Query 034721
Match_columns 86
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 46136
Date Fri Mar 29 05:46:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034721.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034721hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02523 galacturonosyltransfe 99.3 3.5E-12 7.6E-17 105.4 5.5 62 1-63 1-62 (559)
2 PRK10119 putative hydrolase; P 73.3 3.3 7.2E-05 30.5 2.5 33 50-83 149-181 (231)
3 PF12911 OppC_N: N-terminal TM 53.9 20 0.00044 19.6 2.8 26 18-43 9-34 (56)
4 PHA02673 ORF109 EEV glycoprote 44.9 41 0.0009 24.9 4.0 28 19-46 29-56 (161)
5 PHA03093 EEV glycoprotein; Pro 43.8 43 0.00092 25.3 3.9 36 10-45 15-58 (185)
6 COG1149 MinD superfamily P-loo 39.3 18 0.00038 28.7 1.4 13 1-13 2-14 (284)
7 PLN02687 flavonoid 3'-monooxyg 39.1 49 0.0011 24.8 3.6 25 29-53 6-30 (517)
8 MTH00077 COX1 cytochrome c oxi 36.6 91 0.002 25.6 5.1 16 56-74 497-512 (514)
9 PF06783 UPF0239: Uncharacteri 35.3 42 0.00091 22.6 2.5 22 18-39 18-39 (85)
10 PTZ00067 40S ribosomal S23; Pr 35.1 23 0.0005 25.8 1.3 18 2-19 99-119 (143)
11 KOG2204 Mannosyl-oligosacchari 29.4 1.1E+02 0.0024 27.0 4.7 47 10-56 5-51 (625)
12 PF03772 Competence: Competenc 28.9 32 0.00069 23.7 1.2 61 26-86 118-187 (271)
13 PLN03153 hypothetical protein; 28.2 1.1E+02 0.0023 26.3 4.3 26 17-42 30-55 (537)
14 PF09967 DUF2201: VWA-like dom 28.1 25 0.00053 22.9 0.5 19 7-25 62-80 (126)
15 MTH00037 COX1 cytochrome c oxi 27.2 1.8E+02 0.0038 24.0 5.3 15 56-73 498-512 (517)
16 MTH00183 COX1 cytochrome c oxi 26.8 1.8E+02 0.004 23.8 5.3 16 55-73 496-511 (516)
17 PF01712 dNK: Deoxynucleoside 26.5 46 0.001 21.5 1.5 16 19-34 26-42 (146)
18 MTH00116 COX1 cytochrome c oxi 26.1 1.8E+02 0.0038 23.9 5.1 15 56-73 497-511 (515)
19 MTH00153 COX1 cytochrome c oxi 26.0 1.6E+02 0.0035 24.2 4.8 16 55-73 494-509 (511)
20 PTZ00474 tryptophan/threonine- 25.5 1.1E+02 0.0024 23.9 3.7 20 25-44 33-52 (316)
21 PLN02971 tryptophan N-hydroxyl 24.2 1.6E+02 0.0035 22.4 4.3 30 10-41 11-40 (543)
22 PF14937 DUF4500: Domain of un 23.8 32 0.00069 23.3 0.4 21 12-32 9-29 (86)
23 MTH00167 COX1 cytochrome c oxi 23.5 2E+02 0.0044 23.5 5.0 16 55-73 496-511 (512)
24 MTH00026 COX1 cytochrome c oxi 23.0 2.2E+02 0.0048 23.5 5.2 14 56-72 513-526 (534)
25 PF14992 TMCO5: TMCO5 family 21.7 1.1E+02 0.0023 24.1 3.0 29 19-47 210-238 (280)
26 MTH00103 COX1 cytochrome c oxi 21.6 2.2E+02 0.0047 23.5 4.8 16 55-73 496-511 (513)
27 COG0114 FumC Fumarase [Energy 21.0 39 0.00085 28.7 0.5 16 9-24 226-241 (462)
28 cd03367 Ribosomal_S23 S12-like 20.9 60 0.0013 22.9 1.3 17 3-19 75-94 (115)
29 PF00689 Cation_ATPase_C: Cati 20.8 1.6E+02 0.0035 18.6 3.2 23 59-81 146-168 (182)
30 TIGR01478 STEVOR variant surfa 20.7 35 0.00075 27.3 0.1 16 11-26 248-263 (295)
31 TIGR02891 CtaD_CoxA cytochrome 20.4 2.2E+02 0.0047 22.6 4.5 15 55-72 491-505 (506)
No 1
>PLN02523 galacturonosyltransferase
Probab=99.29 E-value=3.5e-12 Score=105.43 Aligned_cols=62 Identities=58% Similarity=0.934 Sum_probs=56.8
Q ss_pred CeeeeecCCCCcccCcchhhhHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCCCccc
Q 034721 1 MAVAIRGGRGGTAVGPGLRSLFSYRIFVSAMFSLLFLATLSVILTSHPSTSHHDPVSPPPLHS 63 (86)
Q Consensus 1 mavairggrggtavgpglrslfsyrifvsamfsllflatlsviltshpstshhdpvsppplhs 63 (86)
||+|-||||||...| |+|+.|+||+|.||+|.+||+|++|+.|++||..+|||-.-|---+.
