Query 013676
Match_columns 438
No_of_seqs 38 out of 40
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 06:16:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013676.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013676hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05667 DUF812: Protein of un 73.5 24 0.00051 38.9 10.0 150 123-325 409-568 (594)
2 COG0143 MetG Methionyl-tRNA sy 67.8 60 0.0013 35.7 11.5 184 165-376 348-553 (558)
3 PF02520 DUF148: Domain of unk 54.4 1.3E+02 0.0029 25.4 10.8 49 242-290 57-107 (113)
4 cd07316 terB_like_DjlA N-termi 44.7 1.6E+02 0.0035 23.7 7.8 54 145-198 11-64 (106)
5 PF02520 DUF148: Domain of unk 44.5 1.2E+02 0.0026 25.7 7.3 31 249-279 1-33 (113)
6 COG1392 Phosphate transport re 41.2 3.5E+02 0.0075 26.3 11.9 154 156-345 27-207 (217)
7 PF09537 DUF2383: Domain of un 39.7 44 0.00096 27.7 3.9 81 222-303 4-86 (111)
8 PF03705 CheR_N: CheR methyltr 39.7 77 0.0017 23.3 4.8 54 129-187 3-56 (57)
9 COG4660 RnfE Predicted NADH:ub 39.7 7.8 0.00017 37.9 -0.6 42 313-354 52-93 (212)
10 KOG4559 Uncharacterized conser 36.3 61 0.0013 29.3 4.4 22 235-256 95-116 (120)
11 PF10540 Membr_traf_MHD: Munc1 35.0 67 0.0015 28.7 4.5 84 298-392 20-107 (137)
12 PLN02486 aminoacyl-tRNA ligase 33.6 1.8E+02 0.0039 30.5 8.0 81 338-421 279-379 (383)
13 TIGR02284 conserved hypothetic 33.3 2.7E+02 0.0058 24.8 8.0 76 223-299 4-81 (139)
14 KOG0804 Cytoplasmic Zn-finger 31.5 2E+02 0.0044 31.6 8.0 55 129-183 347-402 (493)
15 PF08900 DUF1845: Domain of un 30.8 1.6E+02 0.0035 28.4 6.6 92 136-246 40-136 (217)
16 PF04391 DUF533: Protein of un 29.4 1.8E+02 0.004 27.8 6.7 83 144-231 90-173 (188)
17 PF06552 TOM20_plant: Plant sp 28.9 1.3E+02 0.0028 29.3 5.6 62 204-266 6-70 (186)
18 PF08637 NCA2: ATP synthase re 26.8 2.5E+02 0.0054 28.4 7.4 126 264-410 146-283 (290)
19 TIGR03042 PS_II_psbQ_bact phot 26.7 3E+02 0.0066 25.6 7.3 49 207-257 81-129 (142)
20 PF04124 Dor1: Dor1-like famil 26.6 5.3E+02 0.011 25.9 9.6 115 221-338 66-187 (338)
21 PF01213 CAP_N: Adenylate cycl 26.4 61 0.0013 33.1 3.1 56 155-215 85-140 (312)
22 KOG3030 Lipid phosphate phosph 26.4 15 0.00032 37.6 -1.2 18 132-149 134-151 (317)
23 PF10552 ORF6C: ORF6C domain; 26.0 4.3E+02 0.0094 22.8 9.9 81 158-267 3-90 (116)
24 PF09371 Tex_N: Tex-like prote 25.7 1.6E+02 0.0035 28.2 5.6 31 270-308 64-94 (193)
25 PRK14964 DNA polymerase III su 25.7 3.9E+02 0.0084 29.1 9.0 108 288-398 218-346 (491)
26 cd03313 enolase Enolase: Enola 24.8 2E+02 0.0044 29.9 6.6 84 302-385 170-279 (408)
27 PF11335 DUF3137: Protein of u 24.8 74 0.0016 27.8 3.0 25 390-414 60-84 (142)
28 cd09234 V_HD-PTP_like Protein- 24.4 5.6E+02 0.012 25.9 9.4 57 153-209 185-244 (337)
29 KOG0841 Multifunctional chaper 24.2 2.2E+02 0.0047 28.9 6.4 52 201-263 124-188 (247)
30 cd07313 terB_like_2 tellurium 23.6 4E+02 0.0086 21.6 8.1 85 145-229 11-102 (104)
31 PRK13441 F0F1 ATP synthase sub 23.3 1.5E+02 0.0033 27.0 4.8 46 240-285 26-75 (180)
32 TIGR02531 yecD_yerC TrpR-relat 23.2 70 0.0015 27.1 2.4 27 328-354 6-32 (88)
33 TIGR02284 conserved hypothetic 22.9 5.5E+02 0.012 22.9 8.9 47 136-188 16-62 (139)
34 PF10508 Proteasom_PSMB: Prote 22.6 7.9E+02 0.017 26.2 10.5 133 137-276 202-363 (503)
35 PF10643 Cytochrome-c551: Phot 22.6 1.5E+02 0.0032 29.8 4.8 63 246-313 167-230 (233)
36 cd07177 terB_like tellurium re 22.1 3.8E+02 0.0083 20.8 6.9 84 146-229 12-102 (104)
37 PF10112 Halogen_Hydrol: 5-bro 21.0 6.4E+02 0.014 23.3 8.4 43 139-191 84-126 (199)
38 PF02607 B12-binding_2: B12 bi 20.7 4E+02 0.0087 20.5 7.5 64 227-292 4-70 (79)
39 PF08144 CPL: CPL (NUC119) dom 20.6 2E+02 0.0043 26.3 4.9 78 325-419 24-106 (148)
40 PF05099 TerB: Tellurite resis 20.5 3.3E+02 0.0072 22.9 6.0 86 145-230 35-127 (140)
41 PF05757 PsbQ: Oxygen evolving 20.3 1.5E+02 0.0033 28.8 4.3 52 207-260 141-192 (202)
No 1
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=73.51 E-value=24 Score=38.90 Aligned_cols=150 Identities=22% Similarity=0.430 Sum_probs=97.3
Q ss_pred hhhcchhhhhhhhHhH---HHHHHhhhhh-ccCh-HHHHHHHHHHHHhhhccHHHHH----HHHHHHHHhcCCcchhHHH
Q 013676 123 KYLVFREDWNKYRESF---YNRCRTRADE-ESEP-TMKEKLISLARKVKKIDDEMES----HYELLKEIQDSPTDINAVV 193 (438)
Q Consensus 123 kLLaFS~EW~~iRp~F---f~Rcq~RAd~-E~DP-~~K~kL~kL~RkLK~iDeev~~----HneLL~~i~~~p~di~aIV 193 (438)
++.....+|..+|.-. |++.+...+. +.+. .+.+.+-.+.++++++-++++. |..|..+++..|.|++
T Consensus 409 rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~~~--- 485 (594)
T PF05667_consen 409 RLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKDVN--- 485 (594)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC---
Confidence 5667889999999877 4555554442 2222 3456777888888888888765 6667777888888864
Q ss_pred hhhccCCchhhHHHHHHHhhhcCChhh-hHHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhCCcchHHHHHHHH
Q 013676 194 ARRRKDFTGEFFRYLSLVSETHDSLED-CDAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILNSPSVDVACEKIK 272 (438)
Q Consensus 194 ArrRkDFT~EFF~hL~~l~ea~d~~~~-rd~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILnSpSLd~Ac~KId 272 (438)
|.-||.- +.|-..|-.. +++|.|+-.. ...+| +.|.
T Consensus 486 ---Rs~Yt~R-------IlEIv~NI~KQk~eI~KIl~D---------------------Tr~lQ------------keiN 522 (594)
T PF05667_consen 486 ---RSAYTRR-------ILEIVKNIRKQKEEIEKILSD---------------------TRELQ------------KEIN 522 (594)
T ss_pred ---HHHHHHH-------HHHHHHhHHHHHHHHHHHHHH---------------------HHHHH------------HHHH
Confidence 5444433 3333333233 3444443221 11111 1222
Q ss_pred HHHHhccCChHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHHhhhhccCC
Q 013676 273 SLAKAKELDSSLILLINGAWASAKASQTMKNEVKDIMYCLYKATKSSLRGIAP 325 (438)
Q Consensus 273 ~LAk~~eLDsaLvLlisKAwaAAKES~~mkdEvKDIMyhLY~tak~~l~r~~P 325 (438)
++ .|+||-++..+--.-|..|| |||+--=+|.+.-++.+++..++=
T Consensus 523 ~l--~gkL~RtF~v~dElifrdAK-----kDe~~rkaYK~La~lh~~c~~Li~ 568 (594)
T PF05667_consen 523 SL--TGKLDRTFTVTDELIFRDAK-----KDEAARKAYKLLASLHENCSQLIE 568 (594)
T ss_pred HH--HHHHHhHHHHHHHHHHHHhh-----cCHHHHHHHHHHHHHHHHHHHHHH
Confidence 22 47788888888888999999 888888899999999998887653
No 2
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=67.84 E-value=60 Score=35.69 Aligned_cols=184 Identities=17% Similarity=0.237 Sum_probs=106.5
Q ss_pred hhhccHHHHHHHHHHHHHhcCCcc--hhHHHhhhccCCchhhHHHHHHHhhhcCChhhhHHHHHHHHHHHHHHHhhhh-h
Q 013676 165 VKKIDDEMESHYELLKEIQDSPTD--INAVVARRRKDFTGEFFRYLSLVSETHDSLEDCDAVARLATRCLSAVSAYDK-T 241 (438)
Q Consensus 165 LK~iDeev~~HneLL~~i~~~p~d--i~aIVArrRkDFT~EFF~hL~~l~ea~d~~~~rd~la~L~~~cLsav~ayD~-a 241 (438)
+....-|.=||.=+.+.=...++| ++++|+|...|+-+.+ .-|.+|+++-|..|-. .
