Query 032992
Match_columns 129
No_of_seqs 101 out of 637
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 08:27:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032992.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032992hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1507 Nucleosome assembly pr 100.0 2.4E-39 5.2E-44 261.7 8.6 116 9-124 155-301 (358)
2 PTZ00008 (NAP-S) nucleosome as 100.0 7.7E-39 1.7E-43 242.5 8.1 115 6-124 28-157 (185)
3 PTZ00007 (NAP-L) nucleosome as 100.0 1.5E-38 3.3E-43 258.8 9.1 114 12-125 97-236 (337)
4 PF00956 NAP: Nucleosome assem 100.0 3.2E-37 6.9E-42 241.2 10.2 116 11-127 66-207 (244)
5 KOG1508 DNA replication factor 99.8 4E-22 8.6E-27 158.0 -0.9 117 6-125 72-201 (260)
6 PF06784 UPF0240: Uncharacteri 48.1 14 0.0003 28.0 2.0 33 19-51 41-73 (179)
7 PF10417 1-cysPrx_C: C-termina 39.8 6.5 0.00014 22.5 -0.7 15 91-105 9-23 (40)
8 PF08770 SoxZ: Sulphur oxidati 36.1 2.9 6.4E-05 28.6 -3.0 68 21-102 19-90 (100)
9 PRK13611 photosystem II reacti 33.7 1.7E+02 0.0036 20.4 6.9 56 43-103 14-70 (104)
10 PF00284 Cytochrom_B559a: Lume 29.3 29 0.00064 20.1 0.9 10 64-73 10-19 (40)
11 TIGR00049 Iron-sulfur cluster 29.1 78 0.0017 20.9 3.2 20 36-55 63-82 (105)
12 KOG3110 Riboflavin kinase [Coe 24.7 80 0.0017 23.3 2.6 27 56-82 65-91 (153)
13 PF11155 DUF2935: Domain of un 23.5 48 0.001 22.9 1.3 26 16-41 10-36 (124)
14 PRK09502 iscA iron-sulfur clus 21.8 97 0.0021 20.9 2.6 23 35-57 64-86 (107)
15 PF08109 Antimicrobial14: Lact 21.6 51 0.0011 17.6 0.8 16 8-23 3-18 (31)
16 PTZ00253 tryparedoxin peroxida 21.0 37 0.00079 25.3 0.3 15 90-104 169-183 (199)
17 PLN03082 Iron-sulfur cluster a 20.4 1.1E+02 0.0023 22.8 2.7 31 35-67 118-148 (163)
No 1
>KOG1507 consensus Nucleosome assembly protein NAP-1 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.4e-39 Score=261.66 Aligned_cols=116 Identities=46% Similarity=0.842 Sum_probs=106.5
Q ss_pred cccCCCCchHHHHHhcChhhhhhhccCchhHhccccceEEEEeCCCC-ceEEEEEeCCCCCccCcEEEEEEEec---cCC
Q 032992 9 TKEKGVPDFWFIAMESHHELRQNIVRHDQGALKYLTDIKWCRINDSE-GFKLEFTFGPNPYFKNSVLEKTYRMI---DET 84 (129)
Q Consensus 9 ~~i~~IP~FW~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~~~d~~-~f~i~F~F~~NpyF~N~~L~K~~~~~---~~~ 84 (129)
+..||||+||++||+|+++++++|+++|++||+||+||++.+.+++. +|+|.|+|.+||||+|++|||+|+++ +..
T Consensus 155 ~d~KGIP~FWLtvlkNvd~lse~I~~~DEpiLk~L~DI~~~~~~~~~~~fklEFhFd~N~YFtN~vLTKTY~l~~~~D~~ 234 (358)
T KOG1507|consen 155 EDPKGIPDFWLTVLKNVDLLSEMITERDEPILKYLKDIRLKYSEDGQVGFKLEFHFDPNPYFTNEVLTKTYFLKSEPDED 234 (358)
T ss_pred ccccCCchHHHHHHhhhhhhhhhcccccHHHHHHHhhhheeeccCCccceEEEEEcCCCccccccceeeeeeeeccCCCc
Confidence 46799999999999999999999999999999999999999999885 99999999999999999999999998 444
Q ss_pred Ce------eeeeeeeeeeEecCCCCccccc---------------------ccceeeccCCCCCCCC
Q 032992 85 DI------VLEEAIGTVIHWYPGQCWIEKA---------------------ERSFFNFFEPLEVPTD 124 (129)
Q Consensus 85 ~~------~~~~~~~t~I~Wk~gk~~t~~~---------------------~~SFF~~F~~~~~p~~ 124 (129)
+| .+..|+||.|+|++|||||++. ..||||||+||.+|+.