T Consensus 1 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (559)
T PLN02523 1 MAVAHRGGRGGGGPG-GLRSFFSYRILASAIFLFLFLATTSVLLNTSPHPPHHDHLLPSSGNA 62 (559)
T ss_pred CchhhhcccCCCCCc-ccccchhHHHHHHHHHHHHHHHHHHHHHcCCCCCccccccccccccc
Confidence 899999999999888 99999999999999999999999999999999999999876654443
No 2
>PRK10119 putative hydrolase; Provisional
Probab=73.32 E-value=3.3 Score=30.48 Aligned_cols=33 Identities=21% Similarity=0.274 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCcccccccCCcchHHHHHHHHHhh
Q 034721 50 TSHHDPVSPPPLHSFFHLSEMPFINYFYEKLLSI 83 (86)
Q Consensus 50 tshhdpvsppplhsffhlsempfinyfyekllsi 83 (86)
...+||-.||..+..-- ..-.-||.|||||+.+
T Consensus 149 r~~~d~~~~~~~~~~~~-~~~~~i~HF~eKLl~L 181 (231)
T PRK10119 149 VALFDAEDPFAQHRPLD-DKQYALDHFQTKLLKL 181 (231)
T ss_pred CCCCCCCCcchhhcccc-CchhHHHHHHHHHHhh
Confidence 45577777665543221 1124699999999875
No 3
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=53.86 E-value=20 Score=19.64 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=16.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHH
Q 034721 18 LRSLFSYRIFVSAMFSLLFLATLSVI 43 (86)
Q Consensus 18 lrslfsyrifvsamfsllflatlsvi 43 (86)
+|.+++.|..+-++.-++++..++++
T Consensus 9 ~~~f~~nk~a~~gl~il~~~vl~ai~ 34 (56)
T PF12911_consen 9 WRRFRRNKLAVIGLIILLILVLLAIF 34 (56)
T ss_pred HHHHHhCchHHHHHHHHHHHHHHHHH
Confidence 45666777766666666666555554
No 4
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=44.88 E-value=41 Score=24.89 Aligned_cols=28 Identities=29% Similarity=0.344 Sum_probs=20.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhcc
Q 034721 19 RSLFSYRIFVSAMFSLLFLATLSVILTS 46 (86)
Q Consensus 19 rslfsyrifvsamfsllflatlsvilts 46 (86)
|..+.--+=++++.|++-|++|.|+|..
T Consensus 29 ~R~i~l~~Ri~~~iSIisL~~l~v~LaL 56 (161)
T PHA02673 29 RRYIKLFFRLMAAIAIIVLAILVVILAL 56 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555557889999999999998853
No 5
>PHA03093 EEV glycoprotein; Provisional
Probab=43.83 E-value=43 Score=25.26 Aligned_cols=36 Identities=28% Similarity=0.403 Sum_probs=25.1
Q ss_pred CCcccCcchhh--------hHHHHHHHHHHHHHHHHHHHHHHhc
Q 034721 10 GGTAVGPGLRS--------LFSYRIFVSAMFSLLFLATLSVILT 45 (86)
Q Consensus 10 ggtavgpglrs--------lfsyrifvsamfsllflatlsvilt 45 (86)
|.|--|+.|.. .+..-|=+++..|++-|++++++|.