T Consensus 348 ~~~~~~D~lRYyL~~~~p~~~D~dFs~~~f~~rvN~dL~n~l--------------------gNl~~R~~~fi~k~~~g~ 407 (558)
T COG0143 348 LEQYGVDALRYYLARELPEGSDGDFSWEDFVERVNADLANKL--------------------GNLANRTLGFINKYFDGV 407 (558)
T ss_pred HHHcCchHhHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHhccCCc
Confidence 444667777777655554445555 4788888777766655 4444555553332211 1
Q ss_pred hh------------hHhhHHHHHHhhhhhhCCcchHHHHHHHHHHHHhccCChHHHHHHHH--HHHhhhccchhhHHHHH
Q 013676 242 LE------------HVETLDSAQAKFDDILNSPSVDVACEKIKSLAKAKELDSSLILLING--AWASAKASQTMKNEVKD 307 (438)
Q Consensus 242 ~e------------~~e~LdaA~~kf~DILnSpSLd~Ac~KId~LAk~~eLDsaLvLlisK--AwaAAKES~~mkdEvKD 307 (438)
.. -.+.++.|...+.+-++.-.+..|++-|=+|+..+- -.+.. =|..+|+ -..+++..
T Consensus 408 vp~~~~~~~~~d~~~~~~~~~~~~~~~~~~e~~~~~~Al~~i~~l~~~~N------~Yi~~~~PW~l~k~--~~~~~~~~ 479 (558)
T COG0143 408 VPAAGAPDLEEDEELLALAREALEAVAEAMEKYEFRKALEEIMALASRAN------KYIDEQAPWKLAKE--DKRERLAT 479 (558)
T ss_pred CCccccccchhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH------HHhhcCCCchhhcc--CcHHHHHH
Confidence 11 112223333344444444446666666666654321 12222 3999999 56899999
Q ss_pred HHHHHHHHHHhh---hhccCCchhHHHHHHhccCChHHHHHHHHhccCCCCccccCCCCccccC--hHHHHHHH
Q 013676 308 IMYCLYKATKSS---LRGIAPKEIKLLKYLLNIIDPEERFSALATAFSPGSEHESKNPKALYTT--PKELHKWI 376 (438)
Q Consensus 308 IMyhLY~tak~~---l~r~~PKEiRILKyLLsIeDPeER~~aL~~AFtPG~ElE~~d~D~LYTT--P~~L~~wI 376 (438)
|||+++...|.- ++-.+|.=-.=+--.|+++....-+.-......+++.+....+..||+- ++++-.++
T Consensus 480 vl~~~~~~~r~la~ll~P~mP~~a~ki~~~L~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lF~ri~~~~~~~~~ 553 (558)
T COG0143 480 VLYLALELVRVLAILLYPFMPETAEKIWDQLGLEEDARNFTWLGARQPLLPGHKLGPPEPLFPRIEEEAIEELI 553 (558)
T ss_pred HHHHHHHHHHHHHHHhcCcCcchHHHHHHHhCCccccccchhhhhccccCCCcccCCcccCccccCHHHHHHHH
Confidence 999999877765 4555665555555677777554434444445467777777788888873 33444444
No 3
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=54.40 E-value=1.3e+02 Score=25.38 Aligned_cols=49 Identities=24% Similarity=0.289 Sum_probs=36.6
Q ss_pred hhhHhhHHHHHHhhhhhhCCc--chHHHHHHHHHHHHhccCChHHHHHHHH
Q 013676 242 LEHVETLDSAQAKFDDILNSP--SVDVACEKIKSLAKAKELDSSLILLING 290 (438)
Q Consensus 242 ~e~~e~LdaA~~kf~DILnSp--SLd~Ac~KId~LAk~~eLDsaLvLlisK 290 (438)
..-+..|-.|-.++.+|++.. |..+...+|++|.+.--.+..-+..|.+
T Consensus 57 ~~vi~~L~~a~~~l~~I~~n~~lT~~q~~~~I~~l~~~~~~e~~~l~~i~~ 107 (113)
T PF02520_consen 57 TAVISNLSSAFAKLSAILDNKSLTRQQQQEAIDALRKQYPEEVDTLFFIRK 107 (113)
T ss_pred HHHHHHHHHHHHHHHHHHcCcccCHHHHHHHHHHHHHHCCHHHHHHHHHHH
Confidence 334445668899999999987 6899999999999887766554444444
No 4
>cd07316 terB_like_DjlA N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins. Tellurium resistance terB-like domain of the DnaJ-like DjlA proteins. This family represents the terB-like domain of DjlA-like proteins, a subgroup of heat shock DnaJ-like proteins. Escherichia coli DjlA is a type III membrane protein with a small N-terminal transmembrane region and DnaJ-like domain on the extreme C-terminus. Overproduction has been shown to activate the RcsC pathway, which regulates the production of the capsular exopolysaccharide colanic acid. The specific function of this domain is unknown.
Probab=44.70 E-value=1.6e+02 Score=23.71 Aligned_cols=54 Identities=13% Similarity=0.126 Sum_probs=39.3
Q ss_pred hhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCcchhHHHhhhcc
Q 013676 145 RADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDSPTDINAVVARRRK 198 (438)
Q Consensus 145 RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~di~aIVArrRk 198 (438)
+||-.-++..++.+.++.+++...+.+.+.--+++...+..+.++..+...-+.
T Consensus 11 ~aDG~v~~~E~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 64 (106)
T cd07316 11 KADGRVSEAEIQAARALMDQMGLDAEARREAIRLFNEGKESDFGLEEYARQFRR 64 (106)
T ss_pred hccCCcCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcCCCCHHHHHHHHHH
Confidence 577888999999999999998765557777777777777777666554444433
No 5
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=44.53 E-value=1.2e+02 Score=25.66 Aligned_cols=31 Identities=19% Similarity=0.305 Sum_probs=26.6
Q ss_pred HHHHHhhhhhhCCc--chHHHHHHHHHHHHhcc
Q 013676 249 DSAQAKFDDILNSP--SVDVACEKIKSLAKAKE 279 (438)
Q Consensus 249 daA~~kf~DILnSp--SLd~Ac~KId~LAk~~e 279 (438)
+.|+..|.+|++.| |..+...+|+.+|++.-
T Consensus 1 eea~~ef~~I~~n~~lt~~e~~~~l~~Wa~~~~ 33 (113)
T PF02520_consen 1 EEARKEFFQIFQNPNLTKAEIEEQLDEWAEKYG 33 (113)
T ss_pred ChHHHHHHHHHcCCCCCHHHHHHHHHHHHHHCC
Confidence 35788999999998 57888899999999877
No 6
>COG1392 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]
Probab=41.22 E-value=3.5e+02 Score=26.32 Aligned_cols=154 Identities=19% Similarity=0.224 Sum_probs=92.5
Q ss_pred HHHHHHHHHhhhcc-HHHHHHHHHHHHHhcCCcch-hHHHhhhccCCchhhHHHH-HHHhhhc-----------------
Q 013676 156 EKLISLARKVKKID-DEMESHYELLKEIQDSPTDI-NAVVARRRKDFTGEFFRYL-SLVSETH----------------- 215 (438)
Q Consensus 156 ~kL~kL~RkLK~iD-eev~~HneLL~~i~~~p~di-~aIVArrRkDFT~EFF~hL-~~l~ea~----------------- 215 (438)
..+..+.+.++.-+ ++++.|......+..-...| ..|.-.-.+-|=.+|++.= --+++..
T Consensus 27 ~~~~~~f~~~~~g~~~~~e~~~~~I~~lE~~aD~ik~~i~~~l~~~~flP~~R~Dil~L~~~~D~i~D~~ed~A~~l~l~ 106 (217)
T COG1392 27 KLLAPAFEALRRGDYEDAEELLKEIKDLEHEADEIKREIRLELYKGFFLPFDREDILELIESQDDIADAAEDAAKLLLLR 106 (217)
T ss_pred HHHHHHHHHHHcCCchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 45666777888776 88888888888887776666 6665555555544544321 1111111
Q ss_pred C--Ch-hhhHHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhCCcchHHHHHHHHHHHHhccCChHHHHHHHHHH
Q 013676 216 D--SL-EDCDAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILNSPSVDVACEKIKSLAKAKELDSSLILLINGAW 292 (438)
Q Consensus 216 d--~~-~~rd~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILnSpSLd~Ac~KId~LAk~~eLDsaLvLlisKAw 292 (438)
. =| +=++.+.+++..++.++..+-.+...++ ++.+. +.+..