T Consensus 235 ~P~~~~G~~i~~~~Gc~IdW~~gknlT~kti~kKq~~k~~~~~r~vtk~vp~eSFFNFFsPP~ipd~ 301 (358)
T KOG1507|consen 235 DPFAFDGPEIEKCEGCEIDWKPGKNLTVKTIKKKQRNKGTGQVRTVTKTVPNESFFNFFSPPEIPDE 301 (358)
T ss_pred CCcccCCceEEeeecCeeeccCCCccchhhhhhhccccCCCceeeeeecccchhhhhccCCCCCCcc
Confidence 44 6789999999999999999884 2699999999999933
No 2
>PTZ00008 (NAP-S) nucleosome assembly protein-S; Provisional
Probab=100.00 E-value=7.7e-39 Score=242.46 Aligned_cols=115 Identities=22% Similarity=0.362 Sum_probs=102.3
Q ss_pred ccccccCCCCchHHHHHhcChhhhhhhccCchhHhccccceEEEE-eCCCCceEEEEEeCC--CCCccCcEEEEEEEecc
Q 032992 6 DKATKEKGVPDFWFIAMESHHELRQNIVRHDQGALKYLTDIKWCR-INDSEGFKLEFTFGP--NPYFKNSVLEKTYRMID 82 (129)
Q Consensus 6 ~~~~~i~~IP~FW~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~-~~d~~~f~i~F~F~~--NpyF~N~~L~K~~~~~~ 82 (129)
.|+++|+|||+||++||+||+.++ +|+++|+++|+||+||+|+. .++++||+|+|+|.+ ||||+|++|+|+|+++.
T Consensus 28 kR~~II~gIP~FW~~vl~n~~~~~-~I~~~D~~~L~~L~dI~ve~~~~~~~~f~i~F~F~~~~N~yF~n~~LtK~y~~~~ 106 (185)
T PTZ00008 28 KRQEIIEKIPGFWADTLRRHPALS-YLVPEDIDILEHLKKIDLEDNLDNNGSYKITLIFDEKAKEFMEPLVLVKHVIFKN 106 (185)
T ss_pred HHHHHHhcCccHHHHHHHcCcccc-ccCHHHHHHHHHhCceEEEEeecCCCCEEEEEEECCCCCCCcCCCEEEEEEEEec
Confidence 578999999999999999999999 99999999999999999997 455569999999975 89999999999999987
Q ss_pred CCCeeeeeeeeeeeEecCCCCccccc------------ccceeeccCCCCCCCC
Q 032992 83 ETDIVLEEAIGTVIHWYPGQCWIEKA------------ERSFFNFFEPLEVPTD 124 (129)
Q Consensus 83 ~~~~~~~~~~~t~I~Wk~gk~~t~~~------------~~SFF~~F~~~~~p~~ 124 (129)
+++. .+++|+|+||+|+|+|++. ..|||+||++++.|++
T Consensus 107 ~~~~---~~~~t~I~Wk~gkn~t~~~~kk~~~~~~~~~~~SFF~fF~~~~~~~~ 157 (185)
T PTZ00008 107 NQEK---VVEVTKIKWKEGKSPIAAAEKARSDLDDECIVWSIFEWFTEEEWQDR 157 (185)
T ss_pred CCCc---eeeeeecccCCCCCcceeeeeccCccccCCCCCChhhcCCCCcccCc
Confidence 6543 3689999999999998863 2699999999877764
No 3
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=100.00 E-value=1.5e-38 Score=258.77 Aligned_cols=114 Identities=43% Similarity=0.764 Sum_probs=102.3
Q ss_pred CCCCchHHHHHhcChhhhhhhccCchhHhccccceEEEEeCCC--CceEEEEEeCCCCCccCcEEEEEEEeccC---CCe
Q 032992 12 KGVPDFWFIAMESHHELRQNIVRHDQGALKYLTDIKWCRINDS--EGFKLEFTFGPNPYFKNSVLEKTYRMIDE---TDI 86 (129)
Q Consensus 12 ~~IP~FW~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~~~d~--~~f~i~F~F~~NpyF~N~~L~K~~~~~~~---~~~ 86 (129)
++||+||++||+||+.++.+|+++|+++|+||+||+|++..+. ++|+|+|+|++||||+|++|+|+|++... ++|
