Query T0524 NP_389718.1, Bacillus subtilis, 325 residues
Match_columns 325
No_of_seqs 129 out of 1996
Neff 9.4
Searched_HMMs 11830
Date Fri May 21 18:04:36 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0524.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0524.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01263 Aldose_epim: Aldose 1 100.0 0 0 322.0 23.0 287 14-319 1-301 (301)
2 PF09095 DUF1926: Domain of un 96.5 0.0079 6.7E-07 31.1 8.3 159 8-183 2-187 (278)
3 PF00699 Urease_beta: Urease b 73.2 1.3 0.00011 18.5 3.4 31 149-181 12-42 (100)
4 PF04744 Monooxygenase_B: Mone 64.7 2.6 0.00022 16.8 4.1 15 305-319 320-334 (381)
5 PF05506 DUF756: Domain of unk 44.0 5.8 0.00049 14.9 7.2 54 139-196 5-58 (89)
6 PF00845 Gemini_BL1: Geminivir 41.1 6.4 0.00054 14.6 3.8 11 304-314 230-240 (276)
7 PF07748 Glyco_hydro_38C: Glyc 36.1 7.8 0.00066 14.1 4.5 32 16-48 91-122 (458)
8 PF06205 GT36_AF: Glycosyltran 35.8 7.8 0.00066 14.1 2.8 21 304-324 68-88 (90)
9 PF04442 CtaG_Cox11: Cytochrom 31.2 9.4 0.00079 13.7 3.4 36 137-173 48-86 (152)
10 PF00740 Parvo_coat: Parvoviru 29.7 7 0.00059 14.4 1.0 24 20-43 117-140 (528)
No 1
>PF01263 Aldose_epim: Aldose 1-epimerase; InterPro: IPR008183 Aldose 1-epimerase (5.1.3.3 from EC) (mutarotase) is the enzyme responsible for the anomeric interconversion of D-glucose and other aldoses between their alpha- and beta-forms. The sequence of mutarotase from two bacteria, Acinetobacter calcoaceticus and Streptococcus thermophilus is available . It has also been shown that, on the basis of extensive sequence similarities, a mutarotase domain seems to be present in the C-terminal half of the fungal GAL10 protein which encodes, in the N-terminal part, UDP-glucose 4-epimerase. The best conserved region in the sequence of mutarotase is centred around a conserved histidine residue which may be involved in the catalytic mechanism.; GO: 0016853 isomerase activity, 0005975 carbohydrate metabolic process; PDB: 1snz_B 1so0_B 1ns0_B 1ns8_A 1nss_A 1nsr_B 1mmy_A 1mmx_B 1nsm_B 1ns7_B ....
Probab=100.00 E-value=0 Score=322.01 Aligned_cols=287 Identities=29% Similarity=0.463 Sum_probs=232.7
Q ss_pred EEEEEECC-CEEEEEECCCCCEEEEEEECCCC-EEEEECCCCHHHHCCCCCCCCCCCCCCCCEECCCEEEECCEEEEECC
Q ss_conf 59999879-73999992138499999989997-43996689958863887324500066540421987987997999446
Q T0524 14 PAIKAGNE-HLEMIVVPEWGSNVISLVDKTTN-VQLLREPETAESFHDTPTLYGIPILFPPNRISDGTFSFRGRTYHFDI 91 (325)
Q Consensus 14 ~~i~L~n~-~l~~~i~p~~Ga~i~s~~~~~~~-~~~l~~~~~~~~~~~~~~~~G~p~~~~~~Ri~~g~f~~~G~~~~l~~ 91 (325)
+.|+|+|+ .++++|. .+||+|+||+.++.+ .++||+++....+..++ +.|.+++|++|||++|.|.++|+.|+++.