T Consensus 107 ~~~ip~~~~e~~~~~~~~~~~a~~~~~~ai~~L~--------------------------~~~e~----------~~~~~ 150 (217)
T COG1392 107 KPFIPEELDEEFLRLVDLSLKAAELLAEAIELLE--------------------------DLLES----------ADRLL 150 (217)
T ss_pred ccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------------HHHHh----------HHHHH
Confidence 1 12 3345555555555555554444443332 11111 45567
Q ss_pred HhhhccchhhHHHHHHHHHHHHHHHhhhhccCCchh----HHHHHHhccCChHHHHH
Q 013676 293 ASAKASQTMKNEVKDIMYCLYKATKSSLRGIAPKEI----KLLKYLLNIIDPEERFS 345 (438)
Q Consensus 293 aAAKES~~mkdEvKDIMyhLY~tak~~l~r~~PKEi----RILKyLLsIeDPeER~~ 345 (438)
.-++|-....+|+-+|...||+..-+.=...=|.++ .|+.++-+|-|-.|+.+
T Consensus 151 ~i~~eI~~~E~e~D~i~~~l~k~Lf~~e~~~~~~~~~~~~~i~~~i~~IaD~~edva 207 (217)
T COG1392 151 EIIKEIEALEHECDDIQRELLKKLFSLETEINPIDVIILKEIIEKIEDIADRAEDVA 207 (217)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 778888888899999988888887665555447765 45566777777766653
No 7
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=39.72 E-value=44 Score=27.65 Aligned_cols=81 Identities=17% Similarity=0.270 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhCCc--chHHHHHHHHHHHHhccCChHHHHHHHHHHHhhhccc
Q 013676 222 DAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILNSP--SVDVACEKIKSLAKAKELDSSLILLINGAWASAKASQ 299 (438)
Q Consensus 222 d~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILnSp--SLd~Ac~KId~LAk~~eLDsaLvLlisKAwaAAKES~ 299 (438)
+.|-.|-..|..++++|+.+.+..+. ..-...|.++.+.- -..+.-..|..|-..-.=++++.-.+.++|...|..-
T Consensus 4 ~~Ln~Ll~~~~d~~~~Y~~a~~~~~~-~~lk~~f~~~~~~~~~~~~~L~~~i~~~Gg~p~~~gs~~g~~~r~~~~ik~~~ 82 (111)
T PF09537_consen 4 EALNDLLKGLHDGIEGYEKAAEKAED-PELKSLFQEFAQERQQHAEELQAEIQELGGEPEESGSFKGALHRAWMDIKSAL 82 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHTT--H----HHCHHHH-TTTHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcccCHHHHHHHHHHHHHHHh
Confidence 46777888999999999999998874 44445666666543 1334444455554444455699999999999988755
Q ss_pred hhhH
Q 013676 300 TMKN 303 (438)
Q Consensus 300 ~mkd 303 (438)
...+
T Consensus 83 ~~~d 86 (111)
T PF09537_consen 83 GGDD 86 (111)
T ss_dssp ----
T ss_pred cCCC
Confidence 5443
No 8
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=39.70 E-value=77 Score=23.30 Aligned_cols=54 Identities=19% Similarity=0.382 Sum_probs=35.5
Q ss_pred hhhhhhhHhHHHHHHhhhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCc
Q 013676 129 EDWNKYRESFYNRCRTRADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDSPT 187 (438)
Q Consensus 129 ~EW~~iRp~Ff~Rcq~RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~ 187 (438)
.+|..++..++++|--.-..--....+.+|.++.+... +.-+.+.+..|+..|.
T Consensus 3 ~~f~~~~~~i~~~~Gi~l~~~K~~~l~rRl~~rm~~~~-----~~~~~~y~~~L~~d~~ 56 (57)
T PF03705_consen 3 AEFERFRELIYRRTGIDLSEYKRSLLERRLARRMRALG-----LPSFAEYYELLRSDPD 56 (57)
T ss_dssp HHHHHHHHHHHHHH-----GGGHHHHHHHHHHHHHHHT--------HHHHHHHHHH-T-
T ss_pred HHHHHHHHHHHHHHCCCCchhhHHHHHHHHHHHHHHcC-----CCCHHHHHHHHHhCCC
Confidence 57888999999999888888888888888887777766 6667777777777664
No 9
>COG4660 RnfE Predicted NADH:ubiquinone oxidoreductase, subunit RnfE [Energy production and conversion]
Probab=39.68 E-value=7.8 Score=37.88 Aligned_cols=42 Identities=26% Similarity=0.325 Sum_probs=36.2
Q ss_pred HHHHHhhhhccCCchhHHHHHHhccCChHHHHHHHHhccCCC
Q 013676 313 YKATKSSLRGIAPKEIKLLKYLLNIIDPEERFSALATAFSPG 354 (438)
Q Consensus 313 Y~tak~~l~r~~PKEiRILKyLLsIeDPeER~~aL~~AFtPG 354 (438)
-+++.+.+++.+|+||||=-|..=|.-----...|-+|||||
T Consensus 52 sN~~iSl~Rk~iP~eiRiPi~vmIIAs~VT~V~mlm~Ayt~~ 93 (212)
T COG4660 52 SNTTISLFRKWIPKEIRIPIYVMIIASVVTAVQMLMNAYTYD 93 (212)
T ss_pred hhHHHHHHHHhCcccceeeeEeehHHHHHHHHHHHHHHhhhH
Confidence 356888999999999999888887777777888999999996
No 10
>KOG4559 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.34 E-value=61 Score=29.34 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=13.5
Q ss_pred HHhhhhhhhhHhhHHHHHHhhh
Q 013676 235 VSAYDKTLEHVETLDSAQAKFD 256 (438)
Q Consensus 235 v~ayD~a~e~~e~LdaA~~kf~ 256 (438)
.+--|...++.+.|++|..|++
T Consensus 95 lqQIDaiddst~kLEaAa~~Ld 116 (120)
T KOG4559|consen 95 LQQIDAIDDSTDKLEAAAAKLD 116 (120)
T ss_pred HHHHHHHhhHHHHHHHHHHHHH
Confidence 4445556666666777776654
No 11
>PF10540 Membr_traf_MHD: Munc13 (mammalian uncoordinated) homology domain; InterPro: IPR019558 Mammalian uncoordinated homology 13 (Munc13) proteins constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana (Mouse-ear cress), C. elegans, Drosophila melanogaster (Fruit fly), Mus musculus (Mouse), Rattus norvegicus (Rat) and Homo sapiens (Human), some of which may function in a Munc13-like manner to regulate membrane trafficking. The MHD1 and MHD2 domains are predicted to be alpha-helical. ; PDB: 3SWH_A.
Probab=35.01 E-value=67 Score=28.68 Aligned_cols=84 Identities=21% Similarity=0.322 Sum_probs=43.1
Q ss_pred cchhhHHHHHHHHHHHHHHHhhhhccC--Cc--hhHHHHHHhccCChHHHHHHHHhccCCCCccccCCCCccccChHHHH
Q 013676 298 SQTMKNEVKDIMYCLYKATKSSLRGIA--PK--EIKLLKYLLNIIDPEERFSALATAFSPGSEHESKNPKALYTTPKELH 373 (438)
Q Consensus 298 S~~mkdEvKDIMyhLY~tak~~l~r~~--PK--EiRILKyLLsIeDPeER~~aL~~AFtPG~ElE~~d~D~LYTTP~~L~ 373 (438)
++..++-.+-||.++++..-.++..++ |+ +.++.+.+-+ ..+.+...-.+|.... .=-..=..|+
T Consensus 20 ~~L~~~~f~~vl~~lW~~vl~~l~~llvlP~ls~~~~~~~~~~------~~~~~~~~~~~~~~~~-----Lt~~q~~~l~ 88 (137)
T PF10540_consen 20 SNLEKENFKRVLKELWKVVLETLEELLVLPPLSDKPMLGLLQS------AVSSLSSHGIGGSQRP-----LTPKQCDRLF 88 (137)
T ss_dssp HHS-HHHHHHHHHHHHHHHHHHHHHHTTS-G------------------GG-TTS------------------TCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHHHHH------HHHHHHhhcccccCCC-----CCHHHHHHHH
Confidence 356777889999999999999998887 54 3444444433 2222222211121111 1111235799
Q ss_pred HHHHHHHHHhhhcccccch
Q 013676 374 KWITIMLDAYHLNKEETDM 392 (438)
Q Consensus 374 ~wI~~~LdAY~~~ke~t~i 392 (438)
.|++.+.+=||...+|-.+
T Consensus 89 ~~L~~L~~FFhA~G~Gl~~ 107 (137)
T PF10540_consen 89 KWLDTLKDFFHAEGNGLPL 107 (137)
T ss_dssp HHHHHHHHHHHCCCTS--H
T ss_pred HHHHHHHHHHhCCCCCCCH
Confidence 9999999999998877543
No 12
>PLN02486 aminoacyl-tRNA ligase
Probab=33.60 E-value=1.8e+02 Score=30.52 Aligned_cols=81 Identities=14% Similarity=0.248 Sum_probs=45.1
Q ss_pred CChHHHHHHHHh-ccCCCCc-cc-----cCCCCccccChHHHHHH-------HHHHHHHhhhccccc-chH-----HHhh
Q 013676 338 IDPEERFSALAT-AFSPGSE-HE-----SKNPKALYTTPKELHKW-------ITIMLDAYHLNKEET-DMR-----EAKQ 397 (438)
Q Consensus 338 eDPeER~~aL~~-AFtPG~E-lE-----~~d~D~LYTTP~~L~~w-------I~~~LdAY~~~ke~t-~i~-----eA~~ 397 (438)
.+|++-..-+.. |||||.. .+ ++|+|. |.+=.+|+. ++.+-+.|-..+-++ .++ .-.+
T Consensus 279 D~p~~i~~KI~k~A~t~~~~t~~~~~~~gg~p~v--~~~~~~l~~f~~dd~~~eei~~~y~~G~l~~ge~K~~lae~i~~ 356 (383)
T PLN02486 279 DTPKEIKNKINKYAFSGGQDTVEEHRELGANLEV--DIPWKYLNFFLEDDAELERIKKEYGSGRMLTGEVKKRLIEVLTE 356 (383)
T ss_pred CCHHHHHHHHhcCCCCCCCCcccccccCCCCCcc--chHHHHHHHHcCCchHHHHHHHHhccCCcCHHHHHHHHHHHHHH
Confidence 468888999999 9999863 22 455552 333233322 344555564432121 222 2223
Q ss_pred hcChHHHHHHHHHHHHHHHHHhcc
Q 013676 398 MTQPVVIQRLLILKETIEEEYLGQ 421 (438)
Q Consensus 398 lm~P~vI~Rl~~LK~~Ie~~ym~~ 421 (438)
++.|. -+|-+.+.+.+.++||..