T Consensus 15 gsTiYG~klkkk~~~kk~r~i~i~~RisiiiSIlsL~~i~~~LA 58 (185)
T PHA03093 15 GSTIYGDKLKKKKNKKKVKCIGICIRISIIISILSLIAITATLA 58 (185)
T ss_pred eeeeechhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777887753 3333444677888888888888774
No 6
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=39.30 E-value=18 Score=28.68 Aligned_cols=13 Identities=54% Similarity=0.981 Sum_probs=11.7
Q ss_pred CeeeeecCCCCcc
Q 034721 1 MAVAIRGGRGGTA 13 (86)
Q Consensus 1 mavairggrggta 13 (86)
|-|||-||.|||.
T Consensus 2 m~vAV~sGKGGtG 14 (284)
T COG1149 2 MQVAVASGKGGTG 14 (284)
T ss_pred cEEEEeecCCCCC
Confidence 6799999999986
No 7
>PLN02687 flavonoid 3'-monooxygenase
Probab=39.11 E-value=49 Score=24.78 Aligned_cols=25 Identities=12% Similarity=0.080 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCC
Q 034721 29 SAMFSLLFLATLSVILTSHPSTSHH 53 (86)
Q Consensus 29 samfsllflatlsviltshpstshh 53 (86)
+..+..+|+|++++++..|-..++-
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (517)
T PLN02687 6 PLLLGTVAVSVLVWCLLLRRGGSGK 30 (517)
T ss_pred hHHHHHHHHHHHHHHHHhccccCCC
Confidence 4455567778888887766555543
No 8
>MTH00077 COX1 cytochrome c oxidase subunit I; Provisional
Probab=36.62 E-value=91 Score=25.62 Aligned_cols=16 Identities=44% Similarity=0.972 Sum_probs=12.9
Q ss_pred CCCCCcccccccCCcchHH
Q 034721 56 VSPPPLHSFFHLSEMPFIN 74 (86)
Q Consensus 56 vsppplhsffhlsempfin 74 (86)
-+|||-|+| .|.||++
T Consensus 497 ~sPPp~hnf---~e~p~~~ 512 (514)
T MTH00077 497 GCPPPYHTF---EEPSFVQ 512 (514)
T ss_pred CCCCCccCC---CCccccc
Confidence 379999997 6888864
No 9
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=35.34 E-value=42 Score=22.62 Aligned_cols=22 Identities=32% Similarity=0.754 Sum_probs=17.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 034721 18 LRSLFSYRIFVSAMFSLLFLAT 39 (86)
Q Consensus 18 lrslfsyrifvsamfsllflat 39 (86)
+-.+..|-.|+.|+|-|+.++.
T Consensus 18 ~e~llRYGLf~GAIFQliCilA 39 (85)
T PF06783_consen 18 FENLLRYGLFVGAIFQLICILA 39 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4567889999999999876544
No 10
>PTZ00067 40S ribosomal S23; Provisional
Probab=35.05 E-value=23 Score=25.83 Aligned_cols=18 Identities=61% Similarity=1.162 Sum_probs=14.1
Q ss_pred eeeeec-CCCCcccC--cchh
Q 034721 2 AVAIRG-GRGGTAVG--PGLR 19 (86)
Q Consensus 2 avairg-grggtavg--pglr 19 (86)
-|-||| ||-|.++| ||.|
T Consensus 99 ~VLV~G~Gr~g~~v~DlPGVr 119 (143)
T PTZ00067 99 EVLVSGFGRSGHAVGDIPGVR 119 (143)
T ss_pred EEEEEecCcCCCccCCCCceE
Confidence 378999 99887877 7765
No 11
>KOG2204 consensus Mannosyl-oligosaccharide alpha-1,2-mannosidase and related glycosyl hydrolases [Carbohydrate transport and metabolism]
Probab=29.43 E-value=1.1e+02 Score=26.98 Aligned_cols=47 Identities=17% Similarity=-0.119 Sum_probs=35.1
Q ss_pred CCcccCcchhhhHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCC
Q 034721 10 GGTAVGPGLRSLFSYRIFVSAMFSLLFLATLSVILTSHPSTSHHDPV 56 (86)
Q Consensus 10 ggtavgpglrslfsyrifvsamfsllflatlsviltshpstshhdpv 56 (86)
+..+++-+-+.+-.+.+|+..|.+..+...+-.-...+||+++++-.