T Consensus 1 ~~i~L~n~~~~~~~i~-~~Ga~l~s~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~l~p~~~Ri~~g~~~~~G~~~~~~~ 78 (301)
T PF01263_consen 1 DLITLENGNGLRVVIP-EYGAQLTSLKVKGKDGRELLWGSDPAEDYWKDP-YFGPILFPFANRIRNGRFKLDGKPYCLPW 78 (301)
T ss_dssp EEEEEEETCTEEEEEE-----EEEEEEETT-TEEBSB---TSHHHHHHTT---S-EEBSB-SEEGGGEEEETTEEEEBS-
T ss_pred CEEEEECCCCCEEEEE-CCCCEEEEEEECCCCCEEEECCCCCHHHHCCCC-CCEEECCCCCEEEECCEEEECCEEEEEEC
T ss_conf 9999988995499997-669299999989975156762898879961566-53176898670867998978998999731
Q ss_pred CCCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCCCEEEEEEEEEEECCCE-EEEEEEEEECCCCEE
Q ss_conf 8986655568765662169998213678249999998457885004698449999999975890-899999984778615
Q T0524 92 NEKDKHNHLHGFLYHEKWNVVTTKQTDEGVIVETEIDLSELPHVQKQFPHHAVVRMTYTIKENT-LFKHATVMNKGKEAF 170 (325)
Q Consensus 92 ~~~~~~~~~HG~~~~~~w~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~t~~L~~~~-L~i~~~v~N~g~~~~ 170 (325)
|.. ..+++|||+|+++|++...+. +..++ +++.+ .++...+|||+|+++++|+|+++. |+++++++|.| ++|
T Consensus 79 ~~~-~~~~~HG~~r~~~w~~~~~~~-~~~v~--~~l~~--~~~~~~~~P~~~~~~~~y~L~~~~~L~i~~~v~n~g-~~~ 151 (301)
T PF01263_consen 79 NEP-YPHPLHGFARNRPWQVEEQSE-DDSVT--FTLSS--DPDGDEGYPFDFELEVTYTLDGDGELSITYTVTNDG-EPM 151 (301)
T ss_dssp SB--CCSEETTBGGGSB-EEEEEEC-TTEEE--EEEEE--ECTCHHHS-S-EEEEEEEEEETTEEEEEEEEEEESS-SEE
T ss_pred CCC-CCCCCCCCCCCCCEEEEEECC-CCEEE--EEEEE--CCCCCCCCCCCEEEEEEEEECCCCEEEEEEEEEECC-CCE
T ss_conf 677-986778897684389999726-76299--99997--478544798630799999998997399999999688-655
Q ss_pred EEEHHHCCEEEECC---CCEEEEECCCCEEEECCCCCCCCCCCCCC-CCCCCCCCCCCCCC--CCCEEEEECCCCCCCCC
Q ss_conf 53100145365079---97199984770788767657887413578-73434466105733--24604788247888762
Q T0524 171 PWGIGYHTTFIFPA---ESSLFSLTADQQWELDERLLPTGKLMDVP-YKEALHEGMDLRHK--QLDDVFLSSYQKRGGEN 244 (325)
Q Consensus 171 p~~~~~H~yf~~~~---~~~~l~~~~~~~~~~d~~~~pt~~~~~~~-~~~~~~~~~~~~~~--~~d~~~~~~~~~~~~~~ 244 (325)
||++|+||||+++. +.+++.+++...++.++..+|||...+.. ...++..+..+... .+|++|..... .