T Consensus 97 ~gIP~FWl~vL~Nh~~ls~~I~e~De~iL~~L~dI~ve~~~~~~~~gf~I~F~F~~NpyF~N~vLtK~y~~~~~d~~~~p 176 (337)
T PTZ00007 97 PGLPQFWLTAMKNNNTLGSAIEEHDEPILSYLSDISCEYTEPNKQEGFILVFTFAPNPFFSNTVLTKTYHMKVLDGDDEP 176 (337)
T ss_pred CCcccHHHHHHHcCccHhhhCCHHHHHHHHhhCceEEEEccCCCCCceEEEEEeCCCCCCCCCeEEEEEEeecCCCCCCc
Confidence 3899999999999999999999999999999999999987654 69999999999999999999999999642 246
Q ss_pred eeeeeeeeeeEecCCCCccccc---------------------ccceeeccCCCCCCCCC
Q 032992 87 VLEEAIGTVIHWYPGQCWIEKA---------------------ERSFFNFFEPLEVPTDV 125 (129)
Q Consensus 87 ~~~~~~~t~I~Wk~gk~~t~~~---------------------~~SFF~~F~~~~~p~~~ 125 (129)
++..+++|+|+||+|++||++. ..|||+||+++.+|+.+
T Consensus 177 ~~~~~~~t~I~WK~GkdlT~k~v~kKqr~K~~~~~r~v~~~~~~~SFFnfF~p~~~p~~~ 236 (337)
T PTZ00007 177 LLSNTVATEIDWKQGKDVTKKVVTKKQRHKKTKETRTVTETVDRESFFNFFTSHEVPSDE 236 (337)
T ss_pred eeecceeeeceeeCCCCchhhhcccccccccCCCceeeccCCCCCChHHhcCCCCCCccc
Confidence 6678999999999999998742 16999999999999765
No 4
>PF00956 NAP: Nucleosome assembly protein (NAP); InterPro: IPR002164 It is thought that NAPs act as histone chaperones, shuttling both core and linker histones from their site of synthesis in the cytoplasm to the nucleus. The proteins may be involved in regulating gene expression and therefore cellular differentiation [, ]. The centrosomal protein c-Nap1, also known as Cep250, has been implicated in the cell-cycle-regulated cohesion of microtubule-organizing centres. This 281 kDa protein consists mainly of domains predicted to form coiled coil structures. The C-terminal region defines a novel histone-binding domain that is responsible for targeting CNAP1, and possibly condensin, to mitotic chromosomes []. During interphase, C-Nap1 localizes to the proximal ends of both parental centrioles, but it dissociates from these structures at the onset of mitosis. Re-association with centrioles then occurs in late telophase or at the very beginning of G1 phase, when daughter cells are still connected by post-mitotic bridges. Electron microscopic studies performed on isolated centrosomes suggest that a proteinaceous linker connects parental centrioles and C-Nap1 may be part of a linker structure that assures the cohesion of duplicated centrosomes during interphase, but that is dismantled upon centrosome separation at the onset of mitosis []. ; GO: 0006334 nucleosome assembly, 0005634 nucleus; PDB: 2E50_Q 2Z2R_A 2AYU_A 3Q66_A 3C9B_A 3Q68_B 3Q33_B 2ZD7_B 3DM7_A 3C9D_A ....
