Query         T0609 NP_347334.1, CLOSTRIDIUM ACETOBUTYLICUM, 340 residues
Match_columns 340
No_of_seqs    133 out of 2509
Neff          9.3 
Searched_HMMs 11830
Date          Mon Jul  5 09:08:50 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0609.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0609.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  328.7  22.6  291   18-336     1-301 (301)
  2 PF09095 DUF1926:  Domain of un  96.0  0.0014 1.2E-07   35.9   2.4  162   12-188     2-185 (278)
  3 PF04744 Monooxygenase_B:  Mone  62.8     2.9 0.00024   16.8   3.8   15  322-336   320-334 (381)
  4 PF00699 Urease_beta:  Urease b  58.0     2.2 0.00019   17.4   2.1   30  156-187    12-41  (100)
  5 PF00845 Gemini_BL1:  Geminivir  55.2     3.9 0.00033   16.0   4.8   12  321-332   230-241 (276)
  6 PF05506 DUF756:  Domain of unk  34.1     8.5 0.00072   14.0   3.8   39  146-186     5-43  (89)
  7 PF02017 CIDE-N:  CIDE-N domain  16.8      15  0.0013   12.5   0.6   12  319-330    66-77  (78)
  8 PF07385 DUF1498:  Protein of u  16.7      19  0.0016   12.0   2.2   62  123-189   113-177 (225)
  9 PF11320 DUF3122:  Protein of u  15.5      20  0.0017   11.9   4.0   33  113-154    26-60  (134)
 10 PF04379 DUF525:  Protein of un  15.5      20  0.0017   11.9   2.3   17  322-338    58-74  (90)

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=328.75  Aligned_cols=291  Identities=26%  Similarity=0.456  Sum_probs=233.4

Q ss_pred             EEEEEECC-CEEEEEECCCCCEEEEEEECCCC-EEEEECCCCCCCCCHHCCCCCCCCEEECCCCCEECCCEEEECCEEEE
Q ss_conf             89999879-84999950148689999998898-59996358844330002763211347736886200886887997899
Q T0609            18 KCIRFAAG-GYEALIIPDVGGNVVELKDTNKG-VTILRTPKKDLKFEDFKNRPQVYGLPVLFPPNRIDDGTFKLGDKTYK   95 (340)
Q Consensus        18 ~~v~l~n~-~~~~~i~p~~Ga~i~sl~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~G~pi~~p~~Ri~~g~f~~~g~~y~   95 (340)
                      +.|+|+|+ .++|+| +.+||.|+||+.++.+ .+++|..+.   .+.+...+ ++|.++.+++|||++|+|.++|+.|+
T Consensus         1 ~~i~L~n~~~~~~~i-~~~Ga~l~s~~~~~~~~~~~l~~~~~---~~~~~~~~-~~~~~l~p~~~Ri~~g~~~~~G~~~~   75 (301)
T PF01263_consen    1 DLITLENGNGLRVVI-PEYGAQLTSLKVKGKDGRELLWGSDP---AEDYWKDP-YFGPILFPFANRIRNGRFKLDGKPYC   75 (301)
T ss_dssp             EEEEEEETCTEEEEE-E----EEEEEEETT-TEEBSB---TS---HHHHHHTT---S-EEBSB-SEEGGGEEEETTEEEE
T ss_pred             CEEEEECCCCCEEEE-ECCCCEEEEEEECCCCCEEEECCCCC---HHHHCCCC-CCEEECCCCCEEEECCEEEECCEEEE
T ss_conf             999998899549999-76692999999899751567628988---79961566-53176898670867998978998999


Q ss_pred             ECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEEEEEEECCE-EEEEEEEEECCC
Q ss_conf             2356887766675665775359997113678748999999678986213488459999999980418-999999994887
Q T0609            96 FPINEAKNNNYIHGFIKNSKWTVHKKKIDQDKALVEVVFDFTKENEAYKYFSHEFQFKLSYELSSKG-LKQTTSVVNLSS  174 (340)
Q Consensus        96 l~~n~~~~~~~~HG~~~~~~W~v~~~~~~~~~~~v~~~~~~~~~~~~~~~~P~~~~~~~t~~l~~~~-L~i~~~v~N~~~  174 (340)
                      ++.|++ ..+++|||+|+++|++.+...   ..++++++.+..+  ...+|||+|+++++|+|+++. |+++++++|.| 
T Consensus        76 ~~~~~~-~~~~~HG~~r~~~w~~~~~~~---~~~v~~~l~~~~~--~~~~~P~~~~~~~~y~L~~~~~L~i~~~v~n~g-  148 (301)
T PF01263_consen   76 LPWNEP-YPHPLHGFARNRPWQVEEQSE---DDSVTFTLSSDPD--GDEGYPFDFELEVTYTLDGDGELSITYTVTNDG-  148 (301)
T ss_dssp             BS-SB--CCSEETTBGGGSB-EEEEEEC---TTEEEEEEEEECT--CHHHS-S-EEEEEEEEEETTEEEEEEEEEEESS-
T ss_pred             EECCCC-CCCCCCCCCCCCCEEEEEECC---CCEEEEEEEECCC--CCCCCCCCEEEEEEEEECCCCEEEEEEEEEECC-
T ss_conf             731677-986778897684389999726---7629999997478--544798630799999998997399999999688-