T Consensus 152 p~~~g~HpyF~~~~~~~~~~~l~~~~~~~~~~~~~~iptg~~~~~~~~~~df~~~~~l~~~~~~~D~~~~~~~~-----~ 226 (301)
T PF01263_consen 152 PFSLGFHPYFNLPGDSIDDHQLQFEADEYLELDDDLIPTGELAPVEGTPFDFRQPRPLGEDIEGFDHVFVLDGK-----G 226 (301)
T ss_dssp EEBEEE--EEETTCC-CTGGEEEEEEEEEEEEETTS-EEEEEEETTTCETTCSSSEEECSSCC-EEEEEEESST-----S
T ss_pred EEEEECCCEEECCCCCCEEEEEEEECCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCC-----C
T ss_conf 88986373685188642135999907603523656787333114789854156883637886423538982887-----5
Q ss_pred EEEEEECCCCEEEEEEECCCCCEEEEECCCCCC-----CEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCEEEEEEEEE
Q ss_conf 799996899759999985997759996488678-----839993254788878888777636758978997699999999
Q T0524 245 QAVIYHQHAHISIIYKADEQFKHWVVYNADGKQ-----GYLCPEPYTWVTNAVNLDLPSSLTGLQVLEPGEETTAKSSIT 319 (325)
Q Consensus 245 ~~~~~~~~~~~~l~~~~~~~~~~~~v~~~~~~~-----~~vciEP~t~~~da~n~~~~~~~~g~~~L~PGe~~~~~~~i~ 319 (325)
.+.+.....+.++.+..+...++++||+++... ..+|+||++...++.+ ...++++|+|||+++.+++|+
T Consensus 227 ~~~~~~~~~~~~i~l~~~~~~~~~~v~t~~~~~~~~~~~~~~~e~~~~~~~~~~-----~~~~~~~L~PGe~~~~~~~~~ 301 (301)
T PF01263_consen 227 RAAIILPSPGRGITLEVDTSQPSLVVWTPGGEPAYVCDEGICLEPQFLPDEANN-----PGFGLIVLAPGESYTFTTRYR 301 (301)
T ss_dssp EEEEEEETTTEEEEEEEEESSSEEEEEEETTCHCCTTTSSCEEETTCEECGGGE-----TTSCGEEEE---EEEEEEEEE
T ss_pred CEEEEECCCCCEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCHHC-----CCCCCEEECCCCEEEEEEEEC
T ss_conf 189999159985899997899929997799863244776232577714730435-----899999999999999999989
No 2
>PF09095 DUF1926: Domain of unknown function (DUF1926); InterPro: IPR015179 Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) . Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This entry represents a domain found in prokaryotic alpha-amylase (3.2.1.1 from EC) and 4-alpha-glucanotransferase (2.4.1.25 from EC). This domain adopts a beta-sandwich fold, in which two layers of anti-parallel beta-sheets are arranged in a nearly parallel fashion. The exact function of this domain is, as yet, unknown, however it has been proposed that it may play a role in transglycosylation reactions . More information about this protein can be found at Protein of the Month: alpha-Amylase .; GO: 0003824 catalytic activity, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process; PDB: 1k1x_B 1k1y_A 1k1w_A.
Probab=96.46 E-value=0.0079 Score=31.08 Aligned_cols=159 Identities=18% Similarity=0.196 Sum_probs=81.2
Q ss_pred EECCCEEEEEEECCCEEEEEECCCCCEEEEEEECCCCEEE---EECCCCHHHHCCCC-------CCCCCC-C------CC
Q ss_conf 6519815999987973999992138499999989997439---96689958863887-------324500-0------66
Q T0524 8 ITYLGTPAIKAGNEHLEMIVVPEWGSNVISLVDKTTNVQL---LREPETAESFHDTP-------TLYGIP-I------LF 70 (325)
Q Consensus 8 ~~~~G~~~i~L~n~~l~~~i~p~~Ga~i~s~~~~~~~~~~---l~~~~~~~~~~~~~-------~~~G~p-~------~~ 70 (325)
..|+|.+=|.|+|+.+.+.+.|.+||.|.+|..++.-..+ |-.. .+.|..+. ..-|+. + ..
