Query 017028
Match_columns 379
No_of_seqs 188 out of 496
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 04:58:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017028.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017028hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1723 Uncharacterized conser 100.0 4.6E-65 1E-69 490.6 22.6 273 81-366 54-328 (331)
2 KOG2861 Uncharacterized conser 100.0 1.7E-58 3.6E-63 461.2 23.0 284 82-367 90-396 (399)
3 PF02582 DUF155: Uncharacteris 100.0 8.3E-46 1.8E-50 336.4 20.1 173 145-318 1-175 (175)
4 PRK11085 magnesium/nickel/coba 88.3 15 0.00033 36.8 14.3 145 205-350 101-267 (316)
5 PF00352 TBP: Transcription fa 86.0 4.4 9.6E-05 32.5 7.5 68 87-172 10-79 (86)
6 COG2101 SPT15 TATA-box binding 73.8 17 0.00037 33.7 7.7 74 86-177 13-92 (185)
7 TIGR00383 corA magnesium Mg(2+ 72.7 81 0.0018 30.8 13.0 49 290-338 208-257 (318)
8 PRK09546 zntB zinc transporter 71.0 1.1E+02 0.0024 30.2 15.5 25 344-368 300-324 (324)
9 cd04517 TLF TBP-like factors ( 63.8 40 0.00087 30.9 8.1 58 89-165 11-70 (174)
10 cd04517 TLF TBP-like factors ( 61.5 56 0.0012 29.9 8.7 69 88-174 100-171 (174)
11 cd00652 TBP_TLF TATA box bindi 61.2 60 0.0013 29.7 8.8 71 86-174 98-171 (174)
12 cd04518 TBP_archaea archaeal T 60.8 49 0.0011 30.4 8.1 70 87-174 8-83 (174)
13 PRK00394 transcription factor; 60.7 53 0.0011 30.3 8.4 68 88-173 99-170 (179)
14 cd04518 TBP_archaea archaeal T 57.8 66 0.0014 29.5 8.5 66 88-171 100-167 (174)
15 PLN00062 TATA-box-binding prot 56.3 67 0.0015 29.7 8.3 61 87-165 8-70 (179)
16 cd00652 TBP_TLF TATA box bindi 56.2 71 0.0015 29.2 8.4 70 88-175 9-84 (174)
17 cd04516 TBP_eukaryotes eukaryo 56.1 79 0.0017 29.0 8.7 71 86-174 97-170 (174)
18 PF01544 CorA: CorA-like Mg2+ 54.8 71 0.0015 30.2 8.6 59 287-345 181-240 (292)
19 PRK00394 transcription factor; 54.7 79 0.0017 29.2 8.5 70 87-174 7-82 (179)
20 PLN00062 TATA-box-binding prot 52.8 1.1E+02 0.0023 28.3 9.0 71 86-174 97-170 (179)
21 cd04516 TBP_eukaryotes eukaryo 49.7 1.6E+02 0.0035 27.0 9.6 59 87-163 8-67 (174)
22 COG0598 CorA Mg2+ and Co2+ tra 47.9 2.9E+02 0.0063 27.4 12.8 125 224-349 137-272 (322)
23 PF06200 tify: tify domain; I 38.9 66 0.0014 22.2 4.0 28 144-171 6-34 (36)
24 PF15136 UPF0449: Uncharacteri 37.0 1.1E+02 0.0024 25.7 5.9 42 294-335 50-91 (97)
25 PRK00736 hypothetical protein; 36.9 64 0.0014 25.1 4.2 31 308-338 2-32 (68)
26 PF04102 SlyX: SlyX; InterPro 36.6 63 0.0014 25.0 4.1 29 309-337 2-30 (69)
27 PF07889 DUF1664: Protein of u 35.6 94 0.002 27.2 5.5 45 295-339 51-96 (126)