T Consensus 357 ~l~~~-qerr~~~~~~~~~~~~~~ 379 (383)
T PLN02486 357 IVERH-QRARAAVTDEMVDAFMAV 379 (383)
T ss_pred HHHHH-HHHHHHHHHHHHHHHhCc
Confidence 33332 456667788888888853
No 13
>TIGR02284 conserved hypothetical protein. Members of this protein family are found mostly in the Proteobacteria, although one member is found in the the marine planctomycete Pirellula sp. strain 1. The function is unknown.
Probab=33.29 E-value=2.7e+02 Score=24.84 Aligned_cols=76 Identities=16% Similarity=0.249 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhCCc--chHHHHHHHHHHHHhccCChHHHHHHHHHHHhhhccc
Q 013676 223 AVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILNSP--SVDVACEKIKSLAKAKELDSSLILLINGAWASAKASQ 299 (438)
Q Consensus 223 ~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILnSp--SLd~Ac~KId~LAk~~eLDsaLvLlisKAwaAAKES~ 299 (438)
.|-.|=..|..++++|+.+.++.+.-+ -...|+++-.-- -..+....|..|-..-+=+++++-.+.++|...|..-
T Consensus 4 ~Ln~Lie~~~D~~~gY~~aae~v~~~~-lk~~f~~~~~~~~~~~~eL~~~v~~lGg~p~~~gs~~g~lhr~w~~lks~~ 81 (139)
T TIGR02284 4 SLNDLIEISIDGKDGFEESAEEVKDPE-LATLFRRIAGEKSAIVSELQQVVASLGGKPEDHGSMVGSLHQFWGKIRATL 81 (139)
T ss_pred HHHHHHHHcccHHHHHHHHHHHCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHH
Confidence 455667778889999999999886432 255566654433 2444445555555445568899999999999777643
No 14
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=31.50 E-value=2e+02 Score=31.63 Aligned_cols=55 Identities=13% Similarity=0.149 Sum_probs=31.5
Q ss_pred hhhhhhhHhHHHHHHhhhhhccChHHHHHHHH-HHHHhhhccHHHHHHHHHHHHHh
Q 013676 129 EDWNKYRESFYNRCRTRADEESEPTMKEKLIS-LARKVKKIDDEMESHYELLKEIQ 183 (438)
Q Consensus 129 ~EW~~iRp~Ff~Rcq~RAd~E~DP~~K~kL~k-L~RkLK~iDeev~~HneLL~~i~ 183 (438)
.+|.+.|.+|=.+.++--..+.+........+ +-||+++.++.+.+-.+=|..++
T Consensus 347 sqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~~ 402 (493)
T KOG0804|consen 347 SQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKEER 402 (493)
T ss_pred HHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 39999999999988876554555554443332 33444444444444433333333
No 15
>PF08900 DUF1845: Domain of unknown function (DUF1845); InterPro: IPR014996 Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=30.77 E-value=1.6e+02 Score=28.36 Aligned_cols=92 Identities=20% Similarity=0.309 Sum_probs=65.2
Q ss_pred HhHHHHHH--hhhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcC-Ccch--hHHHhhhccCCchhhHHHHHH
Q 013676 136 ESFYNRCR--TRADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDS-PTDI--NAVVARRRKDFTGEFFRYLSL 210 (438)
Q Consensus 136 p~Ff~Rcq--~RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~-p~di--~aIVArrRkDFT~EFF~hL~~ 210 (438)
|+|+.++. .++...+||=--..|+++-.++.++.++|+...+-|+.+-.. |..+ ..+...+=.++.--|
T Consensus 40 ~~~~~~~~~i~~~a~~DdPyAD~~L~~iEe~i~~~~~~l~~~~~~l~~~l~~~p~~i~i~~~~s~~P~~~~l~~------ 113 (217)
T PF08900_consen 40 PGFASRLNRIWRDARQDDPYADWWLLRIEEKINEARQELQELIARLDALLAELPKGISISEIQSVQPVDVPLFF------ 113 (217)
T ss_pred HHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCccccccccCCCccceeEe------
Confidence 56777776 466778999999999999999999999999999888775544 6554 333222212211111
Q ss_pred HhhhcCChhhhHHHHHHHHHHHHHHHhhhhhhhhHh
Q 013676 211 VSETHDSLEDCDAVARLATRCLSAVSAYDKTLEHVE 246 (438)
Q Consensus 211 l~ea~d~~~~rd~la~L~~~cLsav~ayD~a~e~~e 246 (438)
-..+|-+|+-++..||...--+-
T Consensus 114 -------------~splGy~~v~LL~~yD~L~~~v~ 136 (217)
T PF08900_consen 114 -------------RSPLGYRCVYLLVDYDQLARKVL 136 (217)
T ss_pred -------------cCHHHHHHHHHHHHHHHHHHHHH
Confidence 23579999999999998765443
No 16
>PF04391 DUF533: Protein of unknown function (DUF533); InterPro: IPR007486 Some family members may be secreted or integral membrane proteins.
Probab=29.35 E-value=1.8e+02 Score=27.80 Aligned_cols=83 Identities=17% Similarity=0.243 Sum_probs=52.5
Q ss_pred hhhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCcchhHHHhhh-ccCCchhhHHHHHHHhhhcCChhhhH
Q 013676 144 TRADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDSPTDINAVVARR-RKDFTGEFFRYLSLVSETHDSLEDCD 222 (438)
Q Consensus 144 ~RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~di~aIVArr-RkDFT~EFF~hL~~l~ea~d~~~~rd 222 (438)
.+||-.-|...+.+ +..+|.+..-+-+.+.-|-.++. .|.|+++|++.- -.+--.|+|.--.++++ -|++.+|.
T Consensus 90 AkADG~ID~~Er~~---I~~~l~~~g~d~e~~~~l~~eL~-~P~d~~~la~~v~~~e~A~evY~aS~laid-~d~~~Er~ 164 (188)
T PF04391_consen 90 AKADGHIDEEERQR---IEGALQELGLDAEERAWLQAELA-APLDPDALAAAVTDPEQAAEVYLASLLAID-VDTFAERA 164 (188)
T ss_pred HHcCCCCCHHHHHH---HHHHHHHhCCCHHHHHHHHHHHh-CCCCHHHHHHhCCCHHHHHHHHHHHHHHhC-CCCHHHHH
Confidence 46788889999998 55556663333333444445554 899999999877 23333444444333333 37788888
Q ss_pred HHHHHHHHH
Q 013676 223 AVARLATRC 231 (438)
Q Consensus 223 ~la~L~~~c 231 (438)
-|..|+..+
T Consensus 165 YL~~LA~aL 173 (188)
T PF04391_consen 165 YLDELAQAL 173 (188)
T ss_pred HHHHHHHHh
Confidence 888877653
No 17
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=28.87 E-value=1.3e+02 Score=29.25 Aligned_cols=62 Identities=19% Similarity=0.268 Sum_probs=43.8
Q ss_pred hHHHHHHHhhh-c-CChhhhHHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhC-CcchHH
Q 013676 204 FFRYLSLVSET-H-DSLEDCDAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILN-SPSVDV 266 (438)
Q Consensus 204 FF~hL~~l~ea-~-d~~~~rd~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILn-SpSLd~ 266 (438)
||+|.+-..++ | .||.+=|.|.+-|-.+|-.-+. -...+...-++.|..||+..|. .|..-+
T Consensus 6 ~FE~ark~aea~y~~nP~DadnL~~WG~ALLELAqf-k~g~es~~miedAisK~eeAL~I~P~~hd 70 (186)
T PF06552_consen 6 FFEHARKKAEAAYAKNPLDADNLTNWGGALLELAQF-KQGPESKKMIEDAISKFEEALKINPNKHD 70 (186)
T ss_dssp HHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH-S-HHHHHHHHHHHHHHHHHHHHH-TT-HH
T ss_pred HHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHHHHHhcCCchHH
Confidence 89999999987 5 7899999999988888776553 3444666788899999887664 344333
No 18
>PF08637 NCA2: ATP synthase regulation protein NCA2; InterPro: IPR013946 NCA2 (Nuclear Control of ATPase), is one of the two nuclear genes involved in the control of mitochondrial expression of subunits 6 and 8 of the Fo-F1 ATP synthase in Saccharomyces cerevisiae (Baker's yeast). Mutations in either NCA2 or NCA3 (IPR005556 from INTERPRO) dramatically lower the level of the co-transcript encoding subunits 6 and 8 [, ].