T Consensus 2 fD~DG~~Ei~l~~~~~~~~~~p~~GGsl~Eld~k~~~~Nl~dtLtRr--~E~YH~ki~~~~~~~~~egi~siHe~~~~~~ 79 (278)
T PF09095_consen 2 FDFDGRDEILLENESFNAYFKPAQGGSLFELDSKPKAHNLQDTLTRR--WEAYHEKIEQAQSESSGEGIASIHERVKFKP 79 (278)
T ss_dssp SS-----EEEEE----EEEE-TT----EEEEEETTTTEETT----------GGG--------------------------
T ss_pred CCCCCCCEEEEECCCEEEEEEECCCCEEEEEECCCCCCCHHHCCCCC--CCCCCCCCCCCCCCCCCCCCCCHHHCCCCCC
T ss_conf 78788301799778679999618896799982366314664403668--7353621026776557777556335023356
Q ss_pred CCCEECCC-EEEECCE----EEEECCCCCCC-----CCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCCC
Q ss_conf 54042198-7987997----99944689866-----55568765662169998213678249999998457885004698
Q T0524 71 PPNRISDG-TFSFRGR----TYHFDINEKDK-----HNHLHGFLYHEKWNVVTTKQTDEGVIVETEIDLSELPHVQKQFP 140 (325)
Q Consensus 71 ~~~Ri~~g-~f~~~G~----~~~l~~~~~~~-----~~~~HG~~~~~~w~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~P 140 (325)
. + +++. .|.+.-+ .+-+++..... ...-=|--.+.++.+...... +.+.-. ....+
T Consensus 80 e-~-~~~~L~yD~~~R~s~~Dhf~~~~~tle~~~~~~~~e~gDF~~~~y~~~~~~~~-----v~~~r~-------g~v~~ 145 (278)
T PF09095_consen 80 E-G-IKKELVYDWYRRVSFIDHFLDPETTLEDFYQNSFREYGDFANQPYNYELRKDN-----VRFKRD-------GGVKG 145 (278)
T ss_dssp H-H-HHTT----SS---EEE---B-TT--HHHHHTTTS------SSS--EEE-----------EEEE-----------SB
T ss_pred C-C-CCCCCCCCCCCCCHHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCEEEEECCCC-----EEEEEE-------CCCCC
T ss_conf 1-2-02005667422420231007899999998676310002102475155642674-----699961-------67432
Q ss_pred EEEEEEEEEEECCCEEEEEEEEEECCCCEEEEEHHHCCEEEEC
Q ss_conf 4499999999758908999999847786155310014536507
Q T0524 141 HHAVVRMTYTIKENTLFKHATVMNKGKEAFPWGIGYHTTFIFP 183 (325)
Q Consensus 141 ~~~~~~~t~~L~~~~L~i~~~v~N~g~~~~p~~~~~H~yf~~~ 183 (325)
..++++.+|+|.+++|.++|.++ .+..+.+..++.--.++.+
T Consensus 146 ~~~~l~K~y~l~~~~~~v~Y~i~-~~~~~~~~~f~vE~Nla~l 187 (278)
T PF09095_consen 146 YPITLEKTYRLTENGLQVRYEIK-ESPRDIELLFGVEINLAML 187 (278)
T ss_dssp --EEEEEEEE------EEEEEEE--ESS---EEE-EEEE----
T ss_pred CCEEEEEEEEEECCEEEEEEEEE-ECCCCCCEEEEEEEEECCC
T ss_conf 53389999999289699999999-6787753589999862113
No 3
>PF00699 Urease_beta: Urease beta subunit CAUTION: The Prosite patterns do not match this subunit of the enzyme; InterPro: IPR002019 Urease 3.5.1.5 from EC is a nickel-binding enzyme that catalyzes the hydrolysis of urea to carbon dioxide and ammonia : Urea + H_2O = CO_2 + 2 NH_3 Historically, it was the first enzyme to be crystallized (in 1926). It is mainly found in plant seeds and microorganisms. In plants, urease is a hexamer of identical chains. In bacteria , it consists of either two or three different subunits (alpha IPR005847 from INTERPRO, beta, described in this entry, and gamma IPR002026 from INTERPRO). The structure of the urease complex is known . This subunit does not appear to take part in the catalytic mechanism. This subunit is known (confusingly) as alpha in Helicobacter.; GO: 0009039 urease activity, 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 1krb_B 1fwi_B 1fwc_B 1eju_B 1krc_B 1ejr_B 1ejt_B 1fwh_B 1a5k_B 1fwd_B ....