28 PF04678 DUF607: Protein of un 35.2 1.4E+02 0.0031 27.2 7.0 59 308-367 61-119 (180)
29 PRK02119 hypothetical protein; 34.1 66 0.0014 25.4 3.9 31 308-338 6-36 (73)
30 PRK02793 phi X174 lysis protei 33.3 74 0.0016 25.0 4.1 31 308-338 5-35 (72)
31 PRK04406 hypothetical protein; 31.2 77 0.0017 25.2 3.9 31 308-338 8-38 (75)
32 PRK00295 hypothetical protein; 31.0 92 0.002 24.2 4.2 31 308-338 2-32 (68)
33 PF05088 Bac_GDH: Bacterial NA 30.7 5.1E+02 0.011 31.9 12.0 138 218-365 1132-1305(1528)
34 PRK04325 hypothetical protein; 30.6 86 0.0019 24.8 4.1 30 309-338 7-36 (74)
35 KOG1690 emp24/gp25L/p24 family 29.4 2.4E+02 0.0051 26.9 7.3 65 296-361 130-202 (215)
36 PHA02650 hypothetical protein; 28.2 2.3E+02 0.0049 23.0 6.0 16 322-337 19-34 (81)
37 PRK00846 hypothetical protein; 24.5 1.3E+02 0.0028 24.2 4.1 30 308-337 10-39 (77)
38 TIGR00383 corA magnesium Mg(2+ 23.9 5.9E+02 0.013 24.7 9.6 24 344-367 294-317 (318)
39 PF12998 ING: Inhibitor of gro 23.7 3.6E+02 0.0078 21.6 6.8 95 235-336 2-97 (105)
40 PF09418 DUF2009: Protein of u 23.7 1.9E+02 0.004 30.8 6.1 87 228-318 9-100 (458)
41 COG4064 MtrG Tetrahydromethano 23.3 3.4E+02 0.0074 21.6 6.0 50 305-361 16-72 (75)
42 PHA02844 putative transmembran 23.1 2.5E+02 0.0054 22.5 5.3 38 322-359 19-64 (75)
43 PF07303 Occludin_ELL: Occludi 22.2 3.2E+02 0.0069 22.9 6.2 39 291-329 53-98 (101)
44 PRK06746 peptide chain release 20.1 1.8E+02 0.0039 29.6 5.0 45 286-331 3-48 (326)
No 1
>COG1723 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.6e-65 Score=490.56 Aligned_cols=273 Identities=22% Similarity=0.344 Sum_probs=239.8
Q ss_pred CCCeeeEEEEeccCccChhhHHHHhhcCCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC
Q 017028 81 EIGKIPVKAYFLSTSIDLKSMQAENLTHVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE 160 (379)
Q Consensus 81 ~~~~~~v~Ay~lae~idL~~L~~~l~~~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~ 160 (379)
+.+-++|+|||+|++||++.|.+.++.+...+.... .++.+....++ ..++.+++|+|.||||||||++
T Consensus 54 ~~~~~R~taYct~~~y~l~~L~~~LK~~~l~p~~y~--------e~v~~~~~e~~---~~~~~~~~f~f~yGvVV~Wg~s 122 (331)
T COG1723 54 ELKLMRCTAYCTASGYRLKVLFKLLKKNGLYPSVYN--------EDVLSLMPEMN---TDEEFGEAFFFPYGVVVFWGFS 122 (331)
T ss_pred hhccceeeeEeccccccHHHHHHHhhhccCChhHHH--------HHHHhcchhhc---CCcccceEEEecCceEEEeCCc
Confidence 456789999999999999999999875421111000 11111001111 2355789999999999999999
Q ss_pred hHHHHHHHHHHHHhhccCCCcccccceEEE--ecCCcccccccCCCEEEecCCCchhHHHHHHHHHHHHHHHHHHHHHHH
Q 017028 161 DHEVENYLHIIRRHASGMLPEMRKDDYAIK--EKPLLAEDMQGGPDYIVLKNLDTDSVRVIGSVLGQSMALDYFVSQVDC 238 (379)