T Consensus 5 ~~p~~~~~p~~lr~~~~~~~~l~~~~~~~Lc~~a~f~~ps~~~~~~~ 51 (625)
T KOG2204|consen 5 IQPAMQLPPDVLRLKQIFLIFLGSSFQETLCLGANFRLPSSSPLLLI 51 (625)
T ss_pred CCCcCCCChHHHHHHHHHHHHHHHHHHHHhhhhheeeCCCCCchhhe
Confidence 33445445566777888999888887777777778899999998743
No 12
>PF03772 Competence: Competence protein; InterPro: IPR004477 This family is defined to identify a pair of paralogous 3' exoribonucleases in Escherichia coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterised originally as required for the expression of virulence genes, but is now recognised as the exoribonuclease RNase R (Rnr). Its paralog in Escherichia coli and Haemophilus influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cut off to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3' exoribonucleases. Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions [].
Probab=28.93 E-value=32 Score=23.73 Aligned_cols=61 Identities=28% Similarity=0.443 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCCC-------cccccccCCcchHHHHHHH--HHhhhhC
Q 034721 26 IFVSAMFSLLFLATLSVILTSHPSTSHHDPVSPPP-------LHSFFHLSEMPFINYFYEK--LLSIIAN 86 (86)
Q Consensus 26 ifvsamfsllflatlsviltshpstshhdpvsppp-------lhsffhlsempfinyfyek--llsiian 86 (86)
...+.-|-|-|+|++.+++...+-...-++..+.- .--...+.-+|.+-|++.+ +.|+++|
T Consensus 118 ~l~~~gF~LSf~av~~I~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~l~~~Pl~~~~f~~~s~~si~~N 187 (271)
T PF03772_consen 118 SLFSIGFQLSFLAVFGIILFYPPLKRLLQKLIKKLRSLLSLAISLAAQLATLPLLLYYFGSISLISILAN 187 (271)
T ss_pred HHHhcchHHHHHHHHHHHHhchhhhccccccchhhHHHHHhhhHHHHHHHHHHHHHHHcCCCChHHHHHH
Confidence 33445566778899998887755544444433221 2233355566766655554 3444444
No 13
>PLN03153 hypothetical protein; Provisional
Probab=28.16 E-value=1.1e+02 Score=26.31 Aligned_cols=26 Identities=19% Similarity=0.238 Sum_probs=19.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHH
Q 034721 17 GLRSLFSYRIFVSAMFSLLFLATLSV 42 (86)
Q Consensus 17 glrslfsyrifvsamfsllflatlsv 42 (86)
++..+.+|-|...+.++|+|..++..
T Consensus 30 ~~~~~~~~l~~~~~~~~l~~~~~~~~ 55 (537)
T PLN03153 30 AVVAVAALLLSTTAWLSLVFSGTTAR 55 (537)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 47888888888888888887755433
No 14
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=28.07 E-value=25 Score=22.87 Aligned_cols=19 Identities=37% Similarity=0.482 Sum_probs=14.0
Q ss_pred cCCCCcccCcchhhhHHHH
Q 034721 7 GGRGGTAVGPGLRSLFSYR 25 (86)
Q Consensus 7 ggrggtavgpglrslfsyr 25 (86)
.|+|||...|..+-+-..+
T Consensus 62 ~GgGGTdf~pvf~~~~~~~ 80 (126)
T PF09967_consen 62 KGGGGTDFRPVFEYLEENR 80 (126)
T ss_pred CCCCCCcchHHHHHHHhcC
Confidence 5899999988776655433
No 15
>MTH00037 COX1 cytochrome c oxidase subunit I; Provisional
Probab=27.20 E-value=1.8e+02 Score=23.97 Aligned_cols=15 Identities=40% Similarity=0.713 Sum_probs=11.4
Q ss_pred CCCCCcccccccCCcchH
Q 034721 56 VSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 56 vsppplhsffhlsempfi 73 (86)
.+|||.|+| .|.|++
T Consensus 498 ~~Ppp~hnf---~e~P~v 512 (517)
T MTH00037 498 SFPPSHHTF---DETPST 512 (517)
T ss_pred CCCCCccCC---CCCcee
Confidence 369999998 477754
No 16
>MTH00183 COX1 cytochrome c oxidase subunit I; Provisional
Probab=26.78 E-value=1.8e+02 Score=23.83 Aligned_cols=16 Identities=44% Similarity=0.932 Sum_probs=12.4
Q ss_pred CCCCCCcccccccCCcchH
Q 034721 55 PVSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 55 pvsppplhsffhlsempfi 73 (86)
-.+|||.|+| .|.|++
T Consensus 496 ~~sPPp~hnf---~e~p~v 511 (516)
T MTH00183 496 HGCPPPYHTF---EEPAFV 511 (516)
T ss_pred CCCCCCccCC---CCCcee
Confidence 3489999997 677765
No 17
>PF01712 dNK: Deoxynucleoside kinase; InterPro: IPR002624 This family consists of various deoxynucleoside kinases including cytidine (2.7.1.74 from EC), guanosine (2.7.1.113 from EC), adenosine (2.7.1.76 from EC) and thymidine kinase (2.7.1.21 from EC, which also phosphorylates deoxyuridine and deoxycytosine. These enzymes catalyse the production of deoxynucleotide 5'-monophosphate from a deoxynucleoside, using ATP and yielding ADP in the process.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0006139 nucleobase-containing compound metabolic process; PDB: 2JAS_B 2JAT_B 2JAQ_A 2VP4_D 1ZMX_F 1ZM7_C 1OE0_B 2VP9_C 2VPP_B 2VP6_G ....
