcceEEEEEEecccccCCCCCcceEEEEEEeeccCcccC
Confidence 89999999999999999999999999999999999999999999999999995555566689999999999999999665
Q ss_pred C-CccceEEEEechHHHHHhCCCCCCceEEEEeecCCCCeeEEceEEEEE
Q 042556 540 G-KKMKTSLRLGLTDLLEDLGAEDDDSVIVTLVPKFGKGLARIGGIKIDF 588 (591)
Q Consensus 540 ~-~~~~~~~~l~it~~L~~l~a~~~~~v~VtLVp~~g~~~v~i~~i~i~~ 588 (591)
+ ++.++++||||||+|||||+++|++|+||||||+|++.|+|+|+||+|
T Consensus 81 ~~~~~~t~~rlgitdlLedLga~~d~sIvVTLVPr~g~~~v~i~g~~Ie~ 130 (130)
T PF12143_consen 81 GKKKMKTSLRLGITDLLEDLGAEDDDSIVVTLVPRGGGDPVTIGGIKIEY 130 (130)
T ss_pred CCccceeEEEEEhhHHHHHhCCCCCCEEEEEEEEccCCCeEEEeeEEEeC
Confidence 4 558999999999999999999999999999999999999999999997
No 2
>PF00264 Tyrosinase: Common central domain of tyrosinase; InterPro: IPR002227 Tyrosinase (1.14.18.1 from EC) [] is a copper monooxygenases that catalyzes the hydroxylation of monophenols and the oxidation of o-diphenols to o-quinols. This enzyme, found in prokaryotes as well as in eukaryotes, is involved in the formation of pigments such as melanins and other polyphenolic compounds. Tyrosinase binds two copper ions (CuA and CuB). Each of the two copper ions has been shown [] to be bound by three conserved histidines residues. The regions around these copper-binding ligands are well conserved and also shared by some hemocyanins, which are copper-containing oxygen carriers from the hemolymph of many molluscs and arthropods [, ]. At least two proteins related to tyrosinase are known to exist in mammals, and include TRP-1 (TYRP1) [], which is responsible for the conversion of 5,6-dihydro-xyindole-2-carboxylic acid (DHICA) to indole-5,6-quinone-2-carboxylic acid; and TRP-2 (TYRP2) [], which is the melanogenic enzyme DOPAchrome tautomerase (5.3.3.12 from EC) that catalyzes the conversion of DOPAchrome to DHICA. TRP-2 differs from tyrosinases and TRP-1 in that it binds two zinc ions instead of copper []. Other proteins that belong to this family are plant polyphenol oxidases (PPO) (1.10.3.1 from EC), which catalyze the oxidation of mono- and o-diphenols to o-diquinones []; and Caenorhabditis elegans hypothetical protein C02C2.1.; GO: 0016491 oxidoreductase activity, 0008152 metabolic process; PDB: 2Y9X_C 2Y9W_B 1BT3_A 1BUG_B 1BT1_B 1BT2_B 4D87_B 3NQ1_A 3NQ0_A 3NPY_A ....
Probab=100.00 E-value=3.1e-37 Score=305.57 Aligned_cols=195 Identities=27% Similarity=0.475 Sum_probs=117.2
Q ss_pred CCchhccccccccccCCCccCCCCCCccccccCcccccchhhhhHHHHHHHHhhhc--CCCCCCcccccCCCCC---CCC
Q 042556 161 PRSFMNQANVHCAYCDGAYDQVGFPNLDLQIHNSWLFFPFHRYYLYFYEKILGKLI--DDPTFALPFWNWDSPP---GMQ 235 (591)
Q Consensus 161 p~S~~q~A~IH~~yc~g~y~~~g~~~~~~~iH~s~~FlPWHR~YL~~fEriLr~~~--gd~tfaLPYWDW~~~~---g~~ 235 (591)
|++|.+++.||++++... ..........|+|+++.||||||+||++||++||++| ++++|+||||||+.+. ...