Probab=100.00 E-value=3.2e-37 Score=241.23 Aligned_cols=116 Identities=41% Similarity=0.767 Sum_probs=96.5
Q ss_pred cCCCCchHHHHHhcChhhhhhhccCchhHhccccceEEEEeCC-CCceEEEEEeCCCCCccCcEEEEEEEeccCCCe---
Q 032992 11 EKGVPDFWFIAMESHHELRQNIVRHDQGALKYLTDIKWCRIND-SEGFKLEFTFGPNPYFKNSVLEKTYRMIDETDI--- 86 (129)
Q Consensus 11 i~~IP~FW~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~~~d-~~~f~i~F~F~~NpyF~N~~L~K~~~~~~~~~~--- 86 (129)
.++||+||++||+||+.++.+|++.|.++|+||+||+|++..+ .++|+|+|+|++||||+|++|+|+|++..++++
T Consensus 66 ~~gIP~FW~~vl~n~~~~~~~i~~~D~~iL~~L~dI~v~~~~~~~~~f~l~F~F~~NpyF~n~~L~K~~~~~~~~~~~~~ 145 (244)
T PF00956_consen 66 PKGIPGFWLTVLKNHPLLAELISEEDEEILSYLTDIRVEYFEDNPRGFKLTFHFKPNPYFSNTVLTKEYYLKKEGDEEDP 145 (244)
T ss_dssp STTSTTHHHHHHHTSHHHHTTSSHHHHHHHTTEEEEEEEECCSSTTEEEEEEEECSTSSBSESEEEEEEEEESSSSTTTT
T ss_pred ccCCCCccccccccCchhhcccccccHHHHHhhhheEEEecccCCcceEEEEEECCCCcccCCEEEEEEEEeccCCCCCC
Confidence 6669999999999999999999999999999999999999887 569999999999999999999999999976541
Q ss_pred -eeeeeeeeeeEecCCCCccccc---------------------ccceeeccCCCCCCCCCCC
Q 032992 87 -VLEEAIGTVIHWYPGQCWIEKA---------------------ERSFFNFFEPLEVPTDVEG 127 (129)
Q Consensus 87 -~~~~~~~t~I~Wk~gk~~t~~~---------------------~~SFF~~F~~~~~p~~~~~ 127 (129)
. .++++|+|+||+|++++++. .+|||+||+++.+|+++++
T Consensus 146 ~~-~~~~~t~I~Wk~gkd~t~~~~~~k~~~k~~~~~~~~~~~~~~~SFF~~F~~~~~~~~~~~ 207 (244)
T PF00956_consen 146 DE-LKSESTPIDWKPGKDLTKKEVKKKQKNKGTKQVRTITKEVPTESFFNFFSPPKLPDEEDD 207 (244)
T ss_dssp -E-EEEEE---EBSTTTCTTCCCCECECCSCCCH-ECCCCCCCC--SGGGGSS-B-S--TTTS
T ss_pred Cc-ceeeeecccccCCCCccchhhhhcccccccccccceeecccCcchhhhcccCCCCccccc
Confidence 2 47999999999999998874 1499999999988864443
No 5
>KOG1508 consensus DNA replication factor/protein phosphatase inhibitor SET/SPR-2 [Replication, recombination and repair]
Probab=99.83 E-value=4e-22 Score=158.02 Aligned_cols=117 Identities=26% Similarity=0.516 Sum_probs=106.0
Q ss_pred ccccccCCCCchHHHHHhcChhhhhhhccCchhHhccccceEEEEeCCCC-ceEEEEEeCCCCCccCcEEEEEEEeccCC
Q 032992 6 DKATKEKGVPDFWFIAMESHHELRQNIVRHDQGALKYLTDIKWCRINDSE-GFKLEFTFGPNPYFKNSVLEKTYRMIDET 84 (129)
Q Consensus 6 ~~~~~i~~IP~FW~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~~~d~~-~f~i~F~F~~NpyF~N~~L~K~~~~~~~~ 84 (129)
.++.+++.||+||.+++.+||.++.++.+.|++++.||..+.|+.+.+.. ||++.|+|.+||||+|.+++|+|++...+
T Consensus 72 ~r~~ii~~i~~fw~~~~~~hp~~~~~i~~~~~e~~~~l~~~~v~e~~~~~sg~~~~~~f~~ney~~~~~~~ke~~~~~~~ 151 (260)
T KOG1508|consen 72 KRRELIKEIPNFWVTAFLNHPTLSEWIPEEDEEALHYLHNLEVEELGDIKSGYRIKFSFEINEYFTNDLLVKEFQYKESG 151 (260)