Probab=73.18 E-value=1.3 Score=18.51 Aligned_cols=31 Identities=19% Similarity=0.296 Sum_probs=22.7
Q ss_pred EEECCCEEEEEEEEEECCCCEEEEEHHHCCEEE
Q ss_conf 997589089999998477861553100145365
Q T0524 149 YTIKENTLFKHATVMNKGKEAFPWGIGYHTTFI 181 (325)
Q Consensus 149 ~~L~~~~L~i~~~v~N~g~~~~p~~~~~H~yf~ 181 (325)
+.|....=.++++|+|+||+|. +.|.|.-|.
T Consensus 12 I~lN~gr~~~~l~V~NtGDRPI--QVGSHyHF~ 42 (100)
T PF00699_consen 12 IELNAGRERITLEVTNTGDRPI--QVGSHYHFF 42 (100)
T ss_dssp EETT----EEEEEEEE-----E--EE---S-GG
T ss_pred EEECCCCCEEEEEEEECCCCCE--EECCCCCHH
T ss_conf 8866999679999673798666--882401556
No 4
>PF04744 Monooxygenase_B: Monellin Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related . These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules . These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus (Bath) is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain. The soluble regions of particulate methane monooxygenase from Methylococcus capsulatus (Bath) derive primarily from the B subunit. This subunit forms two antiparallel beta sheets and contains the mono- and di- nuclear copper metal centres .; PDB: 4mon_D 1fa3_A 3mon_F 1krl_D 2o9u_X 1iv7_B 1mol_B 1iv9_A 1fuw_A 1m9g_A ....
Probab=64.70 E-value=2.6 Score=16.85 Aligned_cols=15 Identities=27% Similarity=0.468 Sum_probs=11.6
Q ss_pred EECCCCEEEEEEEEE
Q ss_conf 978997699999999
Q T0524 305 VLEPGEETTAKSSIT 319 (325)
Q Consensus 305 ~L~PGe~~~~~~~i~ 319 (325)
-++||||++..++.+
T Consensus 320 pI~PGETk~v~v~aq 334 (381)
T PF04744_consen 320 PIAPGETKTVEVEAQ 334 (381)
T ss_dssp -B----EEEEEEEEE
T ss_pred CCCCCCCEEEEEEEE
T ss_conf 769996258999961
No 5
>PF05506 DUF756: Domain of unknown function (DUF756); InterPro: IPR008475 This domain is found, normally as a tandem repeat, at the C terminus of bacterial phospholipase C proteins.; GO: 0004629 phospholipase C activity, 0016042 lipid catabolic process
Probab=43.96 E-value=5.8 Score=14.85 Aligned_cols=54 Identities=15% Similarity=0.151 Sum_probs=33.3
Q ss_pred CCEEEEEEEEEEECCCEEEEEEEEEECCCCEEEEEHHHCCEEEECCCCEEEEECCCCE
Q ss_conf 9844999999997589089999998477861553100145365079971999847707
Q T0524 139 FPHHAVVRMTYTIKENTLFKHATVMNKGKEAFPWGIGYHTTFIFPAESSLFSLTADQQ 196 (325)
Q Consensus 139 ~P~~~~~~~t~~L~~~~L~i~~~v~N~g~~~~p~~~~~H~yf~~~~~~~~l~~~~~~~ 196 (325)
-|+.++++..+.-... .+.++++|.|..+..|.+.-+.|-. .....+.+.+...