T Consensus 1 ~~~y~~~~~iH~~~~~~~-~~~~~~~~~~~~H~~~~Fl~WHR~yl~~fE~~L~~~~~~~~~~~~lPYWDw~~~~~~~~~~ 79 (223)
T PF00264_consen 1 PSSYDDFAGIHGYPYRPW-KDSADDNSGDCAHGGPGFLPWHRAYLLLFEQALQSVCGYGGPSFTLPYWDWTSDSDPDDPF 79 (223)
T ss_dssp TTSHHHHHHHHCSSHTCS-SCSSSSCSEBSSSSSTTHHHHHHHHHHHHHHHHHHHTHHTHTTSEEEB--TTCCSSCSGCS
T ss_pred CChHHHHHHHhCcccccc-cccCCCCcCcccCCCCcchHHHHHHHHhhhHHHHhhhccccccccceeccccccccccccc
Confidence 689999999999887654 4344557789999999999999999999999999999 7789999999999321 122
Q ss_pred CCCCccCC---------CCCCCCCC--CCCCCCCCceecCCCCCCCCCCCCCCcccccchh-h-----HHHH-----hhh
Q 042556 236 MPPMFANP---------NSPLYDKL--RNANHQPPTLLDLDYNETDDDQTTTKKDQISSNL-T-----IMYR-----QMV 293 (591)
Q Consensus 236 iP~~f~~~---------~SPLyd~~--r~~~~~pp~~~d~~~~g~~~~~~~~~~~~i~~Nl-~-----~my~-----q~v 293 (591)
-+.+|.+. .++++... .......+........ .......++.+++ . .+.+ .++
T Consensus 80 ~~~i~~~~~~g~~~~~v~~~~~~f~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~r~~~~~~~~~~~~~~~~v~~~l 154 (223)
T PF00264_consen 80 NSPIFDDDPFGGGGGCVPNGPYSFANWNIICNFGPVSDYCPFN-----AWPNTPRCLRRNFNNNNNSPALPSQADVADLL 154 (223)
T ss_dssp SSHHHHCTTTTTSCECEESSTTTTSSTSSTTTTCCSBS-GGCC-----TCSCSCSSCCHHCTHHHHHHHHHHHHHHHHHH
T ss_pred CCccccCCccccccccccCCCcceecCCcccccCcCccccccc-----cCCCCccCccccccccchhhccccHHHHHHHH
Confidence 22222211 11221110 0000000000000000 0122345555554 1 1111 111
Q ss_pred cCC-CccccccCCccCCCCCCCCCCCcccccccccccccccCCCCCCCCCCCCCccCCCCcchhhhhhhhhhHHHHHHHc
Q 042556 294 SNG-KTSKLFLGSPYRAGDDPEPGSGSIENAPHNPVHLWCGDNTQPNLENMGNFYSAGRDPIFFAHHSNIDRMWTIWRTL 372 (591)
Q Consensus 294 s~a-~~~~~F~g~~y~~g~~~~~g~gslE~~pHn~VH~~vGg~~~~~~GdMg~~~sAa~DPIF~lHHaNVDRLW~iWQ~l 372 (591)
... .....|... ..+. ...+.+|..+||.||.|||| |+|+++.+||+|||||||||||||||++||++
T Consensus 155 ~~~~~~~~~f~~~--~~~~---~~~~~~~~~~H~~vH~~vGg------G~M~~~~~s~~DPiF~lHH~~iDrl~~~Wq~~ 223 (223)
T PF00264_consen 155 YQLFPDYSSFSNF--LEGF---GGFDSSEESPHNSVHNWVGG------GDMSDTATSPNDPIFWLHHANIDRLWAIWQQQ 223 (223)
T ss_dssp HHHHCSCHCHHHH--HHHC---CCCTCCHHTHHHHHHHHHHT------TTTTSTTTGGGSTHHHHHHHHHHHHHHHHHHC
T ss_pred hhcccchhhhhcc--ccCc---ccCCcccccccchhhhhhhh------ccccccccCCcHHHHHHHHHHHHHHHHHHhhC
Confidence 100 112222110 0000 12344445999999999995 69999999999999999999999999999974
No 3
>PF12142 PPO1_DWL: Polyphenol oxidase middle domain; InterPro: IPR022739 This domain is found in bacteria and eukaryotes and is approximately 50 amino acids in length. It is found in association with PF00264 from PFAM and PF12143 from PFAM. Most members are annotated as being polyphenol oxidases, and many are from plants or plastids. There is a conserved DWL sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process; PDB: 1BT3_A 1BUG_B 1BT1_B 1BT2_B 2P3X_A.