T ss_pred hhhHHHhhcccceeEEEecCCcHhhhhhhhhhhhhccchHHHHHHhccccccCeeeeeeccchhcccchhceeeeeeccc
Confidence 46789999999999999999999999999999999999999999988876 99999999999999999999999999888
Q ss_pred CeeeeeeeeeeeEecCCCCccc--------cc----ccceeeccCCCCCCCCC
Q 032992 85 DIVLEEAIGTVIHWYPGQCWIE--------KA----ERSFFNFFEPLEVPTDV 125 (129)
Q Consensus 85 ~~~~~~~~~t~I~Wk~gk~~t~--------~~----~~SFF~~F~~~~~p~~~ 125 (129)
.+. +.+|+|.|+.|+++.. .. ..|||.||+.+.+++.|
T Consensus 152 ~~~---s~~t~i~w~~~~~~~~~~~~~~~~~k~~~~~~s~f~wf~~~~~~~~d 201 (260)
T KOG1508|consen 152 KPS---SESTPISWKEGKPLPNPVKRGELKNKNGDGPKSFFEWFSDTSLKEFD 201 (260)
T ss_pred Ccc---cccccccccCCCCCcccccccccccccCcccccHHHHHHhccCCCcc
Confidence 764 7999999999988652 11 38999999999998854
No 6
>PF06784 UPF0240: Uncharacterised protein family (UPF0240); InterPro: IPR009622 This is a group of proteins of unknown function.
Probab=48.12 E-value=14 Score=27.98 Aligned_cols=33 Identities=24% Similarity=0.302 Sum_probs=29.6
Q ss_pred HHHHhcChhhhhhhccCchhHhccccceEEEEe
Q 032992 19 FIAMESHHELRQNIVRHDQGALKYLTDIKWCRI 51 (129)
Q Consensus 19 ~~vl~n~~~l~~~i~~~D~~iL~~L~dI~v~~~ 51 (129)
..++..+|.+..-+...|..+|+.|.+|.|+..
T Consensus 41 ~~~~~~~pe~~eei~~Kd~~L~s~LK~VyV~S~ 73 (179)
T PF06784_consen 41 EEVLEDDPEIKEEISRKDDKLLSRLKDVYVTSK 73 (179)
T ss_pred HHHhhhChHHHHHHHhhhHHHHHhhceeEeecC
Confidence 457888999999999999999999999999864
No 7
>PF10417 1-cysPrx_C: C-terminal domain of 1-Cys peroxiredoxin; InterPro: IPR019479 This entry represents the C-terminal domain of 1-Cys peroxiredoxin, a member of the peroxiredoxin superfamily which protect cells against membrane oxidation through glutathione (GSH)-dependent reduction of phospholipid hydroperoxides to corresponding alcohols []. The C-terminal domain is crucial for providing the extra cysteine necessary for dimerisation of the whole molecule. Loss of the enzyme's peroxidase activity is associated with oxidation of the catalytic cysteine found upstream of this domain. Glutathionylation, presumably through its disruption of protein structure, facilitates access for GSH, resulting in spontaneous reduction of the mixed disulphide to the sulphydryl and consequent activation of the enzyme []. The domain is associated with IPR000866 from INTERPRO, which carries the catalytic cysteine. ; GO: 0051920 peroxiredoxin activity, 0055114 oxidation-reduction process; PDB: 1ZOF_E 2H01_A 3EMP_D 1YF1_G 1YF0_D 1N8J_C 1YEP_D 1YEX_D 2V41_H 2V32_C ....