T Consensus 5 lpy~~~v~~~~~~~~g--~l~L~l~N~G~~~~~~~v~~~~~~~--~~~~~~tv~aG~~ 58 (89)
T PF05506_consen 5 LPYEPEVDARYDAATG--NLRLTLANSGSAGATFTVYDNAYRG--DGPRRYTVAAGQT 58 (89)
T ss_pred CCCCCEEEEEEECCCC--EEEEEEEECCCCCEEEEEEECCCCC--CCCEEEEECCCCE
T ss_conf 7878899999976899--8999999589875899999288789--9999999899999
No 6
>PF00845 Gemini_BL1: Geminivirus BL1 movement protein; InterPro: IPR000211 The movement of bipartite Geminiviruses such as squash leaf curl virus (SqLCV) requires the cooperative interaction of two essential virus-encoded movement proteins, BR1 and BL1. Recent studies of SqLCV and bean dwarf mosaic virus have shown that BR1 and BL1 act in a cooperative manner to move the viral genome intracellularly from the nucleus to the cytoplasm and across the wall cell to cell. BR1 is a nuclear shuttle protein, and it has been proposed to bind newly replicated viral ssDNA genomes and move these between the nucleus and cytoplasm. These BR1-genome complexes are then directed to the cell periphery through interactions between BR1 and BL1, where, as the result of BL1 action, the complexes are moved to adjacent uninfected cells. The precise mechanism by which BL1 acts to transport these genome complexes across the cell wall, and whether this may differ in different cell types, remains at issue .
Probab=41.11 E-value=6.4 Score=14.59 Aligned_cols=11 Identities=27% Similarity=0.755 Sum_probs=6.3
Q ss_pred EEECCCCEEEE
Q ss_conf 89789976999
Q T0524 304 QVLEPGEETTA 314 (325)
Q Consensus 304 ~~L~PGe~~~~ 314 (325)
..|.||++.+-
T Consensus 230 ~~LDPGdSaS~ 240 (276)
T PF00845_consen 230 SSLDPGDSASQ 240 (276)
T ss_pred CCCCCCCCHHH
T ss_conf 66698855666
No 7
>PF07748 Glyco_hydro_38C: Glycosyl hydrolases family 38 C-terminal domain; InterPro: IPR011682 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families , , . This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site . Because the fold of proteins is better conserved than their sequences, some of the families can be grouped in 'clans'. Glycoside hydrolase family 38 GH38 from CAZY comprises enzymes with only one known activity; alpha-mannosidase () (3.2.1.114 from EC). This domain is found at the C terminus of glycosyl hydrolases from family 38.; GO: 0015923 mannosidase activity, 0006013 mannose metabolic process; PDB: 1o7d_D 3d50_A 1hty_A 2f7o_A 1tqw_A 3blb_A 1tqu_A 3bvv_A 3bvu_A 3czs_A ....
Probab=36.12 E-value=7.8 Score=14.13 Aligned_cols=32 Identities=28% Similarity=0.345 Sum_probs=27.2
Q ss_pred EEEECCCEEEEEECCCCCEEEEEEECCCCEEEE
Q ss_conf 999879739999921384999999899974399
Q T0524 16 IKAGNEHLEMIVVPEWGSNVISLVDKTTNVQLL 48 (325)
Q Consensus 16 i~L~n~~l~~~i~p~~Ga~i~s~~~~~~~~~~l 48 (325)
..|+|+.+++.+-+ ..|.|.|+.+|..+++++
T Consensus 91 ~~ieN~~~~v~~d~-~~G~i~sl~dk~~g~~~~ 122 (458)
T PF07748_consen 91 TTIENEFYRVEFDP-NTGGILSLYDKKNGRELL 122 (458)
T ss_dssp EEEE-SSEEEEE-T-T---EEEEECSSSS-EEE
T ss_pred EEEECCCEEEEEEC-CCCEEEEEEECCCCEEEE
T ss_conf 99978829999978-998399999902777998
No 8
>PF06205 GT36_AF: Glycosyltransferase 36 associated family ; InterPro: IPR010403 This domain is found in the NvdB protein (P20471 from SWISSPROT), which is involved in the production of beta-(1-->2)-glucan.; PDB: 1v7x_A 1v7v_A 1v7w_A 2cqs_A 2cqt_A.
Probab=35.83 E-value=7.8 Score=14.11 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.7
Q ss_pred EEECCCCEEEEEEEEEEEECC
Q ss_conf 897899769999999998617
Q T0524 304 QVLEPGEETTAKSSITIELNH 324 (325)
Q Consensus 304 ~~L~PGe~~~~~~~i~ie~~~ 324 (325)
+.|+|||+.+..+-+.+.-+.