Q ss_pred             HHHEECCCCCCEEECCCCCCCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCEEECCC
Q ss_conf             03100001362476047777632450588703417862776566774237788623336677434655--3240120454
Q T0609           175 EEMPLSVGYHSAFNVPFIEGSEDSNCRVKISIDKFWKQDSRNLPTGESFAPTGEQKEYLENGVAVASH--PIESLFSLKD  252 (340)
Q Consensus       175 ~~~p~~~~~H~YF~~~~~~~~~~~~~~l~~~~~~~~~~d~~~lptg~~~~~~~~~~~~~~~~~~~~~~--~~D~~~~~~~  252 (340)
                      +++||++|+||||++++.   ++.++++++++..+++.+++.+|||+.....+..+++ ..+..+...  .+|++|....
T Consensus       149 ~~~p~~~g~HpyF~~~~~---~~~~~~l~~~~~~~~~~~~~~iptg~~~~~~~~~~df-~~~~~l~~~~~~~D~~~~~~~  224 (301)
T PF01263_consen  149 EPMPFSLGFHPYFNLPGD---SIDDHQLQFEADEYLELDDDLIPTGELAPVEGTPFDF-RQPRPLGEDIEGFDHVFVLDG  224 (301)
T ss_dssp             SEEEEBEEE--EEETTCC----CTGGEEEEEEEEEEEEETTS-EEEEEEETTTCETTC-SSSEEECSSCC-EEEEEEESS
T ss_pred             CCEEEEEECCCEEECCCC---CCEEEEEEEECCCEEECCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCEEEECCC
T ss_conf             655889863736851886---4213599990760352365678733311478985415-688363788642353898288


Q ss_pred             CCCCCCCCCEEEEECCCCCEEEEEEECCCCCEEEEECCCCCC-----CEEEEECCCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             234886632799971899839999985998868996488668-----839994155888888888877625768969897
Q T0609           253 IDVNGKTFRGACIEDASKNTRVVYEMSSEYKYLVIWNDMGDK-----KYACIEPQTSIINSPNVKLDRSVSGFKTLKPNE  327 (340)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~g~~l~~~~~~~~~~~~~~~~~g~~-----~~vciEP~t~~pda~n~~~~~~~~g~~~L~pGe  327 (340)
                      .       ....+.....+++++++.+..++++++|++.+..     ..+|+||++. +++++....    ++++|+|||
T Consensus       225 ~-------~~~~~~~~~~~~~i~l~~~~~~~~~~v~t~~~~~~~~~~~~~~~e~~~~-~~~~~~~~~----~~~~L~PGe  292 (301)
T PF01263_consen  225 K-------GRAAIILPSPGRGITLEVDTSQPSLVVWTPGGEPAYVCDEGICLEPQFL-PDEANNPGF----GLIVLAPGE  292 (301)
T ss_dssp             T-------SEEEEEEETTTEEEEEEEEESSSEEEEEEETTCHCCTTTSSCEEETTCE-ECGGGETTS----CGEEEE---
T ss_pred             C-------CCEEEEECCCCCEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCEE-ECCHHCCCC----CCEEECCCC
T ss_conf             7-------5189999159985899997899929997799863244776232577714-730435899----999999999


Q ss_pred             EEEEEEEEE
Q ss_conf             799999999
Q T0609           328 SWSGVCKLY  336 (340)
Q Consensus       328 ~~~~~~~~~  336 (340)
                      +++.+++|+
T Consensus       293 ~~~~~~~~~  301 (301)
T PF01263_consen  293 SYTFTTRYR  301 (301)
T ss_dssp             EEEEEEEEE
T ss_pred             EEEEEEEEC
T ss_conf             999999989