Probab=26.77 E-value=2.5e+02 Score=28.38 Aligned_cols=126 Identities=21% Similarity=0.271 Sum_probs=78.0
Q ss_pred hHHHHHHHHHHHHhccCChHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHHhhh-------hccCC--chhHHHHHH
Q 013676 264 VDVACEKIKSLAKAKELDSSLILLINGAWASAKASQTMKNEVKDIMYCLYKATKSSL-------RGIAP--KEIKLLKYL 334 (438)
Q Consensus 264 Ld~Ac~KId~LAk~~eLDsaLvLlisKAwaAAKES~~mkdEvKDIMyhLY~tak~~l-------~r~~P--KEiRILKyL 334 (438)
++-|---||.|-+++||.=++|-++-..- |+|-+|...+..+ .+..+ +.+|+.++|
T Consensus 146 ~~~Am~gID~LLkSneL~F~iva~~Pa~l---------------i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~L 210 (290)
T PF08637_consen 146 VEVAMSGIDKLLKSNELNFGIVAASPAFL---------------ISYGLYRWLRRLFKSRKGARRRRRQRRKQRRMRRSL 210 (290)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHhHHHH---------------HHHHHHHHHHHHHccCccccccchhhHHHHHHHHHH
Confidence 77888999999999999876665544322 3445554444333 12222 357888999
Q ss_pred hccCChHHHHHHHHh-ccCCCCccccCCCCccccChHHHHHHHHHHHHHhhhcccccchHHHhhhcChH--HHHHHHHH
Q 013676 335 LNIIDPEERFSALAT-AFSPGSEHESKNPKALYTTPKELHKWITIMLDAYHLNKEETDMREAKQMTQPV--VIQRLLIL 410 (438)
Q Consensus 335 LsIeDPeER~~aL~~-AFtPG~ElE~~d~D~LYTTP~~L~~wI~~~LdAY~~~ke~t~i~eA~~lm~P~--vI~Rl~~L 410 (438)
-+|| --++.... ..+++.+..-.+...|.++-..|+.+....+.+ ...+--..+-.+|.+|. +-+||.++
T Consensus 211 ~~ie---RlL~~~~~~~~~~~~~~~~~~~GlLl~~~~~L~~~~~~~~p~---~~~~e~~eDl~dL~~~~~~~~~kl~vv 283 (290)
T PF08637_consen 211 RNIE---RLLNSSNNETPTQDGELSYKDHGLLLLELHRLRRSAERLLPA---SERREWLEDLNDLADPRLGVSQKLRVV 283 (290)
T ss_pred HHHH---HHHhccccccccccccchHHhHhHHHHHHHHHHHHHHHhCCH---hHHHHHHHHHHHHhcccCCHHHHHHHH
Confidence 9987 12222222 255666666788899999999999988877621 11222244667777774 34444443
No 19
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=26.68 E-value=3e+02 Score=25.62 Aligned_cols=49 Identities=12% Similarity=0.135 Sum_probs=34.7
Q ss_pred HHHHHhhhcCChhhhHHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhh
Q 013676 207 YLSLVSETHDSLEDCDAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDD 257 (438)
Q Consensus 207 hL~~l~ea~d~~~~rd~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~D 257 (438)
-|+.+..+. -+++|.++-+|+......++.-|.|....+ --.|+..|+.
T Consensus 81 dl~~l~~sl-~p~dqk~a~~L~~~Lf~~L~~LD~AA~~kd-~~~a~k~Y~~ 129 (142)
T TIGR03042 81 EMTYLNQSL-LPKDQKEALALAKELKDDLEKLDEAARLQD-GPQAQKAYQK 129 (142)
T ss_pred HHHHHHHcc-CHHhHHHHHHHHHHHHHHHHHHHHHHHhcC-HHHHHHHHHH
Confidence 345555555 388899999999999999999888888776 3344444443
No 20
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=26.58 E-value=5.3e+02 Score=25.94 Aligned_cols=115 Identities=17% Similarity=0.256 Sum_probs=73.2
Q ss_pred hHHHHHHHHHHHHHHHhhhhhhhhHhhHHHH---HHhhhhhhCCcchHHHHHHHHHHHHhccCChHHHHHHHHHHHhhhc
Q 013676 221 CDAVARLATRCLSAVSAYDKTLEHVETLDSA---QAKFDDILNSPSVDVACEKIKSLAKAKELDSSLILLINGAWASAKA 297 (438)
Q Consensus 221 rd~la~L~~~cLsav~ayD~a~e~~e~LdaA---~~kf~DILnSpSLd~Ac~KId~LAk~~eLDsaLvLlisKAwaAAKE 297 (438)
.+.|-.|...|-.....++...++......+ ....-|||.-|.|=+.|-+=..-.++-+|-... --+.+-|....-
T Consensus 66 ~~~l~~L~~~~~~f~~~~~~~~~~r~~~~~~l~~~~~l~diLElP~Lm~~ci~~g~y~eALel~~~~-~~L~~~~~~~~l 144 (338)
T PF04124_consen 66 LDSLPELDEACQRFSSKAQKISEERKKASLLLENHDRLLDILELPQLMDTCIRNGNYSEALELSAHV-RRLQSRFPNIPL 144 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcccHhhHHHHHHHH-HHHHHhccCchh
Confidence 4678888999999999998887776554444 345778999999988887654444444443322 122223332221
Q ss_pred cchh----hHHHHHHHHHHHHHHHhhhhccCCchhHHHHHHhccC
Q 013676 298 SQTM----KNEVKDIMYCLYKATKSSLRGIAPKEIKLLKYLLNII 338 (438)
Q Consensus 298 S~~m----kdEvKDIMyhLY~tak~~l~r~~PKEiRILKyLLsIe 338 (438)
-... ..+++....+|-...+++ -.+|.=+||+-||=.+.
T Consensus 145 v~~i~~ev~~~~~~ml~~Li~~L~~~--l~l~~~ik~v~~Lrrl~ 187 (338)
T PF04124_consen 145 VKSIAQEVEAALQQMLSQLINQLRTP--LKLPACIKTVGYLRRLP 187 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCc--ccHHHHHHHHHHHHHhc
Confidence 1222 234445556667777766 56899999999997773
No 21
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=26.39 E-value=61 Score=33.14 Aligned_cols=56 Identities=32% Similarity=0.398 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCcchhHHHhhhccCCchhhHHHHHHHhhhc
Q 013676 155 KEKLISLARKVKKIDDEMESHYELLKEIQDSPTDINAVVARRRKDFTGEFFRYLSLVSETH 215 (438)
Q Consensus 155 K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~di~aIVArrRkDFT~EFF~hL~~l~ea~ 215 (438)
..+++.++-+-|+=|.. ...+||+-|.+.=..|..|=.++ ....||.||..++|+.
T Consensus 85 qr~~L~~as~~kKP~~~--~~~~lL~Pl~~~i~~i~~~ke~n---R~s~~fNHLsavsEgi 140 (312)
T PF01213_consen 85 QRKFLLVASKCKKPDQS--ELQELLKPLSEAIQKIQEFKEKN---RGSKFFNHLSAVSEGI 140 (312)
T ss_dssp HHHHHHHHHHBE---HH--HHHHHCHHHHHHHHHHHHHHHTT---TTSTTHHHHHHHHCGG
T ss_pred HHHHHHHHHccCCCChh--hHHHHHHHHHHHHHHHHHHHhcc---CCCchHHHHHHHHHhh
Confidence 45678888888887776 55566666655444444444444 4467999999999975
No 22
>KOG3030 consensus Lipid phosphate phosphatase and related enzymes of the PAP2 family [Lipid transport and metabolism]
Probab=26.36 E-value=15 Score=37.62 Aligned_cols=18 Identities=17% Similarity=0.547 Sum_probs=15.2
Q ss_pred hhhhHhHHHHHHhhhhhc
Q 013676 132 NKYRESFYNRCRTRADEE 149 (438)
Q Consensus 132 ~~iRp~Ff~Rcq~RAd~E 149 (438)
-++|||||.|||=.....
T Consensus 134 GRlRP~Fl~vC~P~~~~~ 151 (317)
T KOG3030|consen 134 GRLRPHFLDVCQPDGTDG 151 (317)
T ss_pred cCCCCCeeccccCCccCC
Confidence 468999999999888763
No 23
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=25.96 E-value=4.3e+02 Score=22.79 Aligned_cols=81 Identities=10% Similarity=0.190 Sum_probs=56.4
Q ss_pred HHHHHHHhhhccHHHHHHHHHHHHHhcC-CcchhHHHhhhccCCchhhHHHHHHHhhhcCChhhhHHHHHHHHHHHHHH-
Q 013676 158 LISLARKVKKIDDEMESHYELLKEIQDS-PTDINAVVARRRKDFTGEFFRYLSLVSETHDSLEDCDAVARLATRCLSAV- 235 (438)
Q Consensus 158 L~kL~RkLK~iDeev~~HneLL~~i~~~-p~di~aIVArrRkDFT~EFF~hL~~l~ea~d~~~~rd~la~L~~~cLsav- 235 (438)
|.-+...+++++++++..+.-+..++++ |-+ ..++..|-+..+..+..+
T Consensus 3 i~l~~~~~~~~~~ki~~ve~~V~~l~~~~~i~-----------------------------~~q~~~i~~~v~~rv~~~l 53 (116)
T PF10552_consen 3 IKLLMQATEEHNEKIEEVENRVDDLEENMPID-----------------------------PGQQKEIQKAVKSRVYELL 53 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC-----------------------------HHHHHHHHHHHHHHHHHHH
Confidence 3445667777888888877777777654 332 345667777777666666
Q ss_pred -----HhhhhhhhhHhhHHHHHHhhhhhhCCcchHHH
Q 013676 236 -----SAYDKTLEHVETLDSAQAKFDDILNSPSVDVA 267 (438)
Q Consensus 236 -----~ayD~a~e~~e~LdaA~~kf~DILnSpSLd~A 267 (438)
.+|-...-.....-..-..|.+..+.||..+-
T Consensus 54 gg~~s~ay~~~~~~~k~f~~i~~~lk~~F~V~sY~~I 90 (116)
T PF10552_consen 54 GGKGSPAYKDKSFRRKLFSDIYRDLKRHFGVPSYKDI 90 (116)
T ss_pred hccccchhhhhHHhHHHHHHHHHHHHHHhCCchHHhh
Confidence 56666556667778888899999999986543
No 24
>PF09371 Tex_N: Tex-like protein N-terminal domain; InterPro: IPR018974 This presumed domain is found at the N terminus of Q45388 from SWISSPROT. This protein defines a novel family of prokaryotic transcriptional accessory factors []. ; PDB: 2OCE_A 3BZK_A 3BZC_A.