Probab=39.75 E-value=6.5 Score=22.45 Aligned_cols=15 Identities=33% Similarity=0.680 Sum_probs=12.3
Q ss_pred eeeeeeEecCCCCcc
Q 032992 91 AIGTVIHWYPGQCWI 105 (129)
Q Consensus 91 ~~~t~I~Wk~gk~~t 105 (129)
...||.+|++|.++.
T Consensus 9 ~v~tPanW~pGd~~i 23 (40)
T PF10417_consen 9 GVATPANWKPGDDVI 23 (40)
T ss_dssp SSBBCTTTCTTSGEB
T ss_pred CcccCcCCCCCCCeE
Confidence 357999999998865
No 8
>PF08770 SoxZ: Sulphur oxidation protein SoxZ; InterPro: IPR014880 SoxZ forms an anti parallel beta structure and forms a complex with SoxY. Sulphur oxidation occurs at the thiol of a conserved cysteine residue of the SoxY subunit []. ; PDB: 1V8H_B 2OX5_E 2OXG_E 2OXH_C.
Probab=36.15 E-value=2.9 Score=28.59 Aligned_cols=68 Identities=12% Similarity=0.244 Sum_probs=32.3
Q ss_pred HHhcChhhhhhhccCchhHh--ccccceEEEEeCCCCceEEEEEe--CCCCCccCcEEEEEEEeccCCCeeeeeeeeeee
Q 032992 21 AMESHHELRQNIVRHDQGAL--KYLTDIKWCRINDSEGFKLEFTF--GPNPYFKNSVLEKTYRMIDETDIVLEEAIGTVI 96 (129)
Q Consensus 21 vl~n~~~l~~~i~~~D~~iL--~~L~dI~v~~~~d~~~f~i~F~F--~~NpyF~N~~L~K~~~~~~~~~~~~~~~~~t~I 96 (129)
+|..||.-.-+-.+.+-... .|++.|.|.+. +..-+++.... .+||||+ |.+...+. -.-.+
T Consensus 19 ~li~HPMetGl~~d~tg~~iPa~~I~~v~v~~n-g~~v~~~~~~~siS~NP~l~-------F~~~~~~~------g~l~v 84 (100)
T PF08770_consen 19 ALISHPMETGLRKDQTGKYIPAHFIEEVEVTYN-GKPVFRADWGPSISENPYLR-------FSFKGKKS------GTLTV 84 (100)
T ss_dssp EEE----B-S-BB-TTS-BB--B-EEEEEEEET-TEEEEEEEE-TTB-SS-EEE-------EEEEESSS------EEEEE
T ss_pred EEEECCCccccccCCCCCCCChHheEEEEEEEC-CEEEEEEEeCCcccCCCcEE-------EEEecCCC------cEEEE
Confidence 45567765544333322222 69999999864 23356666665 5899985 66654321 23567
Q ss_pred EecCCC
Q 032992 97 HWYPGQ 102 (129)
Q Consensus 97 ~Wk~gk 102 (129)
.|.+.+
T Consensus 85 ~~~Dn~ 90 (100)
T PF08770_consen 85 TWTDNK 90 (100)
T ss_dssp EEEETT
T ss_pred EEEECC
Confidence 787744
No 9
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=33.68 E-value=1.7e+02 Score=20.44 Aligned_cols=56 Identities=9% Similarity=0.117 Sum_probs=40.3
Q ss_pred ccceEEEEeCCCCceEEEEEeC-CCCCccCcEEEEEEEeccCCCeeeeeeeeeeeEecCCCC
Q 032992 43 LTDIKWCRINDSEGFKLEFTFG-PNPYFKNSVLEKTYRMIDETDIVLEEAIGTVIHWYPGQC 103 (129)
Q Consensus 43 L~dI~v~~~~d~~~f~i~F~F~-~NpyF~N~~L~K~~~~~~~~~~~~~~~~~t~I~Wk~gk~ 103 (129)
+.+|++....|+..=+..|.|. ++. ....++-=|-++++|+- .+.....+..+|++
T Consensus 14 ~p~VrLtRsrdg~~g~a~f~F~~~~~--~~~~itgm~liDeEGei---~tr~v~~KFvnGkp 70 (104)
T PRK13611 14 PTQVRLLKSKTGKRGSAIFRFEDLKS--DTQNILGMRMIDEEGEL---TTRNIKAKFLNGEF 70 (104)
T ss_pred CCceEEEEccCCCccEEEEEEcCCcc--cccceeeEEEEccCCcE---EEEecceEEECCCc