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=95.96  E-value=0.0014  Score=35.93  Aligned_cols=162  Identities=16%  Similarity=0.208  Sum_probs=79.6

Q ss_pred             EECCCEEEEEEECCCEEEEEECCCCCEEEEEEECCCCEEEEECCCCCCCCCHHCCCC-----C--CCCEEECCC-CCEE-
Q ss_conf             520886899998798499995014868999999889859996358844330002763-----2--113477368-8620-
Q T0609            12 IIWSEHKCIRFAAGGYEALIIPDVGGNVVELKDTNKGVTILRTPKKDLKFEDFKNRP-----Q--VYGLPVLFP-PNRI-   82 (340)
Q Consensus        12 ~~~~g~~~v~l~n~~~~~~i~p~~Ga~i~sl~~~~~~~~~l~~~~~~~~~~~~~~~~-----~--~~G~pi~~p-~~Ri-   82 (340)
                      +.+.|.+-|.|+++.+-+.+-|.+||.|..|..+.....+...  .....+.|....     .  -.|+.-..- ...+ 
T Consensus         2 fD~DG~~Ei~l~~~~~~~~~~p~~GGsl~Eld~k~~~~Nl~dt--LtRr~E~YH~ki~~~~~~~~~egi~siHe~~~~~~   79 (278)
T PF09095_consen    2 FDFDGRDEILLENESFNAYFKPAQGGSLFELDSKPKAHNLQDT--LTRRWEAYHEKIEQAQSESSGEGIASIHERVKFKP   79 (278)
T ss_dssp             SS-----EEEEE----EEEE-TT----EEEEEETTTTEETT----------GGG--------------------------
T ss_pred             CCCCCCCEEEEECCCEEEEEEECCCCEEEEEECCCCCCCHHHC--CCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCC
T ss_conf             7878830179977867999961889679998236631466440--36687353621026776557777556335023356


Q ss_pred             ---CCC-EEEECCEEE---EECCCCCC------CCCCCCCCCCCCCEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCEE
Q ss_conf             ---088-688799789---92356887------76667566577535999711367874899999967898621348845
Q T0609            83 ---DDG-TFKLGDKTY---KFPINEAK------NNNYIHGFIKNSKWTVHKKKIDQDKALVEVVFDFTKENEAYKYFSHE  149 (340)
Q Consensus        83 ---~~g-~f~~~g~~y---~l~~n~~~------~~~~~HG~~~~~~W~v~~~~~~~~~~~v~~~~~~~~~~~~~~~~P~~  149 (340)
                         ++- .|.+.-+.-   |+-.++..      ..-.-=|-..++++.+.....   +  |++.-..       ...+.+
T Consensus        80 e~~~~~L~yD~~~R~s~~Dhf~~~~~tle~~~~~~~~e~gDF~~~~y~~~~~~~---~--v~~~r~g-------~v~~~~  147 (278)
T PF09095_consen   80 EGIKKELVYDWYRRVSFIDHFLDPETTLEDFYQNSFREYGDFANQPYNYELRKD---N--VRFKRDG-------GVKGYP  147 (278)
T ss_dssp             HHHHTT----SS---EEE---B-TT--HHHHHTTTS------SSS--EEE-----------EEEE-----------SB--
T ss_pred             CCCCCCCCCCCCCCCHHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCEEEEECCC---C--EEEEEEC-------CCCCCC
T ss_conf             120200566742242023100789999999867631000210247515564267---4--6999616-------743253


Q ss_pred             EEEEEEEEEECCEEEEEEEEEECCCHHHEECCCCCCEEE
Q ss_conf             999999998041899999999488703100001362476
Q T0609           150 FQFKLSYELSSKGLKQTTSVVNLSSEEMPLSVGYHSAFN  188 (340)
Q Consensus       150 ~~~~~t~~l~~~~L~i~~~v~N~~~~~~p~~~~~H~YF~  188 (340)
                      +.++.+|+|.+++|.++|+++ .+..+.+..++.--.++
T Consensus       148 ~~l~K~y~l~~~~~~v~Y~i~-~~~~~~~~~f~vE~Nla  185 (278)
T PF09095_consen  148 ITLEKTYRLTENGLQVRYEIK-ESPRDIELLFGVEINLA  185 (278)
T ss_dssp             EEEEEEEE------EEEEEEE--ESS---EEE-EEEE--
T ss_pred             EEEEEEEEEECCEEEEEEEEE-ECCCCCCEEEEEEEEEC
T ss_conf             389999999289699999999-67877535899998621