T Consensus 68 i~L~PGe~~~i~f~lG~~~~~ 88 (90)
T PF06205_consen 68 ITLEPGETKEIVFVLGAAESR 88 (90)
T ss_dssp EEE----EEEEEEEE--EE--
T ss_pred EEECCCCEEEEEEEEEEECCC
T ss_conf 998999989999999870786
No 9
>PF04442 CtaG_Cox11: Cytochrome c oxidase assembly protein CtaG/Cox11; InterPro: IPR007533 Cytochrome c oxidase assembly protein is essential for the assembly of functional cytochrome oxidase protein. In eukaryotes it is an integral protein of the mitochondrial inner membrane. Cox11 is essential for the insertion of Cu(I) ions to form the CuB site. This is essential for the stability of other structures in subunit I, for example haems a and a3, and the magnesium/manganese centre. Cox11 is probably only required in sub-stoichiometric amounts relative to the structural units . The C-terminal region of the protein is known to form a dimer. Each monomer coordinates one Cu(I) ion via three conserved cysteine residues (111, 208 and 210) in Saccharomyces cerevisiae (P19516 from SWISSPROT). Met 224 is also thought to play a role in copper transfer or stabilising the copper site .; GO: 0005507 copper ion binding; PDB: 1so9_A 1sp0_A.
Probab=31.16 E-value=9.4 Score=13.66 Aligned_cols=36 Identities=11% Similarity=0.002 Sum_probs=23.7
Q ss_pred CCCCEEEEE---EEEEEECCCEEEEEEEEEECCCCEEEEE
Q ss_conf 469844999---9999975890899999984778615531
Q T0524 137 KQFPHHAVV---RMTYTIKENTLFKHATVMNKGKEAFPWG 173 (325)
Q Consensus 137 ~~~P~~~~~---~~t~~L~~~~L~i~~~v~N~g~~~~p~~ 173 (325)
.+.|++|.- ++++...+ .-.+.+.++|.+++++.-.
T Consensus 48 ~~lpW~F~P~q~~v~V~pGe-~~~~~y~a~N~sd~~i~gq 86 (152)
T PF04442_consen 48 PGLPWQFKPEQRSVRVHPGE-TALVFYEAKNPSDKPIVGQ 86 (152)
T ss_dssp ----EEEE-S-SEEEEE-----EEEEEEEEE-SSS-B---
T ss_pred CCCCEEEEECEEEEEECCCC-EEEEEEEEECCCCCCEEEE
T ss_conf 99971789352689985898-5999999998999968999
No 10
>PF00740 Parvo_coat: Parvovirus coat protein VP2 This family is a subset of the SCOP family; InterPro: IPR001403 The Parvovirus coat protein VP2 together with VP1 forms a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminus region. VP2 is involved in packaging the viral DNA . The mature viron contains three caaspid proteins VP1, VP2, and VP3 and a noncapsid protein NS-1. ; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 1fpv_A 1c8g_A 1c8f_A 1c8e_A 1p5w_A 4dpv_Z 1c8h_A 2cas_A 1c8d_A 1ijs_P ....
Probab=29.74 E-value=7 Score=14.37 Aligned_cols=24 Identities=17% Similarity=0.113 Sum_probs=13.4
Q ss_pred CCCEEEEEECCCCCEEEEEEECCC
Q ss_conf 797399999213849999998999
Q T0524 20 NEHLEMIVVPEWGSNVISLVDKTT 43 (325)
Q Consensus 20 n~~l~~~i~p~~Ga~i~s~~~~~~ 43 (325)
++...-+|..++=|.|.=+.+..-
T Consensus 117 ~~~~~ttv~n~lTa~v~Vf~D~~y 140 (528)
T PF00740_consen 117 NDGGTTTVNNDLTAGVQVFCDSNY 140 (528)
T ss_dssp SSSTEEEEEE-TT--EEEEEETT-
T ss_pred CCCCCEEEECCCCEEEEEEECCCC
T ss_conf 687755880576406899966887
Done!