Q Consensus 161 ~~e~~~~L~~L~~~~~~~~~~~e~Ed~~~~--~~p~~~~~~~i~~D~I~L~~~d~~~~~aiS~aLAQSVkL~~~E~~vd~ 238 (379)
+.|+..||..+.+++.+|+.+++.|..+|. +.+ .++.++.+|.|+|++.+...+++|||||||||||++||+.+++
T Consensus 123 e~eE~~iL~~i~~~~~~~L~e~e~E~e~fhy~~~~--~~~prI~nD~I~L~s~~~~~klaiS~aLAQSVkLs~fE~~v~~ 200 (331)
T COG1723 123 ESEEKNILRDITKAESNPLKEPEIETEEFHYNVTE--TEKPRIFNDKIILRSSNVFTKLAISHALAQSVKLSVFEESVDN 200 (331)
T ss_pred HHHHhhHHHhhhhcccCCCCCccceEEEEEeeeec--ccCceeECCEEEEcCCchhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 999999999999999999987765555444 444 3456788999999999999999999999999999999999999
Q ss_pred HHHHHHhHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHhhhhccccccchhhhccchhHHHHHHHHHHhchhhHHHHHHH
Q 017028 239 LVEEFAGINRAMEKTGTFTMDRTKLIQLVGKANSNLADVILKVGLFERSEIAWRDAKYAQIYEYLREEYEVAQRFGNLDF 318 (379)
Q Consensus 239 ~ie~~~~i~~~Lak~G~i~lsrk~llk~iG~l~~~r~~inl~~~lLD~Pe~~We~p~le~lY~~l~~~~EI~~R~~~Ln~ 318 (379)
+|+.++++|+.|+++|+++++|++++|++|++|..|+++||+++|||+|||||++|+|+++|.++++|+||++|+++||+
T Consensus 201 ti~~t~~~pq~la~~gkvslsr~eilk~iG~LFllR~~iNL~s~IlDtPef~W~ePqleplY~~~~~yLdI~~RvnvLN~ 280 (331)
T COG1723 201 TIDQTKPIPQELARTGKVSLSRKEILKQIGKLFLLRVSINLHSDILDTPEFFWSEPQLEPLYLAVREYLDINPRVNVLNR 280 (331)
T ss_pred HHHhcchhHHHHhhcCCccccHHHHHHHHhHHhheeeeeeeeeccccCchhcccCcchhHHHHHHHHHhchhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHHHhc
Q 017028 319 KLKFVEHNIHFLQEVIQNRRSDLLEWCIIFLLTIENVISVYEIVRDST 366 (379)
Q Consensus 319 KL~~i~e~~~~L~e~l~~~~s~rLEWIIIiLI~vEIvl~l~~~~~~~~ 366 (379)
||++|.|++++|.+.++++|+++||||||+||++||++++++++.+..
T Consensus 281 Rl~vi~d~l~il~e~ln~~~s~~lEWivIiLI~~eVllsl~~i~~~~~ 328 (331)
T COG1723 281 RLEVISDLLDILNEQLNHSHSTRLEWIVIILIGLEVLLSLYNIIVKYI 328 (331)
T ss_pred HHHHHHHHHHHHHHHhhhcccceeEEEehhHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999998864
No 2
>KOG2861 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.7e-58 Score=461.23 Aligned_cols=284 Identities=29% Similarity=0.432 Sum_probs=226.6
Q ss_pred CCeeeEEEEeccCccChhhHHHHhhc--------------CCCCCCCCCCcceEEEecCCCcc-c-ccccccCCCCceeE
Q 017028 82 IGKIPVKAYFLSTSIDLKSMQAENLT--------------HVVPPSSRSTKYIALRYSDFPSE-I-SALGVHGNVSHCRY 145 (379)
Q Consensus 82 ~~~~~v~Ay~lae~idL~~L~~~l~~--------------~~~p~~~~~~~~l~l~~~~~~~~-~-~~~~~~~~~~~~~~ 145 (379)
......+|||+++.+.++.+.+.+.+ ...++.....++......+.... + ...|.....++.++
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~s~~~~e 169 (399)
T KOG2861|consen 90 SLLPRETAYCTEETLGLKELRKYFKSTSLLTKLGLAEFNECLYEPTSFNTNYVGLDFSDKSDSSIKPLNGSINGSGEFSE 169 (399)