Probab=25.73 E-value=1.6e+02 Score=28.18 Aligned_cols=31 Identities=26% Similarity=0.324 Sum_probs=20.2
Q ss_pred HHHHHHHhccCChHHHHHHHHHHHhhhccchhhHHHHHH
Q 013676 270 KIKSLAKAKELDSSLILLINGAWASAKASQTMKNEVKDI 308 (438)
Q Consensus 270 KId~LAk~~eLDsaLvLlisKAwaAAKES~~mkdEvKDI 308 (438)
=|+.|.+.|+|++.|---|.+|. +..|+.||
T Consensus 64 il~~i~eqgkLt~eL~~~I~~a~--------tl~elEdl 94 (193)
T PF09371_consen 64 ILKSIEEQGKLTPELKQAIENAT--------TLQELEDL 94 (193)
T ss_dssp HHHHHHHTT---HHHHHHHHH----------SHHHHHHH
T ss_pred HHHHHHHcccCCHHHHHHHHhcC--------CHHHHHHH
Confidence 36778899999999887777664 56788886
No 25
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.69 E-value=3.9e+02 Score=29.09 Aligned_cols=108 Identities=14% Similarity=0.201 Sum_probs=63.2
Q ss_pred HHHHHHhhhccchhhHHHHHHH----HHHHHHHHhh-hhccCCchhHHHHHHhccCChHHHHHHHHh--------ccCCC
Q 013676 288 INGAWASAKASQTMKNEVKDIM----YCLYKATKSS-LRGIAPKEIKLLKYLLNIIDPEERFSALAT--------AFSPG 354 (438)
Q Consensus 288 isKAwaAAKES~~mkdEvKDIM----yhLY~tak~~-l~r~~PKEiRILKyLLsIeDPeER~~aL~~--------AFtPG 354 (438)
+.++...+++ ..+.+.|++++ -...+..-+. +.+...+=++++.-|+.-.||..-+..|.. ..+|+
T Consensus 218 Ldqli~y~~~-~It~e~V~~llg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll~~g~~~~i~~~l~~~~~~~~~~~~~~~ 296 (491)
T PRK14964 218 LEQAAIYSNN-KISEKSVRDLLGCVDKHILEDLVEAILLGDAQSALNVFRELCNTSNPVIILEGMLQIIYEICYFSITKE 296 (491)
T ss_pred HHHHHHhcCC-CCCHHHHHHHHccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCcc
Confidence 3344443433 56777777653 1222333333 344555667778888777788766655543 23553
Q ss_pred CccccCCCC--------ccccChHHHHHHHHHHHHHhhhcccccchHHHhhh
Q 013676 355 SEHESKNPK--------ALYTTPKELHKWITIMLDAYHLNKEETDMREAKQM 398 (438)
Q Consensus 355 ~ElE~~d~D--------~LYTTP~~L~~wI~~~LdAY~~~ke~t~i~eA~~l 398 (438)
.... ...| +- .++..|+.++++++++...-+..++-+-|.+|
T Consensus 297 ~~~~-~~~~~~~~~~~~~~-~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~e~ 346 (491)
T PRK14964 297 IDFL-LGEDLITRIKSLKI-GSTIFLSRLWQMLLKGIQEVKSSTCVKQAAEM 346 (491)
T ss_pred cccc-CCHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHHhccCCCchHHHHH
Confidence 2221 1111 11 57889999999999999887777766655555
No 26
>cd03313 enolase Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions.
Probab=24.84 E-value=2e+02 Score=29.86 Aligned_cols=84 Identities=20% Similarity=0.290 Sum_probs=49.2
Q ss_pred hHHHHHHHHHHHHHHHhhhhccC---CchhHHH-HHHhccCChHHHHHHHHhcc-----CCCCccc-cCC---------C
Q 013676 302 KNEVKDIMYCLYKATKSSLRGIA---PKEIKLL-KYLLNIIDPEERFSALATAF-----SPGSEHE-SKN---------P 362 (438)
Q Consensus 302 kdEvKDIMyhLY~tak~~l~r~~---PKEiRIL-KyLLsIeDPeER~~aL~~AF-----tPG~ElE-~~d---------~ 362 (438)
-.|+....+..|+..|.-+..-- |--+.=- -+--++++.++++.++.+|. +||++.. +=| .
T Consensus 170 ~~ea~~~~~~~~~~lK~~l~~~~g~~~~~vgdeGg~~p~~~~d~~~l~~i~eAi~~~g~~~G~dv~i~lD~aas~~~~~~ 249 (408)
T cd03313 170 FSEALRMGAEVYHTLKKVLKKKGGLLATNVGDEGGFAPNLSSNEEALDLLVEAIEKAGYEPGKKIAIALDVAASEFYDEG 249 (408)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCccccccccccCcCCCCCChHHHHHHHHHHHHHhcCCCCCeEEEEEehhhhhhcccC
Confidence 35666667777777774333111 0000000 00015778999999999998 8998654 212 2
Q ss_pred Cccc-------cChHHHHHHHHHHHHHhhh
Q 013676 363 KALY-------TTPKELHKWITIMLDAYHL 385 (438)
Q Consensus 363 D~LY-------TTP~~L~~wI~~~LdAY~~ 385 (438)
-|-| -||+++...+..+++.|..
T Consensus 250 ~y~~~~~~~~~~t~~eai~~~~~l~e~~~i 279 (408)
T cd03313 250 KYVYDSDEGKKLTSEELIDYYKELVKKYPI 279 (408)
T ss_pred cceeccCCCcccCHHHHHHHHHHHHHhCCc
Confidence 2233 4788888888888877754
No 27
>PF11335 DUF3137: Protein of unknown function (DUF3137) ; InterPro: IPR021484 This bacterial family of proteins has no known function.
Probab=24.83 E-value=74 Score=27.84 Aligned_cols=25 Identities=40% Similarity=0.592 Sum_probs=22.3
Q ss_pred cchHHHhhhcChHHHHHHHHHHHHH
Q 013676 390 TDMREAKQMTQPVVIQRLLILKETI 414 (438)
Q Consensus 390 t~i~eA~~lm~P~vI~Rl~~LK~~I 414 (438)
++-.+||-+++|.+++||..|++.+
T Consensus 60 ~D~~~AryiLtP~~mE~L~~l~~~~ 84 (142)
T PF11335_consen 60 TDQVEARYILTPSFMERLLELRERF 84 (142)
T ss_pred CCHHHHHHhCCHHHHHHHHHHHHhc
Confidence 4566999999999999999999886
No 28
>cd09234 V_HD-PTP_like Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains. This family contains the V-shaped (V) domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23) and related domains. It belongs to the V_Alix_like superfamily which includes the V domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X/ also known as apoptosis-linked gene-2 interacting protein 1, AIP1), and related domains. HD_PTP interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in cell migration and endosomal trafficking. The related Alix V-domain (belonging to a different family in this superfamily) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. In addi
Probab=24.35 E-value=5.6e+02 Score=25.87 Aligned_cols=57 Identities=19% Similarity=0.249 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhhhccHHHHHHHHHHHHHhc--CCcch-hHHHhhhccCCchhhHHHHH
Q 013676 153 TMKEKLISLARKVKKIDDEMESHYELLKEIQD--SPTDI-NAVVARRRKDFTGEFFRYLS 209 (438)
Q Consensus 153 ~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~--~p~di-~aIVArrRkDFT~EFF~hL~ 209 (438)
.....+.+|...|.+|++=-.+-..+++.+++ ...|| ..|+...+.+|..=|-+||.
T Consensus 185 ~~~~~v~~Lr~ll~kl~~lk~eR~~l~~~Lk~k~~~DDI~~~ll~~~~~~~e~lf~~eL~ 244 (337)
T cd09234 185 EDEAIEKELKRILNKVNEMRKQRRSLEQQLRDAIHEDDITSKLVTTTGGDMEDLFKEELK 244 (337)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchHHHHHhcchhHHHHHHHHHH
Confidence 33444666777777777777777888888844 47788 78888776688665556663
No 29
>KOG0841 consensus Multifunctional chaperone (14-3-3 family) [Posttranslational modification, protein turnover, chaperones]
Probab=24.21 E-value=2.2e+02 Score=28.92 Aligned_cols=52 Identities=29% Similarity=0.542 Sum_probs=28.9
Q ss_pred chhhHHHHHHHhhhcCChhhhHHHHHHHHHHHHHHHhhhhhhhhHh-------------hHHHHHHhhhhhhCCcc
Q 013676 201 TGEFFRYLSLVSETHDSLEDCDAVARLATRCLSAVSAYDKTLEHVE-------------TLDSAQAKFDDILNSPS 263 (438)
Q Consensus 201 T~EFF~hL~~l~ea~d~~~~rd~la~L~~~cLsav~ayD~a~e~~e-------------~LdaA~~kf~DILnSpS 263 (438)
.|++|+|+-.+. ..++|.+.+. ...+||-++++-.. +|+-+ .-|.+|+|||-
T Consensus 124 Kgdy~rylae~~----sg~erke~~~------~sl~aYk~a~~ia~~~l~PthPirLgLaLnfS-vf~yeilnsPe 188 (247)
T KOG0841|consen 124 KGDYYRYLAEFA----SGDERKEAAD------QSLEAYKEASEIAKAELQPTHPIRLGLALNFS-VFYYEILNSPE 188 (247)
T ss_pred cchhHHHHHHhc----chhHHHHHHH------HHHHHHHHHHHHHHhcCCCCCchHHHHHHHHH-HHHHHHHcChH
Confidence 367777776665 3344443332 24456666555444 23333 34489999993
No 30
>cd07313 terB_like_2 tellurium resistance terB-like protein, subgroup 2. This family includes several uncharacterized bacterial proteins. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=23.61 E-value=4e+02 Score=21.55 Aligned_cols=85 Identities=16% Similarity=0.201 Sum_probs=56.2
Q ss_pred hhhhccChHHHHHHHHHHHHhhhcc-HHHHHHHHHHHHHhcCCcchhHHHhhhccCCch-hhHHHHHHHhhh-c-C---C
Q 013676 145 RADEESEPTMKEKLISLARKVKKID-DEMESHYELLKEIQDSPTDINAVVARRRKDFTG-EFFRYLSLVSET-H-D---S 217 (438)
Q Consensus 145 RAd~E~DP~~K~kL~kL~RkLK~iD-eev~~HneLL~~i~~~p~di~aIVArrRkDFT~-EFF~hL~~l~ea-~-d---~ 217 (438)
+||-.-++..+..+..+.+..-.++ ++..+=-+........+.|+..++..-+..|+. .=-..|.++... | | +
T Consensus 11 ~aDG~v~~~E~~~i~~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~L~~vA~ADG~~~ 90 (104)
T cd07313 11 RADGEYDEEERAAIDRLLAERFGLDAEEAAELLAEAEALEEEAPDLYEFTSLIKEHFDYEERLELVEALWEVAYADGELD 90 (104)
T ss_pred HHcCCCCHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCCCC
Confidence 5788889999999999888864555 566666677777777888998888887777743 222233333322 2 2 3
Q ss_pred hhhhHHHHHHHH
Q 013676 218 LEDCDAVARLAT 229 (438)
Q Consensus 218 ~~~rd~la~L~~ 229 (438)
+.+.+-|.+++.