Confidence 7899999988888778899995 566 34677886666777753 24555556666765
No 10
>PF00284 Cytochrom_B559a: Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit family.; InterPro: IPR013082 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The alpha subunit (PsbE) of cytochrome b559, forms a haem-binding heterodimer with the beta subunit (PsbF) (IPR006241 from INTERPRO) within the reaction centre core of PSII. Both PsbE and PsbF are essential components for PSII assembly, and are probably involved in secondary electron transport mechanisms that help to protect PSII from photo-damage []. This domain occurs in the lumenal region of the alpha subunit. It is usually found in conjuction with an N-terminal domain (IPR013081 from INTERPRO).; GO: 0046872 metal ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane; PDB: 1W5C_K 1S5L_e 3BZ2_E 3PRQ_E 2AXT_E 4FBY_R 3PRR_E 3BZ1_E 3KZI_E 3A0H_E ....
Probab=29.29 E-value=29 Score=20.08 Aligned_cols=10 Identities=50% Similarity=0.863 Sum_probs=6.2
Q ss_pred CCCCCccCcE
Q 032992 64 GPNPYFKNSV 73 (129)
Q Consensus 64 ~~NpyF~N~~ 73 (129)
+||+||++..
T Consensus 10 RPneYft~~r 19 (40)
T PF00284_consen 10 RPNEYFTESR 19 (40)
T ss_dssp -TTCSS-SS-
T ss_pred Cccccccccc
Confidence 5899999864
No 11
>TIGR00049 Iron-sulfur cluster assembly accessory protein. Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry.
Probab=29.14 E-value=78 Score=20.94 Aligned_cols=20 Identities=20% Similarity=0.238 Sum_probs=12.9
Q ss_pred chhHhccccceEEEEeCCCC
Q 032992 36 DQGALKYLTDIKWCRINDSE 55 (129)
Q Consensus 36 D~~iL~~L~dI~v~~~~d~~ 55 (129)
|...+.||.++.|.+.++..
T Consensus 63 d~~~~~~l~~~~IDy~~~~~ 82 (105)
T TIGR00049 63 DPKSLPYLDGSEIDYVEELL 82 (105)
T ss_pred eHHHHhhhCCCEEEEeecCC
Confidence 44456677777777766543
No 12
>KOG3110 consensus Riboflavin kinase [Coenzyme transport and metabolism]
Probab=24.70 E-value=80 Score=23.27 Aligned_cols=27 Identities=33% Similarity=0.584 Sum_probs=24.5
Q ss_pred ceEEEEEeCCCCCccCcEEEEEEEecc
Q 032992 56 GFKLEFTFGPNPYFKNSVLEKTYRMID 82 (129)
Q Consensus 56 ~f~i~F~F~~NpyF~N~~L~K~~~~~~ 82 (129)
.|+++++-.-|||+.|+.=|-+.++-.
T Consensus 65 v~kMvmSIGwNP~Y~N~~Kt~E~hlih 91 (153)
T KOG3110|consen 65 VFKMVMSIGWNPYYKNKKKTMELHLIH 91 (153)
T ss_pred ceeEEEEcccCcccCCcccceeeeeeh
Confidence 799999999999999999888888754
No 13
>PF11155 DUF2935: Domain of unknown function (DUF2935); InterPro: IPR021328 This family of proteins with unknown function appears to be restricted to Firmicutes. ; PDB: 3D19_B 3DBY_P.