T ss_pred hhccchhccchhhhcCcchHHHHHHHhhhhhhcchhhhhhcccCccccccccccccccCccccccccccccccCCCCcce
Confidence 34557889999999998877765432 11222222223333222211100 0 11222222347899
Q ss_pred EEEEcCCcEEEEeCChHHHHHHHHHHHHhhccCCCc-ccccceE-----EEecCCcccccccCCCEEEecCCCch-hHHH
Q 017028 146 MVVFHYGSAVLFNIEDHEVENYLHIIRRHASGMLPE-MRKDDYA-----IKEKPLLAEDMQGGPDYIVLKNLDTD-SVRV 218 (379)
Q Consensus 146 vfiF~yGvVVfwn~~~~e~~~~L~~L~~~~~~~~~~-~e~Ed~~-----~~~~p~~~~~~~i~~D~I~L~~~d~~-~~~a 218 (379)
+|||+||||||||+++.|++.+|..+++|+.+|+.. ...+|++ +.+.... ...+.+|.|++.+.+.. .+.+
T Consensus 170 ifvF~yGvvVfwn~s~~q~~~iL~~le~~e~~~~~~~l~~~e~ev~~~~~~~t~~~--~~~~~~~~i~l~~~~~~l~k~a 247 (399)
T KOG2861|consen 170 IFVFRYGVVVFWNVSENQEKHILKELERHEYGPLEIALDEEESEVEEFTYLITGST--FRRGINDDIVLDDSDNILIKLA 247 (399)
T ss_pred EEEEecceEEEEecChhHHHhHHHHHHHhccccchhhhchhhhhhhcccccccccc--ccccccceeEEecccchhHHHH
Confidence 999999999999999999999999999999986432 2233333 3333221 11234567777666655 4557
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHhhhhccccccchhhhccchhHH
Q 017028 219 IGSVLGQSMALDYFVSQVDCLVEEFAGINRAMEKTGTFTMDRTKLIQLVGKANSNLADVILKVGLFERSEIAWRDAKYAQ 298 (379)
Q Consensus 219 iS~aLAQSVkL~~~E~~vd~~ie~~~~i~~~Lak~G~i~lsrk~llk~iG~l~~~r~~inl~~~lLD~Pe~~We~p~le~ 298 (379)
||+||||||||++||++||++|++++++|+.|+++|+++++|++++|++|++|.+|+++||+++|||+|||+|++|+|++
T Consensus 248 iS~alaQSvKL~~~E~~vd~~I~s~~~ipe~la~~gkl~lsr~e~lk~iGkLf~LR~~INL~s~lLdtPdf~W~ep~Le~ 327 (399)
T KOG2861|consen 248 ISHALAQSVKLSYFESLVDKTIESTTDIPESLALGGKLTLSREELLKKIGKLFALRHDINLSSGLLDTPDFYWDEPQLEP 327 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcCeecccHHHHHHHHHHHHHHheeeecccccccCcccccCchhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhchhhHHHHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 299 IYEYLREEYEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDLLEWCIIFLLTIENVISVYEIVRDSTG 367 (379)
Q Consensus 299 lY~~l~~~~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~rLEWIIIiLI~vEIvl~l~~~~~~~~~ 367 (379)
||+++++||||++|+++||+||++|.|++++|.+.++++|+.+||||||+||++||++++++++.+...
T Consensus 328 iY~~~r~yleI~qRv~vLN~kl~~i~~~~~~l~e~ln~r~~~~LEWiIIiLI~~eV~i~i~~i~~~~~~ 396 (399)
T KOG2861|consen 328 IYEATRRYLEIGQRVNVLNYKLKVIEDLLDILQENLNERHSERLEWIIIILIAFEVAIEIYQIVVRYLS 396 (399)
T ss_pred HHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHhhhccccceehhhHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999999999999988754
No 3
>PF02582 DUF155: Uncharacterised ACR, YagE family COG1723; InterPro: IPR003734 This entry describes proteins of unknown function.