Probab=99.68 E-value=5.3e-18 Score=131.63 Aligned_cols=54 Identities=76% Similarity=1.390 Sum_probs=32.8
Q ss_pred CCCCCCccCccccccccCCcccccccccccccCCCceecCCCCCCccCCCCCCc
Q 042556 378 NFTEPDWLDSAFLFYDENANLVRVKVRDCLDTKNLGYVYQDVEIPWQNSKPSPR 431 (591)
Q Consensus 378 d~td~dwl~s~f~f~d~~~~~v~~tvrDvldt~~LgY~Y~~~~~pw~~~~p~~~ 431 (591)
|++|+||||++|.|||||+++|+++|+||||+++|||+|+++++||+++||+++
T Consensus 1 d~tD~dWLns~F~FYDen~~lVrv~vrD~Ld~~~LgY~Y~~v~~PW~~~kp~~~ 54 (54)
T PF12142_consen 1 DFTDPDWLNSSFLFYDENGQLVRVKVRDVLDTEKLGYTYQDVPIPWLNSKPTPR 54 (54)
T ss_dssp ----HHHHT-EEEEE-TTS-EEEEEGGGHT-TCCCTEEE-----TT--------
T ss_pred CCCccccccCeeEEECCCCCEEEEEhhhcccHHHcCccccCCCCccccCcCCCC
Confidence 578999999999999999999999999999999999999999999999999864
No 4
>PF14830 Haemocyan_bet_s: Haemocyanin beta-sandwich; PDB: 1JS8_B 3QJO_A 1LNL_A.
Probab=95.47 E-value=0.085 Score=47.04 Aligned_cols=74 Identities=27% Similarity=0.377 Sum_probs=40.0
Q ss_pred EEeeeeecCCcceEEEEEEcCCCCCCCCCCCCccceeeeecccCCCcCCCccceEEEEechHHHHHhCCCCCC--ceEEE
Q 042556 492 VVDNIEFERDARVKFDVYINEDEDEMPIGPDNSEFAGSFVNVPHKHKHGKKMKTSLRLGLTDLLEDLGAEDDD--SVIVT 569 (591)
Q Consensus 492 viegi~~~~~~~v~fdVfvn~~~~~~~~~~~~~efaGsf~~~ph~~~~~~~~~~~~~l~it~~L~~l~a~~~~--~v~Vt 569 (591)
++.||....+ |+ |||- .++ -+| ++||+|.-++-....-..-.+.++.+||+.|++|+...++ .|.|+
T Consensus 12 lL~Gi~~SA~--V~--~~ic-~~~-----~~c-~~AG~F~vLGG~~EMpW~FdRlykydIT~~l~~l~l~~~~~f~i~~~ 80 (103)
T PF14830_consen 12 LLHGIGTSAD--VK--FYIC-KPD-----DDC-HKAGTFFVLGGEKEMPWAFDRLYKYDITDALKKLGLHYDDPFHIKVE 80 (103)
T ss_dssp --B--SS-EE--EE--EEEE-ESS-----SSE-EEEEEEEE---TTS---B-SS-EEEE-HHHHHHCT--TTSSEEEEEE
T ss_pred eccCCCceEE--EE--EEEE-CCC-----CCc-eEccEEEEcCCCccCccccCccchhhHHHHHHHcCCCCCCCEEEEEE
Confidence 4566665443 45 5555 222 134 8999999998544322335889999999999999987554 66777
Q ss_pred EeecCCC
Q 042556 570 LVPKFGK 576 (591)
Q Consensus 570 LVp~~g~ 576 (591)
++-..|.