No 3  
>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=62.77  E-value=2.9  Score=16.75  Aligned_cols=15  Identities=13%  Similarity=0.151  Sum_probs=9.1

Q ss_pred             EECCCCEEEEEEEEE
Q ss_conf             969897799999999
Q T0609           322 TLKPNESWSGVCKLY  336 (340)
Q Consensus       322 ~L~pGe~~~~~~~~~  336 (340)
                      .++|||+.+...+.+
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 4  
>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=58.02  E-value=2.2  Score=17.38  Aligned_cols=30  Identities=30%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             EEEECCEEEEEEEEEECCCHHHEECCCCCCEE
Q ss_conf             99804189999999948870310000136247
Q T0609           156 YELSSKGLKQTTSVVNLSSEEMPLSVGYHSAF  187 (340)
Q Consensus       156 ~~l~~~~L~i~~~v~N~~~~~~p~~~~~H~YF  187 (340)
                      +.|....-+++++|+|.||+|.  +.+-|--|
T Consensus        12 I~lN~gr~~~~l~V~NtGDRPI--QVGSHyHF   41 (100)
T PF00699_consen   12 IELNAGRERITLEVTNTGDRPI--QVGSHYHF   41 (100)
T ss_dssp             EETT----EEEEEEEE-----E--EE---S-G
T ss_pred             EEECCCCCEEEEEEEECCCCCE--EECCCCCH
T ss_conf             8866999679999673798666--88240155


No 5  
>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=55.21  E-value=3.9  Score=15.99  Aligned_cols=12  Identities=42%  Similarity=0.556  Sum_probs=6.8

Q ss_pred             EEECCCCEEEEE
Q ss_conf             896989779999
Q T0609           321 KTLKPNESWSGV  332 (340)
Q Consensus       321 ~~L~pGe~~~~~  332 (340)
                      ..|.||++.+..
T Consensus       230 ~~LDPGdSaS~v  241 (276)
T PF00845_consen  230 SSLDPGDSASQV  241 (276)
T ss_pred             CCCCCCCCHHHH
T ss_conf             666988556663


No 6  
>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=34.12  E-value=8.5  Score=14.02  Aligned_cols=39  Identities=13%  Similarity=0.138  Sum_probs=26.9

Q ss_pred             CCEEEEEEEEEEEECCEEEEEEEEEECCCHHHEECCCCCCE
Q ss_conf             88459999999980418999999994887031000013624
Q T0609           146 FSHEFQFKLSYELSSKGLKQTTSVVNLSSEEMPLSVGYHSA  186 (340)
Q Consensus       146 ~P~~~~~~~t~~l~~~~L~i~~~v~N~~~~~~p~~~~~H~Y  186 (340)
                      -|+.+++...+.-...  .+.++++|.|.++..|...-+.|
T Consensus         5 lpy~~~v~~~~~~~~g--~l~L~l~N~G~~~~~~~v~~~~~   43 (89)
T PF05506_consen    5 LPYEPEVDARYDAATG--NLRLTLANSGSAGATFTVYDNAY   43 (89)
T ss_pred             CCCCCEEEEEEECCCC--EEEEEEEECCCCCEEEEEEECCC
T ss_conf             7878899999976899--89999995898758999992887


No 7  
>PF02017 CIDE-N:  CIDE-N domain;  InterPro: IPR003508   This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0005515 protein binding, 0006915 apoptosis, 0005622 intracellular; PDB: 1ibx_B 1f2r_I 1c9f_A 2eel_A 1d4b_A.
Probab=16.78  E-value=15  Score=12.54  Aligned_cols=12  Identities=25%  Similarity=0.778  Sum_probs=9.7

Q ss_pred             CCEEECCCCEEE
Q ss_conf             768969897799
Q T0609           319 GFKTLKPNESWS  330 (340)
Q Consensus       319 g~~~L~pGe~~~  330 (340)
                      -++.|.|||+|.
T Consensus        66 ~l~~L~~gq~W~   77 (78)
T PF02017_consen   66 VLMVLEPGQKWT   77 (78)
T ss_dssp             EEEEEESSS--S
T ss_pred             EEEEECCCCCCC
T ss_conf             999987998248