Probab=100.00 E-value=8.3e-46 Score=336.37 Aligned_cols=173 Identities=28% Similarity=0.465 Sum_probs=165.8
Q ss_pred EEEEEcCCcEEEEeCChHHHHHHHHHHHHhhccCCCccc--ccceEEEecCCcccccccCCCEEEecCCCchhHHHHHHH
Q 017028 145 YMVVFHYGSAVLFNIEDHEVENYLHIIRRHASGMLPEMR--KDDYAIKEKPLLAEDMQGGPDYIVLKNLDTDSVRVIGSV 222 (379)
Q Consensus 145 ~vfiF~yGvVVfwn~~~~e~~~~L~~L~~~~~~~~~~~e--~Ed~~~~~~p~~~~~~~i~~D~I~L~~~d~~~~~aiS~a 222 (379)
+||+|+||||||||+++++++.+|+.|++++.+|+++.. .|+|.+..+++. ....+.+|.|+|++.+...+++||+|
T Consensus 1 dvf~F~~G~vVfw~~~~~~~~~~l~~l~~~~~~~~~~~~~~~e~~~~~~~~~~-~~~~i~~d~i~l~~~~~~~~~aiS~~ 79 (175)
T PF02582_consen 1 DVFLFRYGVVVFWGVSEEEEKQFLDYLKPFEEEPLSEPEVETEEMNYIYDPNL-PKSRIQNDIIVLPELDVLEKLAISHA 79 (175)
T ss_pred CEEEecCcEEEEEeCCHHHHHHHHHHHHHHHhCCCccccceeEEEEEEEeCCC-CCceEECCEEEEcccchHHHHHHHHH
Confidence 489999999999999999999999999999999998766 999999999864 23467899999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHhhhhccccccchhhhccchhHHHHHH
Q 017028 223 LGQSMALDYFVSQVDCLVEEFAGINRAMEKTGTFTMDRTKLIQLVGKANSNLADVILKVGLFERSEIAWRDAKYAQIYEY 302 (379)
Q Consensus 223 LAQSVkL~~~E~~vd~~ie~~~~i~~~Lak~G~i~lsrk~llk~iG~l~~~r~~inl~~~lLD~Pe~~We~p~le~lY~~ 302 (379)
|||||||++||+++++++++++++|+.|+++|+++++||+|+|++|+++..|+++|++.++||+||+||++|+|+++|++
T Consensus 80 LAqSv~L~~~E~~v~~~l~~~~~i~~~L~~~G~~~~~~k~l~k~~G~l~~~r~~i~l~~~ilD~Pe~~We~~~le~ly~~ 159 (175)
T PF02582_consen 80 LAQSVKLDFFEEQVDKLLEETEPIPEELAKTGKLPLSRKELLKLIGELFSLRHDINLNSDILDTPEFFWENPELEPLYER 159 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHHHHHhhhcccCchhccCChhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhchhhHHHHHHH
Q 017028 303 LREEYEVAQRFGNLDF 318 (379)
Q Consensus 303 l~~~~EI~~R~~~Ln~ 318 (379)
+++||||++|+++||+
T Consensus 160 l~~~lei~~R~~~Ln~ 175 (175)
T PF02582_consen 160 LRRYLEIKERIRILNE 175 (175)
T ss_pred HHHHcCHHHHHHHhcC
Confidence 9999999999999985
No 4
>PRK11085 magnesium/nickel/cobalt transporter CorA; Provisional
Probab=88.27 E-value=15 Score=36.84 Aligned_cols=145 Identities=16% Similarity=0.190 Sum_probs=83.6
Q ss_pred EEEecCCCchhHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCccc------HHHHHHHHHH
Q 017028 205 YIVLKNLDTDSVRVIGSVL---------GQSMALDYFVSQVDCLVEEFAGINRAMEKTGTFTMD------RTKLIQLVGK 269 (379)
Q Consensus 205 ~I~L~~~d~~~~~aiS~aL---------AQSVkL~~~E~~vd~~ie~~~~i~~~Lak~G~i~ls------rk~llk~iG~ 269 (379)
.|+++..++.....+...+ ++.+-+..+|..||.+.+.++.+-..|.+-++--+. =+++++.+|+
T Consensus 101 LvTvr~~~~~~f~~~~~r~~~~~~~~~~~~~vl~~Lld~iVd~~ad~lE~~~~~ld~ls~~if~~~~~~~~~~~l~~i~~ 180 (316)
T PRK11085 101 LFTLRERELPAFRLYRMRARSQTLVDGNAYELLLDLFETKIEQLADEIENIYSDLEKLSRVIMEGHQGDEYDEALSTLAE 180 (316)
T ss_pred EEEEecCCcchHHHHHHHHHhCCcccCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHH
Confidence 3566666665554443332 356888999999999998888887776655442221 1467777776
Q ss_pred HHH----HHHHhhhhccc---cccchhhhccchhHHHHHHHHHHhchhhHHHHHHHHHHHHHHHHHHHHHHHHhccccch
Q 017028 270 ANS----NLADVILKVGL---FERSEIAWRDAKYAQIYEYLREEYEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDLL 342 (379)