Probab=26.45 E-value=46 Score=21.53 Aligned_cols=16 Identities=31% Similarity=0.592 Sum_probs=13.0
Q ss_pred hhhHH-HHHHHHHHHHH
Q 034721 19 RSLFS-YRIFVSAMFSL 34 (86)
Q Consensus 19 rslfs-yrifvsamfsl 34 (86)
||++| +.||..+|+..
T Consensus 26 Rsi~sd~~vF~~~~~~~ 42 (146)
T PF01712_consen 26 RSIYSDDFVFAKMLFKS 42 (146)
T ss_dssp S-HHHHHHTHHHHHHHT
T ss_pred CCeeechHHHHHHHHHh
Confidence 89999 99999998764
No 18
>MTH00116 COX1 cytochrome c oxidase subunit I; Provisional
Probab=26.05 E-value=1.8e+02 Score=23.90 Aligned_cols=15 Identities=47% Similarity=1.019 Sum_probs=11.7
Q ss_pred CCCCCcccccccCCcchH
Q 034721 56 VSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 56 vsppplhsffhlsempfi 73 (86)
-+|||.|+| .|.|++
T Consensus 497 ~sPpp~hnF---~e~P~v 511 (515)
T MTH00116 497 GCPPPYHTF---EEPAFV 511 (515)
T ss_pred CCCCccccC---CCCcee
Confidence 379999998 577765
No 19
>MTH00153 COX1 cytochrome c oxidase subunit I; Provisional
Probab=25.96 E-value=1.6e+02 Score=24.20 Aligned_cols=16 Identities=44% Similarity=0.885 Sum_probs=11.9
Q ss_pred CCCCCCcccccccCCcchH
Q 034721 55 PVSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 55 pvsppplhsffhlsempfi 73 (86)
-.+|||.|+| .|.|++
T Consensus 494 ~~sPpp~hnf---~e~P~v 509 (511)
T MTH00153 494 QNLPPAEHSY---SELPLL 509 (511)
T ss_pred cCCCCcccCC---CCCcee
Confidence 3479999997 477764
No 20
>PTZ00474 tryptophan/threonine-rich antigen superfamily; Provisional
Probab=25.49 E-value=1.1e+02 Score=23.89 Aligned_cols=20 Identities=15% Similarity=0.225 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034721 25 RIFVSAMFSLLFLATLSVIL 44 (86)
Q Consensus 25 rifvsamfsllflatlsvil 44 (86)
+.||+.+.+++|+.+.++++
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~ 52 (316)
T PTZ00474 33 TSTLSRLTILIFALSCAFFV 52 (316)
T ss_pred hHHHHHHHHHHHHHHHHHHh
Confidence 45566666666665555554
No 21
>PLN02971 tryptophan N-hydroxylase
Probab=24.25 E-value=1.6e+02 Score=22.40 Aligned_cols=30 Identities=27% Similarity=0.384 Sum_probs=13.9
Q ss_pred CCcccCcchhhhHHHHHHHHHHHHHHHHHHHH
Q 034721 10 GGTAVGPGLRSLFSYRIFVSAMFSLLFLATLS 41 (86)
Q Consensus 10 ggtavgpglrslfsyrifvsamfsllflatls 41 (86)
-|++--||--+ |+ ..++...|.+++..+++
T Consensus 11 ~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~ 40 (543)
T PLN02971 11 LTTKSSPGTSS-FT-NMYLLTTLQALVAITLL 40 (543)
T ss_pred cccccCCCCcc-HH-HHHHHHHHHHHHHHHHH
Confidence 35666677554 33 33334444444333333
No 22
>PF14937 DUF4500: Domain of unknown function (DUF4500)
Probab=23.75 E-value=32 Score=23.31 Aligned_cols=21 Identities=38% Similarity=0.626 Sum_probs=15.1
Q ss_pred cccCcchhhhHHHHHHHHHHH
Q 034721 12 TAVGPGLRSLFSYRIFVSAMF 32 (86)
Q Consensus 12 tavgpglrslfsyrifvsamf 32 (86)