Probab=23.50 E-value=48 Score=22.94 Aligned_cols=26 Identities=19% Similarity=0.488 Sum_probs=18.1
Q ss_pred chHHHHHhcChh-hhhhhccCchhHhc
Q 032992 16 DFWFIAMESHHE-LRQNIVRHDQGALK 41 (129)
Q Consensus 16 ~FW~~vl~n~~~-l~~~i~~~D~~iL~ 41 (129)
.||...|+.|.. +...+.+.+.+..+
T Consensus 10 ~FWl~im~eHa~fi~~~L~p~e~~~i~ 36 (124)
T PF11155_consen 10 LFWLRIMKEHAIFIRAGLDPKEKELIQ 36 (124)
T ss_dssp HHHHHHHHHHHHHHHHHB-TT-HHHHH
T ss_pred HHHHHHHHHHHHHHHHhCCchhHHHHH
Confidence 499999999987 56666777666554
No 14
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=21.80 E-value=97 Score=20.90 Aligned_cols=23 Identities=13% Similarity=0.160 Sum_probs=15.1
Q ss_pred CchhHhccccceEEEEeCCCCce
Q 032992 35 HDQGALKYLTDIKWCRINDSEGF 57 (129)
Q Consensus 35 ~D~~iL~~L~dI~v~~~~d~~~f 57 (129)
.|...+.||....+.+.++..+-
T Consensus 64 id~~s~~~l~g~~IDy~~~~~~~ 86 (107)
T PRK09502 64 VDGKSLQFLDGTQLDFVKEGLNE 86 (107)
T ss_pred EeHHHHhHhCCCEEEEeeCCCCc
Confidence 35566677888877777665433
No 15
>PF08109 Antimicrobial14: Lactocin 705 family; InterPro: IPR012517 This family consists of lactocin 705 which is a bacteriocin produced by Lactobacillus casei CRL 705. Lactocin 705 is a class IIb bacteriocin, whose activity depends upon the complementation of two peptides (705-alpha and 705-beta) of 33 amino acid residues each. Lactocin 705 is active against several Gram-positive bacteria, including food-borne pathogens and is a good candidate to be used for biopreservation of fermented meats [].
Probab=21.62 E-value=51 Score=17.56 Aligned_cols=16 Identities=25% Similarity=0.380 Sum_probs=12.0
Q ss_pred ccccCCCCchHHHHHh
Q 032992 8 ATKEKGVPDFWFIAME 23 (129)
Q Consensus 8 ~~~i~~IP~FW~~vl~ 23 (129)
+-.|++||+|-.-.|.
T Consensus 3 sgyiqgipdflkgylh 18 (31)
T PF08109_consen 3 SGYIQGIPDFLKGYLH 18 (31)
T ss_pred cccccccHHHHHHHHh
Confidence 3578999999876653
No 16
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=21.01 E-value=37 Score=25.33 Aligned_cols=15 Identities=13% Similarity=0.122 Sum_probs=12.5
Q ss_pred eeeeeeeEecCCCCc
Q 032992 90 EAIGTVIHWYPGQCW 104 (129)
Q Consensus 90 ~~~~t~I~Wk~gk~~ 104 (129)
...+|+|+|++|.+.
T Consensus 169 ~~~~cp~~w~~g~~~ 183 (199)
T PTZ00253 169 HGEVCPANWKKGDPT 183 (199)
T ss_pred cCCEeCCCCCcCCcc
Confidence 368999999999774
No 17
>PLN03082 Iron-sulfur cluster assembly; Provisional
Probab=20.44 E-value=1.1e+02 Score=22.78 Aligned_cols=31 Identities=13% Similarity=0.178 Sum_probs=19.2
Q ss_pred CchhHhccccceEEEEeCCCCceEEEEEeCCCC
Q 032992 35 HDQGALKYLTDIKWCRINDSEGFKLEFTFGPNP 67 (129)
Q Consensus 35 ~D~~iL~~L~dI~v~~~~d~~~f~i~F~F~~Np 67 (129)
.|...+.||....+.+.++..+- .|.|..||
T Consensus 118 VD~~s~~~L~Gs~IDYve~l~~~--gF~f~~NP 148 (163)
T PLN03082 118 VDNISYDFVKGATVDYVEELIRS--AFVVSTNP 148 (163)
T ss_pred ECHHHHHHhCCCEEEeecCCCCC--eeEEecCC
Confidence 45666778888888877665432 34454444
Done!