Q Consensus 270 l~~----~r~~inl~~~l---LD~Pe~~We~p~le~lY~~l~~~~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~rL 342 (379)
+-. .|..+.....+ +-++.- +.....+.+....++.-.+.++.+.+..|++.+.|....+.+.-+++-.-.|
T Consensus 181 l~~~~~~~r~~l~~~~r~l~~l~~~~~-~~~~~~~~~~~~~~Di~~l~~~~~~~~~~~~~l~d~~~~~i~~~~N~~mk~l 259 (316)
T PRK11085 181 LEDIGWKVRLCLMDTQRALNFLVRKAR-LPGGQLEQAREILRDIESLLPHNESLFQKVNFLMQAAMGFINIEQNRIIKIF 259 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc-CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 421 22222111111 112211 1223345566667777788888888888888887777666665555544444
Q ss_pred hHHHHHHH
Q 017028 343 EWCIIFLL 350 (379)
Q Consensus 343 EWIIIiLI 350 (379)
-.+-++++
T Consensus 260 Tv~s~if~ 267 (316)
T PRK11085 260 SVVSVVFL 267 (316)
T ss_pred HHHHHHHH
Confidence 43333333
No 5
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=86.00 E-value=4.4 Score=32.55 Aligned_cols=68 Identities=19% Similarity=0.255 Sum_probs=43.4
Q ss_pred EEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeC-ChHHH
Q 017028 87 VKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNI-EDHEV 164 (379)
Q Consensus 87 v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~-~~~e~ 164 (379)
|-.+.+.-.+||..++..+.. .+.|..+. .++++..+ ..-.+-+|+.|.|++-|. ++++.
T Consensus 10 va~~~l~~~idL~~la~~~~~~~YePe~fp---gl~~r~~~---------------p~~t~~IF~sGki~itGaks~~~~ 71 (86)
T PF00352_consen 10 VASFDLPFEIDLEELAEELENVEYEPERFP---GLIYRLRN---------------PKATVLIFSSGKIVITGAKSEEEA 71 (86)
T ss_dssp EEEEE-SSEB-HHHHHHHSTTEEEETTTES---SEEEEETT---------------TTEEEEEETTSEEEEEEESSHHHH
T ss_pred EEEEECCCccCHHHHHhhccCcEEeeccCC---eEEEeecC---------------CcEEEEEEcCCEEEEEecCCHHHH
Confidence 456789999999999998742 23444332 24444421 134689999999999998 66665
Q ss_pred HHHHHHHH
Q 017028 165 ENYLHIIR 172 (379)
Q Consensus 165 ~~~L~~L~ 172 (379)
...++.+.
T Consensus 72 ~~a~~~i~ 79 (86)
T PF00352_consen 72 KKAIEKIL 79 (86)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 55444443
No 6
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=73.79 E-value=17 Score=33.72 Aligned_cols=74 Identities=15% Similarity=0.181 Sum_probs=50.9
Q ss_pred eEEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCChHH-
Q 017028 86 PVKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIEDHE- 163 (379)
Q Consensus 86 ~v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~~e- 163 (379)
-|.+-.++.++||..++..+.- .++|..|.+ ++.|..+ -...+-||+.|-+|+=|..-.+
T Consensus 13 IVAS~~L~~elDL~~~~~~l~~aeYnP~qFpG---lv~Rl~e---------------Pk~a~LIF~SGK~VcTGaKs~ed 74 (185)
T COG2101 13 IVASVDLGQELDLEEVALDLPGAEYNPEQFPG---LVYRLEE---------------PKTAALIFRSGKVVCTGAKSVED 74 (185)
T ss_pred EEEEechhhhccHHHHHhhCCCCccCHhHCCe---eEEEecC---------------CcceEEEEecCcEEEeccCcHHH
Confidence 4666789999999999988763 456666642 5556532 1235889999999999987444
Q ss_pred ----HHHHHHHHHHhhcc
Q 017028 164 ----VENYLHIIRRHASG 177 (379)
Q Consensus 164 ----~~~~L~~L~~~~~~ 177 (379)
.+.+++.|+....+
T Consensus 75 ~~~av~~~~~~L~~~g~~ 92 (185)
T COG2101 75 VHRAVKKLAKKLKDGGID 92 (185)
T ss_pred HHHHHHHHHHHHHhcCcC
Confidence 34566666664443
No 7