..-||||||+-+-..|-..=|
T Consensus 9 ~~~g~GlRs~rtT~lFRavNf 29 (86)
T PF14937_consen 9 DFPGPGLRSVRTTTLFRAVNF 29 (86)
T ss_pred CCCCCCccccccchhhhhhCH
Confidence 456899999988777655433
No 23
>MTH00167 COX1 cytochrome c oxidase subunit I; Provisional
Probab=23.47 E-value=2e+02 Score=23.50 Aligned_cols=16 Identities=44% Similarity=0.974 Sum_probs=11.6
Q ss_pred CCCCCCcccccccCCcchH
Q 034721 55 PVSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 55 pvsppplhsffhlsempfi 73 (86)
-.+|||.|+| .|.|++
T Consensus 496 ~~sPpp~hnf---~e~P~v 511 (512)
T MTH00167 496 HGCPPPHHTW---EEPPFV 511 (512)
T ss_pred CCCCCcccCC---CcCCCC
Confidence 3489999998 366754
No 24
>MTH00026 COX1 cytochrome c oxidase subunit I; Provisional
Probab=22.96 E-value=2.2e+02 Score=23.51 Aligned_cols=14 Identities=43% Similarity=1.132 Sum_probs=10.6
Q ss_pred CCCCCcccccccCCcch
Q 034721 56 VSPPPLHSFFHLSEMPF 72 (86)
Q Consensus 56 vsppplhsffhlsempf 72 (86)
-+|||.|+| .|.|+
T Consensus 513 ~sPpp~hnf---~e~P~ 526 (534)
T MTH00026 513 TSPPEHHTY---NELPY 526 (534)
T ss_pred CCCCCccCC---CCCce
Confidence 379999998 46664
No 25
>PF14992 TMCO5: TMCO5 family
Probab=21.66 E-value=1.1e+02 Score=24.12 Aligned_cols=29 Identities=24% Similarity=0.221 Sum_probs=22.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhccC
Q 034721 19 RSLFSYRIFVSAMFSLLFLATLSVILTSH 47 (86)
Q Consensus 19 rslfsyrifvsamfsllflatlsviltsh 47 (86)
+..|.+|+|-..+|..||+..|..-+.-|
T Consensus 210 ~~~~wkr~lr~l~f~vL~f~~LL~y~~f~ 238 (280)
T PF14992_consen 210 SPTFWKRALRLLFFMVLFFTRLLGYLLFY 238 (280)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45899999999888888877777666555
No 26
>MTH00103 COX1 cytochrome c oxidase subunit I; Validated
Probab=21.55 E-value=2.2e+02 Score=23.52 Aligned_cols=16 Identities=38% Similarity=0.889 Sum_probs=12.1
Q ss_pred CCCCCCcccccccCCcchH
Q 034721 55 PVSPPPLHSFFHLSEMPFI 73 (86)
Q Consensus 55 pvsppplhsffhlsempfi 73 (86)
-.+|||.|+| .|.|.+
T Consensus 496 ~~sPpp~Hnf---~e~P~v 511 (513)
T MTH00103 496 HGCPPPYHTF---EEPTYV 511 (513)
T ss_pred CCCCCCccCC---CCCCcc
Confidence 3479999997 577765
No 27
>COG0114 FumC Fumarase [Energy production and conversion]
Probab=21.01 E-value=39 Score=28.69 Aligned_cols=16 Identities=50% Similarity=0.779 Sum_probs=12.3
Q ss_pred CCCcccCcchhhhHHH
Q 034721 9 RGGTAVGPGLRSLFSY 24 (86)
Q Consensus 9 rggtavgpglrslfsy 24 (86)
-||||||-||..--.|
T Consensus 226 iGGTAVGTGlNa~p~f 241 (462)
T COG0114 226 IGGTAVGTGLNAHPEF 241 (462)
T ss_pred cCCcccccCcCCCccH
Confidence 4899999998765444
No 28