T Consensus 81 i~~~nGt 87 (103)
T PF14830_consen 81 ITAVNGT 87 (103)
T ss_dssp EEESSSS
T ss_pred EEecCCC
Confidence 7776664
No 5
>PF00372 Hemocyanin_M: Hemocyanin, copper containing domain; InterPro: IPR000896 Haemocyanins are copper-containing oxygen transport proteins found in the haemolymph of many invertebrates. They are divided into 2 main groups, arthropodan and molluscan. These have structurally similar oxygen-binding centres, which are similar to the oxygen-binding centre of tyrosinases [], but their quaternary structures are arranged differently. The arthropodan proteins exist as hexamers comprising 3 heterogeneous subunits (a, b and c) and possess 1 oxygen-binding centre per subunit; and the molluscan proteins exist as cylindrical oligomers of 10 to 20 subunits and possess 7 or 8 oxygen-binding centres per subunit []. Although the proteins have similar amino acid compositions, the only real similarity in their primary sequences is in the region corresponding to the second copper-binding domain, which also shows similarity to the copper-binding domain of tyrosinases []. Larval storage proteins (LSP) [] are proteins from the hemolymph of insects, which may serve as a store of amino acids for synthesis of adult proteins. There are two classes of LSP's, arylphorins, which are rich in aromatic amino acids, and methionine-rich LSP's. LSP's forms hexameric complexes. LSP's are structurally related to arthropods hemocyanins. This entry represents the copper-containg domain that usually occurs in the centre of haemocyanin proteins.; GO: 0005344 oxygen transporter activity, 0006810 transport; PDB: 1HCY_A 1HC1_C 3IXV_E 3IXW_L 3GWJ_F 3HHS_A 1NOL_A 1LLA_A 1OXY_A 1LL1_A.
Probab=85.83 E-value=0.25 Score=51.63 Aligned_cols=46 Identities=28% Similarity=0.460 Sum_probs=35.1
Q ss_pred ccccccccccccCCCCC------CCCCCCCCccCCCCcchhhhhhhhhhHHH
Q 042556 322 NAPHNPVHLWCGDNTQP------NLENMGNFYSAGRDPIFFAHHSNIDRMWT 367 (591)
Q Consensus 322 ~~pHn~VH~~vGg~~~~------~~GdMg~~~sAa~DPIF~lHHaNVDRLW~ 367 (591)
...|+..|..+|....| ..+-|+.+.+|-+||+||-.|-.||-+|.
T Consensus 226 g~l~~~~~~~lg~~~~~~~~~~~~psvl~~~~TalRDP~FY~l~K~I~~~f~ 277 (278)
T PF00372_consen 226 GSLHNLAHKLLGYIHDPDNKYGVVPSVLEHYETALRDPAFYRLHKRIDDLFQ 277 (278)
T ss_dssp TTHHHHHHHHHHTTTSTTSTTB-B--GGGSTTTGGGSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhccCcCCCCccccCCcccccccccccCcHHHHHHHHHHHHhc
Confidence 35778888888743322 23679999999999999999999999875
No 6
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=57.32 E-value=13 Score=38.61 Aligned_cols=26 Identities=38% Similarity=0.671 Sum_probs=16.0
Q ss_pred eeeeeecCCCCCCCcCCCCCcChhhHHHhhhhhH
Q 042556 40 KVTCKATNEQNPSSKDSLNKLDRRDVLLVGLGGL 73 (591)
Q Consensus 40 ~~~c~~~~~~~~~~~~~~~~~~rr~~l~~gl~g~ 73 (591)
.+.|++...+. ..+-||..| +.+.|.
T Consensus 37 ~~~~~~~~~~~-------~~~srr~~l-~~~~ga 62 (260)
T PLN00042 37 QVVCRAQEEDN-------SAVSRRAAL-ALLAGA 62 (260)
T ss_pred ceeeecccccc-------ccccHHHHH-HHHHHH
Confidence 58999854321 236799988 444444
No 7
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=53.47 E-value=9.2 Score=25.67 Aligned_cols=16 Identities=31% Similarity=0.383 Sum_probs=11.1
Q ss_pred CcChhhHHHhhhhhHhh
Q 042556 59 KLDRRDVLLVGLGGLYG 75 (591)
Q Consensus 59 ~~~rr~~l~~gl~g~~~ 75 (591)
++.||++| -+.++..+
T Consensus 1 ~~sRR~fL-k~~~a~~a 16 (26)
T PF10518_consen 1 NLSRRQFL-KGGAAAAA 16 (26)
T ss_pred CCcHHHHH-HHHHHHHH
Confidence 36899998 76555543
No 8
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=53.09 E-value=11 Score=31.03 Aligned_cols=13 Identities=54% Similarity=0.790 Sum_probs=9.7
Q ss_pred CcChhhHHHhhhhh
Q 042556 59 KLDRRDVLLVGLGG 72 (591)
Q Consensus 59 ~~~rr~~l~~gl~g 72 (591)
.+.||+.| .|||+
T Consensus 8 ~~sRR~Fl-k~lg~ 20 (66)
T TIGR02811 8 DPSRRDLL-KGLGV 20 (66)
T ss_pred CccHHHHH-HHHHH
Confidence 46799998 76664
No 9
>cd06445 ATase The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of
Probab=22.80 E-value=32 Score=28.90 Aligned_cols=24 Identities=13% Similarity=0.340 Sum_probs=18.7
Q ss_pred HHHHHHHHcCCCCCCCchhccccc
Q 042556 147 SKAIELMKALPADDPRSFMNQANV 170 (591)
Q Consensus 147 ~~Av~~mk~lP~~dp~S~~q~A~I 170 (591)
.+-++.|++.|.-.-.+|-++|..