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=72.69 E-value=81 Score=30.79 Aligned_cols=49 Identities=6% Similarity=-0.084 Sum_probs=27.2
Q ss_pred hhccchhHHHHHHHHH-HhchhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 290 AWRDAKYAQIYEYLRE-EYEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 290 ~We~p~le~lY~~l~~-~~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
-|-.++....+..+.+ .-.+.+..+.+.++++-+.+.+..+.+.-+++-
T Consensus 208 ~~~~~~~~~~~~dv~~~~~~l~~~~~~~~e~l~~l~d~~~~~~s~~~N~~ 257 (318)
T TIGR00383 208 PIQTEEVREYLRDIYDHILSLLEMIETYRELLSSLMDLYLSLVNNKMNEI 257 (318)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555443 334556666677777666666655555544443
No 8
>PRK09546 zntB zinc transporter; Reviewed
Probab=71.03 E-value=1.1e+02 Score=30.19 Aligned_cols=25 Identities=20% Similarity=0.151 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Q 017028 344 WCIIFLLTIENVISVYEIVRDSTGV 368 (379)
Q Consensus 344 WIIIiLI~vEIvl~l~~~~~~~~~~ 368 (379)
|.+++.|++=++++++-+|++.||+
T Consensus 300 y~~~l~im~~i~~~~~~~fkrk~Wl 324 (324)
T PRK09546 300 FSIFCLLLVVLIGGVAWWLKRSKWL 324 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccC
Confidence 4555555555566666666666663
No 9
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=63.79 E-value=40 Score=30.91 Aligned_cols=58 Identities=16% Similarity=0.263 Sum_probs=37.9
Q ss_pred EEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC-hHHHH
Q 017028 89 AYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE-DHEVE 165 (379)
Q Consensus 89 Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~-~~e~~ 165 (379)
...++..+||.+++..+.. .+.| .+. .+++|..+ -.-.+-+|+.|.+|+=|.. +++..
T Consensus 11 s~~l~~~idL~~la~~l~n~eYeP-~fp---gli~R~~~---------------Pk~t~lIF~sGKiviTGaks~~~~~ 70 (174)
T cd04517 11 QFSLRCHIDLRKLALAGRNVEYNP-RYP---KVTMRLRE---------------PRATASVWSSGKITITGATSEEEAK 70 (174)
T ss_pred EEEcCCcccHHHHHhhCCCCEEeC-CCC---EEEEEecC---------------CcEEEEEECCCeEEEEccCCHHHHH
Confidence 3448899999999876542 2344 433 24445432 1236889999999999995 44443
No 10
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=61.53 E-value=56 Score=29.95 Aligned_cols=69 Identities=16% Similarity=0.187 Sum_probs=45.9
Q ss_pred EEEeccCccChhhHHHHhh--cCCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCCh-HHH
Q 017028 88 KAYFLSTSIDLKSMQAENL--THVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIED-HEV 164 (379)
Q Consensus 88 ~Ay~lae~idL~~L~~~l~--~~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~-~e~ 164 (379)
-.+++.-.+||..++.... ..+.|..+. .+++|..+ ..-.+.+|..|.||+-|... ++.
T Consensus 100 at~~~~~~i~L~~la~~~~~~~~YePE~fP---gliyr~~~---------------p~~t~lIF~sGkivitGaks~~~~ 161 (174)
T cd04517 100 ATCSMPFPIRLDELAAKNRSSASYEPELHP---GVVYRITG---------------PRATLSIFSTGSVTVTGARSMEDV 161 (174)
T ss_pred EEEeCCCcccHHHHHHhchhhcEeCCccCC---EEEEEECC---------------CcEEEEEeCCCEEEEEecCCHHHH
Confidence 3566999999999987532 234454443 34455432 12358899999999999886 556
Q ss_pred HHHHHHHHHh
Q 017028 165 ENYLHIIRRH 174 (379)
Q Consensus 165 ~~~L~~L~~~ 174 (379)
...++.+.+.