No 8  
>PF07385 DUF1498:  Protein of unknown function (DUF1498);  InterPro: IPR010864   This family consists of several hypothetical bacterial proteins of around 225 residues in length. The function of this family is unknown.
Probab=16.70  E-value=19  Score=12.03  Aligned_cols=62  Identities=5%  Similarity=-0.062  Sum_probs=25.2

Q ss_pred             CCCCCCEEEEEEEECCCCCCCCCCCEEEEEEEEEEEECCEEEE---EEEEEECCCHHHEECCCCCCEEEC
Q ss_conf             3678748999999678986213488459999999980418999---999994887031000013624760
Q T0609           123 IDQDKALVEVVFDFTKENEAYKYFSHEFQFKLSYELSSKGLKQ---TTSVVNLSSEEMPLSVGYHSAFNV  189 (340)
Q Consensus       123 ~~~~~~~v~~~~~~~~~~~~~~~~P~~~~~~~t~~l~~~~L~i---~~~v~N~~~~~~p~~~~~H~YF~~  189 (340)
                      .+.+++.+.+++--++.++..     +-+..+++..++..-++   +.-+-++|+.-+..--.+|-++.-
T Consensus       113 InRgGG~l~i~L~~s~~~~~~-----~~~~~v~V~~DG~~~t~~aG~~l~L~PGEsiTL~P~~~H~Fw~e  177 (225)
T PF07385_consen  113 INRGGGNLVIELYNSDPDGEK-----DEETPVTVPVDGIRRTVPAGGELRLSPGESITLPPGLYHWFWAE  177 (225)
T ss_pred             EECCCCEEEEEEECCCCCCCC-----CCCCCEEEECCCEEEEECCCCEEEECCCCEEECCCCCEEEEEEC
T ss_conf             423796399999545875566-----77898588169947886799879989998474589971457607


No 9  
>PF11320 DUF3122:  Protein of unknown function (DUF3122)
Probab=15.55  E-value=20  Score=11.86  Aligned_cols=33  Identities=15%  Similarity=0.199  Sum_probs=20.9

Q ss_pred             CCCEEEEECCCCCC--CCEEEEEEEECCCCCCCCCCCEEEEEEE
Q ss_conf             75359997113678--7489999996789862134884599999
Q T0609           113 NSKWTVHKKKIDQD--KALVEVVFDFTKENEAYKYFSHEFQFKL  154 (340)
Q Consensus       113 ~~~W~v~~~~~~~~--~~~v~~~~~~~~~~~~~~~~P~~~~~~~  154 (340)
                      ...|+++-++....  ...+.+++.         |||+.+++..
T Consensus        26 g~sWQvV~fkr~~~~~~~~i~LRLV---------GfPG~~~~~H   60 (134)
T PF11320_consen   26 GQSWQVVLFKRIKPGEEKPINLRLV---------GFPGSVRFDH   60 (134)
T ss_pred             CCCEEEEEEEECCCCCCCCEEEEEE---------CCCCCEEECC
T ss_conf             9945999997248888884699995---------0788577459


No 10 
>PF04379 DUF525:  Protein of unknown function (DUF525);  InterPro: IPR007474   This domain is found in the bacterial protein ApaG and at the C termini of some F-box proteins (IPR001810 from INTERPRO). F-box proteins contain a carboxy-terminal domain that interacts with protein substrates . The ApaG domain is ~125 amino acids in length, and is named after the bacterial ApaG protein, of which it forms the core. The Salmonella typhimurium ApaG domain protein, CorD, is involved in Co(2+) resistance and Mg(2+) efflux. Tertiary structures from different ApaG proteins show a fold of several beta-sheets. The ApaG domain may be involved in protein-protein interactions which could be implicated in substrate-specificity , , .; PDB: 1tza_A 1xvs_A 2f1e_A 1xq4_B.
Probab=15.48  E-value=20  Score=11.85  Aligned_cols=17  Identities=24%  Similarity=0.348  Sum_probs=0.0

Q ss_pred             EECCCCEEEEEEEEEEE
Q ss_conf             96989779999999998
Q T0609           322 TLKPNESWSGVCKLYIE  338 (340)
Q Consensus       322 ~L~pGe~~~~~~~~~ve  338 (340)
                      +|+|||+|++.....++
T Consensus        58 ~L~pGe~f~Y~S~~~L~   74 (90)
T PF04379_consen   58 VLRPGESFEYTSGCPLS   74 (90)
T ss_dssp             EE-TTEEEEEEE-EEES
T ss_pred             EECCCCCEEECCCCCCC
T ss_conf             39799977982887936


Done!