T Consensus 91 ~~E~~~l~~ia~ 102 (104)
T cd07313 91 EYEEHLIRRVAD 102 (104)
T ss_pred HHHHHHHHHHHh
Confidence 666666666654
No 31
>PRK13441 F0F1 ATP synthase subunit delta; Provisional
Probab=23.35 E-value=1.5e+02 Score=26.97 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=30.2
Q ss_pred hhhhhHhhHHHHHHhhhhhhCCcchHHHHHH--HHHHHH--hccCChHHH
Q 013676 240 KTLEHVETLDSAQAKFDDILNSPSVDVACEK--IKSLAK--AKELDSSLI 285 (438)
Q Consensus 240 ~a~e~~e~LdaA~~kf~DILnSpSLd~Ac~K--Id~LAk--~~eLDsaLv 285 (438)
...++...+..+-.++.++|.+|++....++ |+++.+ .+.+|+.+.
T Consensus 26 ~v~~~l~~~~~~~~~~~~~l~~p~i~~~~K~~~l~~~~~~~~~~~~~~~~ 75 (180)
T PRK13441 26 EYGEFLDLVCQIYESAKEFFDNPIVKPEKKVSLIKEIMKEFGQEMDEFFE 75 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccCHHHH
Confidence 3444444444444456789999998888776 788765 456776543
No 32
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=23.22 E-value=70 Score=27.14 Aligned_cols=27 Identities=15% Similarity=0.205 Sum_probs=23.6
Q ss_pred hHHHHHHhccCChHHHHHHHHhccCCC
Q 013676 328 IKLLKYLLNIIDPEERFSALATAFSPG 354 (438)
Q Consensus 328 iRILKyLLsIeDPeER~~aL~~AFtPG 354 (438)
--++..||++.||+|-..-|++-|||-
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~l~t~~ 32 (88)
T TIGR02531 6 DELFDAILTLKNREECYRFFDDIATIN 32 (88)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHhCCHH
Confidence 457889999999999999999988874
No 33
>TIGR02284 conserved hypothetical protein. Members of this protein family are found mostly in the Proteobacteria, although one member is found in the the marine planctomycete Pirellula sp. strain 1. The function is unknown.
Probab=22.89 E-value=5.5e+02 Score=22.90 Aligned_cols=47 Identities=13% Similarity=0.311 Sum_probs=27.7
Q ss_pred HhHHHHHHhhhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCcc
Q 013676 136 ESFYNRCRTRADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDSPTD 188 (438)
Q Consensus 136 p~Ff~Rcq~RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~d 188 (438)
-.+|++|-+++ .||..|.-+.+.+..=...-.+++. .+..+.+.|.+
T Consensus 16 ~~gY~~aae~v---~~~~lk~~f~~~~~~~~~~~~eL~~---~v~~lGg~p~~ 62 (139)
T TIGR02284 16 KDGFEESAEEV---KDPELATLFRRIAGEKSAIVSELQQ---VVASLGGKPED 62 (139)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHHH---HHHHhCCCCCC
Confidence 46788888776 7788888776666544433333333 23334445554
No 34
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=22.63 E-value=7.9e+02 Score=26.19 Aligned_cols=133 Identities=13% Similarity=0.164 Sum_probs=75.3
Q ss_pred hHHHHHHhhhhhccChHHHHHHHHHHHHhhhccHHHH------HHHHHHHHH---hcCCcchhHHHhhhccCCchhhHHH
Q 013676 137 SFYNRCRTRADEESEPTMKEKLISLARKVKKIDDEME------SHYELLKEI---QDSPTDINAVVARRRKDFTGEFFRY 207 (438)
Q Consensus 137 ~Ff~Rcq~RAd~E~DP~~K~kL~kL~RkLK~iDeev~------~HneLL~~i---~~~p~di~aIVArrRkDFT~EFF~h 207 (438)
|+|..+-..-+. +|.-.+.+.+.+.-.|-+-..-.+ -...|...+ .+.| +..++.=--+= .||.+
T Consensus 202 gll~~ll~eL~~-dDiLvqlnalell~~La~~~~g~~yL~~~gi~~~L~~~l~~~~~dp-~~~~~~l~g~~----~f~g~ 275 (503)
T PF10508_consen 202 GLLDLLLKELDS-DDILVQLNALELLSELAETPHGLQYLEQQGIFDKLSNLLQDSEEDP-RLSSLLLPGRM----KFFGN 275 (503)
T ss_pred cHHHHHHHHhcC-ccHHHHHHHHHHHHHHHcChhHHHHHHhCCHHHHHHHHHhccccCC-cccchhhhhHH----HHHHH
Confidence 677777777776 777777776666666654222111 112233333 3334 11211111110 34444
Q ss_pred HHH----------------Hhhhc--CCh-hhhHHHHHHHHHHHHHHHhhhhh-hhhHhhHHHHHHhhhhhhCCcchHHH
Q 013676 208 LSL----------------VSETH--DSL-EDCDAVARLATRCLSAVSAYDKT-LEHVETLDSAQAKFDDILNSPSVDVA 267 (438)
Q Consensus 208 L~~----------------l~ea~--d~~-~~rd~la~L~~~cLsav~ayD~a-~e~~e~LdaA~~kf~DILnSpSLd~A 267 (438)
+.. +.+.. .|+ ..--++..+|.-| +.++...-. .....++..+=..+-+...+++.|--
T Consensus 276 la~~~~~~v~~~~p~~~~~l~~~~~s~d~~~~~~A~dtlg~ig-st~~G~~~L~~~~~~~~~~~l~~~~~~~~~~~~~lk 354 (503)
T PF10508_consen 276 LARVSPQEVLELYPAFLERLFSMLESQDPTIREVAFDTLGQIG-STVEGKQLLLQKQGPAMKHVLKAIGDAIKSGSTELK 354 (503)
T ss_pred HHhcChHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHh-CCHHHHHHHHhhcchHHHHHHHHHHHHhcCCchHHH
Confidence 444 22211 223 3345677888777 667887777 66677788888888888888887777
Q ss_pred HHHHHHHHH
Q 013676 268 CEKIKSLAK 276 (438)
Q Consensus 268 c~KId~LAk 276 (438)
++=++.|+.
T Consensus 355 ~r~l~al~~ 363 (503)
T PF10508_consen 355 LRALHALAS 363 (503)
T ss_pred HHHHHHHHH
Confidence 777776654
No 35
>PF10643 Cytochrome-c551: Photosystem P840 reaction-centre cytochrome c-551; InterPro: IPR019604 A photosynthetic reaction-centre complex is found in certain green sulphur bacteria such as Chlorobium vibrioforme, which are anaerobic photo-auto-trophic organisms. The primary electron donor is P840, a probable B-Chl a dimer, and the primary electron acceptor is a B-Chl monomer. Also on the donor side c-type cytochromes are known to function as electron donors to photo-oxidised P840. This family is thus the secondary endogenous donor of the photosynthetic reaction-centre complex and is a membrane-bound cytochrome containing a single haem group. ; PDB: 3A9F_A.
Probab=22.60 E-value=1.5e+02 Score=29.81 Aligned_cols=63 Identities=17% Similarity=0.219 Sum_probs=41.3
Q ss_pred hhHHHHHHhhhhhhC-CcchHHHHHHHHHHHHhccCChHHHHHHHHHHHhhhccchhhHHHHHHHHHHH
Q 013676 246 ETLDSAQAKFDDILN-SPSVDVACEKIKSLAKAKELDSSLILLINGAWASAKASQTMKNEVKDIMYCLY 313 (438)
Q Consensus 246 e~LdaA~~kf~DILn-SpSLd~Ac~KId~LAk~~eLDsaLvLlisKAwaAAKES~~mkdEvKDIMyhLY 313 (438)
+.+++|+..|+.=-| +-+++.--.+++...++||+|...-= -.+.=.|..++++|..||-+|=
T Consensus 167 fdf~AAk~L~~~KCNkCHTl~SVed~lrkYkKkGkid~iVkr-----Mqa~PnSgIt~eDa~~I~~YLn 230 (233)
T PF10643_consen 167 FDFAAAKALFDRKCNKCHTLKSVEDALRKYKKKGKIDKIVKR-----MQAVPNSGITDEDAPQIMMYLN 230 (233)
T ss_dssp --HHHHHHHHHHHTTSSS-SHHHHHHHHHTTTTT-HHHHHHH-----HHHSTT----HHHHHHHHHHHH
T ss_pred hhHHHHHHHHHhhccccccHHHHHHHHHHHHhcCCHHHHHHH-----HHhCCCCCCCHHHHHHHHHHHH
Confidence 346777777776555 44788888888899999999965432 2456789999999999998874
No 36
>cd07177 terB_like tellurium resistance terB-like protein. This family consists of tellurium resistance terB proteins, N-terminal domain of heat shock DnaJ-like proteins, N-terminal domain of Mo-dependent nitrogenase-like proteins, C-terminal domain of ABC transporter ATP-binding proteins, C-terminal domain of serine/threonine protein kinase, and many hypothetical bacterial proteins. The function of this family is unknown.