>cd03367 Ribosomal_S23 S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center. It interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes the translocation of the growing peptidyl-tRNA to the P site to make room for the next aminoacyl-tRNA at the A (acceptor) site. Through its interaction with eEF2, S23 may play an important role in translocation. Also members of this subfamily are the archaeal 30S ribosomal S12 proteins. Prokaryotic S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as control element for the rRNA- and tRNA-driven movements of translocation. S12 and S23 are also implicated in translation accuracy. Antibiotics such as streptomycin bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=20.89 E-value=60 Score=22.92 Aligned_cols=17 Identities=65% Similarity=1.195 Sum_probs=11.1
Q ss_pred eeeec-CCCCcccC--cchh
Q 034721 3 VAIRG-GRGGTAVG--PGLR 19 (86)
Q Consensus 3 vairg-grggtavg--pglr 19 (86)
|-||| |+.|.++| ||.|
T Consensus 75 VLV~G~G~~Gg~v~DlPGVr 94 (115)
T cd03367 75 VLVAGFGRKGRAVGDIPGVR 94 (115)
T ss_pred EEEEecccCCCccCCCCceE
Confidence 67888 66555554 7765
No 29
>PF00689 Cation_ATPase_C: Cation transporting ATPase, C-terminus; InterPro: IPR006068 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved C-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3A3Y_A 2ZXE_A 2XZB_A 3B9B_A 3N5K_A 3FPS_A 3B9R_A 1WPG_C 2AGV_A 2O9J_A ....
Probab=20.81 E-value=1.6e+02 Score=18.62 Aligned_cols=23 Identities=22% Similarity=0.454 Sum_probs=14.3
Q ss_pred CCcccccccCCcchHHHHHHHHH
Q 034721 59 PPLHSFFHLSEMPFINYFYEKLL 81 (86)
Q Consensus 59 pplhsffhlsempfinyfyekll 81 (86)
|+++++|++..+++..|++--..
T Consensus 146 P~~~~~f~~~~l~~~~w~~~l~~ 168 (182)
T PF00689_consen 146 PGLNRIFGTAPLPLWQWLICLAL 168 (182)
T ss_dssp TTHHHHST----THHHHHCHHHH
T ss_pred hhhHhhhcccCCCHHHHHHHHHH
Confidence 46999999999999998765333
No 30
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=20.72 E-value=35 Score=27.34 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=7.2
Q ss_pred CcccCcchhhhHHHHH
Q 034721 11 GTAVGPGLRSLFSYRI 26 (86)
Q Consensus 11 gtavgpglrslfsyri 26 (86)
|||+|...-..+.|-|
T Consensus 248 gtAAtaA~aaF~Pcgi 263 (295)
T TIGR01478 248 ERAASAATSTFLPYGI 263 (295)
T ss_pred chHHHHHHHhhcccHH
Confidence 3444444444444544
No 31
>TIGR02891 CtaD_CoxA cytochrome c oxidase, subunit I. These families, as well as archaeal and eukaryotic cytochrome c subunit I's are included within the superfamily model, pfam00115.
Probab=20.41 E-value=2.2e+02 Score=22.56 Aligned_cols=15 Identities=47% Similarity=1.059 Sum_probs=11.0
Q ss_pred CCCCCCcccccccCCcch
Q 034721 55 PVSPPPLHSFFHLSEMPF 72 (86)
Q Consensus 55 pvsppplhsffhlsempf 72 (86)
-.+|||.|+| .|.|.
T Consensus 491 ~~~Pp~~h~f---~e~p~ 505 (506)
T TIGR02891 491 TSSPPPAHNF---ESLPV 505 (506)
T ss_pred CCCCCcccCC---CCCCC
Confidence 3479999997 46664
Done!