T Consensus 3 ~~V~~~v~~IP~G~v~TYg~iA~~ 26 (79)
T cd06445 3 RRVWEALRQIPYGEVTTYGQIAKL 26 (79)
T ss_pred HHHHHHHhcCCCCCcCcHHHHHHH
Confidence 455677888898888889888864
No 10
>cd00318 Phosphoglycerate_kinase Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level phosphorylation events in the glycolytic pathway. Substrate-level phosphorylation is defined as production of ATP by a process, which is catalyzed by water-soluble enzymes in the cytosol; not involving membranes and ion gradients.
Probab=22.63 E-value=46 Score=36.81 Aligned_cols=28 Identities=36% Similarity=0.623 Sum_probs=20.8
Q ss_pred ccceEEEEeeeeecCCcceE------------------EEEEEcCCC
Q 042556 486 EEEEVLVVDNIEFERDARVK------------------FDVYINEDE 514 (591)
Q Consensus 486 ~~eevLviegi~~~~~~~v~------------------fdVfvn~~~ 514 (591)
+..|||++||+++....... +||||| |.
T Consensus 102 ~~GeIlLLEN~RF~~~E~~~~~~e~~~~~~~a~~LA~l~DiyVN-DA 147 (397)
T cd00318 102 KPGDVLLLENVRFYPEEEGKRDDDKEADEEFAKKLASLGDVYVN-DA 147 (397)
T ss_pred CCCcEEEEeccCccccccccCCcchhhHHHHHHHHHHhCCEEEE-cc
Confidence 45689999999995543222 799999 65
No 11
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=22.04 E-value=53 Score=27.13 Aligned_cols=20 Identities=45% Similarity=0.740 Sum_probs=15.9
Q ss_pred EEechHHHHHhCCCCCCceE
Q 042556 548 RLGLTDLLEDLGAEDDDSVI 567 (591)
Q Consensus 548 ~l~it~~L~~l~a~~~~~v~ 567 (591)
++||.++|++.|+.++++|.
T Consensus 42 ~~Gv~~~L~~~G~~~GD~V~ 61 (69)
T TIGR03595 42 KLGVEDALRKAGAKDGDTVR 61 (69)
T ss_pred HCCHHHHHHHcCCCCCCEEE
Confidence 56899999999998865443
No 12
>TIGR00589 ogt O-6-methylguanine DNA methyltransferase. All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.46 E-value=37 Score=28.87 Aligned_cols=52 Identities=17% Similarity=0.199 Sum_probs=30.0
Q ss_pred HHHHHHHHcCCCCCCCchhccccccccccCCCccCCCCCCccccccCcccccchhhh
Q 042556 147 SKAIELMKALPADDPRSFMNQANVHCAYCDGAYDQVGFPNLDLQIHNSWLFFPFHRY 203 (591)
Q Consensus 147 ~~Av~~mk~lP~~dp~S~~q~A~IH~~yc~g~y~~~g~~~~~~~iH~s~~FlPWHR~ 203 (591)
.+-++.+++.|.-.-.+|-++|..-+.+ ++...+|. .+.-.--..+.||||.
T Consensus 5 ~~V~~~l~~IP~G~v~TYg~iA~~~g~p--~~~RaVg~---al~~np~~~~iPcHRV 56 (80)
T TIGR00589 5 QRVWQALRTIPYGETKSYGQLAARIGNP--KAVRAVGG---ANGRNPLAILVPCHRV 56 (80)
T ss_pred HHHHHHHhCCCCCCcCCHHHHHHHhCCC--ChHHHHHH---HHHhCCCCCCCCCcee
Confidence 4556778888988888999988764321 11111221 0111112469999984
Done!