Probab=22.07 E-value=3.8e+02 Score=20.77 Aligned_cols=84 Identities=18% Similarity=0.200 Sum_probs=51.0
Q ss_pred hhhccChHHHHHHHHHHHHhhhc-cHHHHHHHHHHHHHhc---CCcchhHHHhhhcc-CCchhhHHHHHHHhhhcC--Ch
Q 013676 146 ADEESEPTMKEKLISLARKVKKI-DDEMESHYELLKEIQD---SPTDINAVVARRRK-DFTGEFFRYLSLVSETHD--SL 218 (438)
Q Consensus 146 Ad~E~DP~~K~kL~kL~RkLK~i-Deev~~HneLL~~i~~---~p~di~aIVArrRk-DFT~EFF~hL~~l~ea~d--~~ 218 (438)
||-+-++..+..+..+.+.+-.. +.+.++-.+++..... .+..+..+...... +=-..+++.+.-++.+-. ++
T Consensus 12 aDG~i~~~E~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~~~ia~aDG~~~~ 91 (104)
T cd07177 12 ADGRVDEEEIAAIEALLRRLPLLDAEERAELIALLEEPLAEAGDLAALAALLKELPDAELREALLAALWEVALADGELDP 91 (104)
T ss_pred hcCCCCHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccCCCH
Confidence 68889999999999988887653 3345555555555554 34444444433222 222356666666666643 45
Q ss_pred hhhHHHHHHHH
Q 013676 219 EDCDAVARLAT 229 (438)
Q Consensus 219 ~~rd~la~L~~ 229 (438)
.++.-|.+++.
T Consensus 92 ~E~~~l~~l~~ 102 (104)
T cd07177 92 EERALLRRLAD 102 (104)
T ss_pred HHHHHHHHHHh
Confidence 67777777664
No 37
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=21.03 E-value=6.4e+02 Score=23.31 Aligned_cols=43 Identities=14% Similarity=0.291 Sum_probs=26.1
Q ss_pred HHHHHhhhhhccChHHHHHHHHHHHHhhhccHHHHHHHHHHHHHhcCCcchhH
Q 013676 139 YNRCRTRADEESEPTMKEKLISLARKVKKIDDEMESHYELLKEIQDSPTDINA 191 (438)
Q Consensus 139 f~Rcq~RAd~E~DP~~K~kL~kL~RkLK~iDeev~~HneLL~~i~~~p~di~a 191 (438)
..+.+.-...-.|+.+..++.++.+-.+ .++..++.+|.++..
T Consensus 84 i~~i~~~~~~i~~~~~~~~~~~~~~~~~----------~I~~~v~~~P~~l~~ 126 (199)
T PF10112_consen 84 IRRIEKAIKRIRDLEMIEKVSRIEKIAR----------RIFKYVEKDPERLTQ 126 (199)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHH----------HHHHHHHHCHHhHHH
Confidence 3455555555566666666555555555 456777888887633
No 38
>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2.1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.
Probab=20.65 E-value=4e+02 Score=20.50 Aligned_cols=64 Identities=28% Similarity=0.225 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhhhhhhhhHhhHHHHHH---hhhhhhCCcchHHHHHHHHHHHHhccCChHHHHHHHHHH
Q 013676 227 LATRCLSAVSAYDKTLEHVETLDSAQA---KFDDILNSPSVDVACEKIKSLAKAKELDSSLILLINGAW 292 (438)
Q Consensus 227 L~~~cLsav~ayD~a~e~~e~LdaA~~---kf~DILnSpSLd~Ac~KId~LAk~~eLDsaLvLlisKAw 292 (438)
+..+++.++-++|...-... ++.|-. .+.+|++.. +-.+-.+|-.+=+.|++.-+=+.+++.+-
T Consensus 4 ~~~~l~~al~~~d~~~~~~~-~~~~l~~g~~~~~i~~~~-l~p~m~~iG~~w~~~~~~v~~e~~as~~~ 70 (79)
T PF02607_consen 4 LIERLLDALLAGDEEEAEAL-LEEALAQGYPPEDIIEEI-LMPAMEEIGELWEEGEISVAQEHLASEAM 70 (79)
T ss_dssp HHHHHHHHHHTT-CCHHHHH-HHHHHHCSSSTTHHHHHT-HHHHHHHHHHHHHTTSS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHH-HHHHHHcCCCHHHHHHHH-HHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence 45667778888876554443 333332 345555554 56677789999999999999988888763
No 39
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=20.59 E-value=2e+02 Score=26.26 Aligned_cols=78 Identities=24% Similarity=0.123 Sum_probs=46.9
Q ss_pred CchhHHHHHHh----ccCChHHHHHHHHhccCCCCccccCCCCccccChHHHHHHHHHHHHHhhhcccccchH-HHhhhc
Q 013676 325 PKEIKLLKYLL----NIIDPEERFSALATAFSPGSEHESKNPKALYTTPKELHKWITIMLDAYHLNKEETDMR-EAKQMT 399 (438)
Q Consensus 325 PKEiRILKyLL----sIeDPeER~~aL~~AFtPG~ElE~~d~D~LYTTP~~L~~wI~~~LdAY~~~ke~t~i~-eA~~lm 399 (438)
|-.+++|+-.. |=-||+.|+.+|-.+++|. |++||..=....-.++.|..+- |.-.=.
T Consensus 24 p~~i~~L~~~d~~~tSKKd~~~Rr~ELl~~~sp~-----------------Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~ 86 (148)
T PF08144_consen 24 PEIIKLLKEGDRNATSKKDPEVRRKELLEAISPP-----------------LLEAIAENAEELLSSSFGCQFITEILLSA 86 (148)
T ss_pred HHHHHHHhhhcccccccCCHHHHHHHHHHHhhHH-----------------HHHHHHHhHHHHHhcCcccHHHHHHHhcc
Confidence 44444444333 3459999999999999984 6666654444444455555443 432222
Q ss_pred ChHHHHHHHHHHHHHHHHHh
Q 013676 400 QPVVIQRLLILKETIEEEYL 419 (438)
Q Consensus 400 ~P~vI~Rl~~LK~~Ie~~ym 419 (438)
.-+....++.|-+++...+.
T Consensus 87 ~gdk~~a~~Aia~~~~~~~~ 106 (148)
T PF08144_consen 87 TGDKSAALEAIASLAAEPLF 106 (148)
T ss_pred CccHHHHHHHHHHHHhhccC
Confidence 23556777777777766643
No 40
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=20.50 E-value=3.3e+02 Score=22.91 Aligned_cols=86 Identities=24% Similarity=0.325 Sum_probs=55.2
Q ss_pred hhhhccChHHHHHHHHHHHHhhh-ccHHHHHHHHHHHHHhcCCcchhHHHhhhccCCchhh----HHHHHHHhhhc--CC
Q 013676 145 RADEESEPTMKEKLISLARKVKK-IDDEMESHYELLKEIQDSPTDINAVVARRRKDFTGEF----FRYLSLVSETH--DS 217 (438)
Q Consensus 145 RAd~E~DP~~K~kL~kL~RkLK~-iDeev~~HneLL~~i~~~p~di~aIVArrRkDFT~EF----F~hL~~l~ea~--d~ 217 (438)
.||-.-+|..+..+..+.+..-. -+++.+...+.+......+.++..++..-+..|+.+. ++.+..++.|= =+
T Consensus 35 ~aDG~v~~~E~~~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~r~~ll~~l~~ia~ADG~~~ 114 (140)
T PF05099_consen 35 KADGEVDPEEIEAIRQLLAERFGLSPEEAEELIELADELKQEPIDLEELLRELRDSLSPEEREDLLRMLIAIAYADGEIS 114 (140)
T ss_dssp HTTSS--CHHHHHHHHHHHHCGCGSCHHHHHHHHHHCHHHHHCCHHHHHHHHHCTS--HHHHHHHHHHHHHHCTCTTC-S
T ss_pred HcCCCCCHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhchHHHHHHHHHHHHHHhcCCCCC
Confidence 47888889999998888754444 4677788888888888888888888887777776543 33333333331 13
Q ss_pred hhhhHHHHHHHHH
Q 013676 218 LEDCDAVARLATR 230 (438)
Q Consensus 218 ~~~rd~la~L~~~ 230 (438)
+.+++-|.+++..
T Consensus 115 ~~E~~~l~~ia~~ 127 (140)
T PF05099_consen 115 PEEQEFLRRIAEA 127 (140)
T ss_dssp CCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 6667777776654
No 41
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 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 []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=20.29 E-value=1.5e+02 Score=28.84 Aligned_cols=52 Identities=13% Similarity=0.252 Sum_probs=39.0
Q ss_pred HHHHHhhhcCChhhhHHHHHHHHHHHHHHHhhhhhhhhHhhHHHHHHhhhhhhC
Q 013676 207 YLSLVSETHDSLEDCDAVARLATRCLSAVSAYDKTLEHVETLDSAQAKFDDILN 260 (438)
Q Consensus 207 hL~~l~ea~d~~~~rd~la~L~~~cLsav~ayD~a~e~~e~LdaA~~kf~DILn 260 (438)
-|+.++.+.- .++|.++.+|++..+..++..|.+..+-. ...|+.-|.+.+.
T Consensus 141 DL~~liss~p-~~~kk~l~~La~~lf~~ie~LD~Aar~K~-~~~a~~~Y~~t~~ 192 (202)
T PF05757_consen 141 DLNTLISSKP-KDEKKALTDLANKLFDNIEELDYAARSKD-VPEAEKYYADTVK 192 (202)
T ss_dssp HHHHHHCCS--HHHHHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred HHHHHHHhCC-HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHH
Confidence 3555666653 68899999999999999999999998876 5666666666543
Done!