T Consensus 162 ~~a~~~i~pi 171 (174)
T cd04517 162 REAVEKIYPI 171 (174)
T ss_pred HHHHHHHHHH
Confidence 6666666653
No 11
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=61.23 E-value=60 Score=29.69 Aligned_cols=71 Identities=14% Similarity=0.142 Sum_probs=47.3
Q ss_pred eEEEEeccCccChhhHHHHhhc--CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCCh-H
Q 017028 86 PVKAYFLSTSIDLKSMQAENLT--HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIED-H 162 (379)
Q Consensus 86 ~v~Ay~lae~idL~~L~~~l~~--~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~-~ 162 (379)
-|..+++.-.+||+.++..... .+.|..+. .+++|..+ ..-.+-+|..|.||+-|... +
T Consensus 98 Ivas~~l~~~i~L~~la~~~~~~~~YePe~fp---gli~r~~~---------------pk~t~lIF~sGkvvitGaks~~ 159 (174)
T cd00652 98 IVASCDLGFPIRLEELALKHPENASYEPELFP---GLIYRMDE---------------PKVVLLIFVSGKIVITGAKSRE 159 (174)
T ss_pred EEEEEECCCcccHHHHHhhhhcccEECCccCc---eEEEEecC---------------CcEEEEEEcCCEEEEEecCCHH
Confidence 3456779999999999987642 23454443 34555432 12368899999999999985 4
Q ss_pred HHHHHHHHHHHh
Q 017028 163 EVENYLHIIRRH 174 (379)
Q Consensus 163 e~~~~L~~L~~~ 174 (379)
+....++.+.+.
T Consensus 160 ~~~~a~~~i~~~ 171 (174)
T cd00652 160 DIYEAVEKIYPI 171 (174)
T ss_pred HHHHHHHHHHHH
Confidence 455555665543
No 12
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=60.77 E-value=49 Score=30.42 Aligned_cols=70 Identities=17% Similarity=0.203 Sum_probs=44.7
Q ss_pred EEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC-hHHH
Q 017028 87 VKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE-DHEV 164 (379)
Q Consensus 87 v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~-~~e~ 164 (379)
|-...++..+||..|+..+.. .+.|..+. .+++|..+ -...+-||+.|-+|+=|.. +++.
T Consensus 8 Vas~~l~~~ldL~~la~~~~n~eY~P~~fp---gli~Rl~~---------------Pk~t~lIF~SGKiv~tGaks~~~a 69 (174)
T cd04518 8 VASVDLGQELDLEKVAAELPNAEYNPDQFP---GLVYRLED---------------PKIAALIFRSGKMVCTGAKSVEDL 69 (174)
T ss_pred EEEEEcCCeecHHHHHhhCCCcEECCCcCc---EEEEEccC---------------CcEEEEEECCCeEEEEccCCHHHH
Confidence 456678899999999987542 23454433 24555432 1246889999999999994 4443
Q ss_pred H----HHHHHHHHh
Q 017028 165 E----NYLHIIRRH 174 (379)
Q Consensus 165 ~----~~L~~L~~~ 174 (379)
. .+++.|++.
T Consensus 70 ~~a~~~~~~~L~~~ 83 (174)
T cd04518 70 HRAVKEIIKKLKDY 83 (174)
T ss_pred HHHHHHHHHHHHhc
Confidence 3 344445443
No 13
>PRK00394 transcription factor; Reviewed
Probab=60.69 E-value=53 Score=30.31 Aligned_cols=68 Identities=15% Similarity=0.169 Sum_probs=43.3
Q ss_pred EEEeccCccChhhHHHHh--h-cCCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCChH-H
Q 017028 88 KAYFLSTSIDLKSMQAEN--L-THVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIEDH-E 163 (379)
Q Consensus 88 ~Ay~lae~idL~~L~~~l--~-~~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~~-e 163 (379)
-...++-.+||..++..+ . ..+.|..+. .++.|..+ ..-.+-+|+.|-||+=|.... +
T Consensus 99 as~~l~~~i~L~~la~~~~~~~~~YePe~fP---glvyR~~~---------------pk~~~lIF~SGKvvitGaks~~~ 160 (179)
T PRK00394 99 ASADLGVELNLNAIAIGLGLENIEYEPEQFP---GLVYRLDD---------------PKVVVLLFGSGKLVITGAKSEED 160 (179)
T ss_pred EEEEcCCeEcHHHHHHhcCcCCcEECcccCc---eEEEEecC---------------CcEEEEEEcCCEEEEEecCCHHH
Confidence 346789999999999876 2 123444443 24445431 123588999999999999644 4
Q ss_pred HHHHHHHHHH
Q 017028 164 VENYLHIIRR 173 (379)
Q Consensus 164 ~~~~L~~L~~ 173 (379)
...-++.+.+
T Consensus 161 ~~~a~~~i~~ 170 (179)
T PRK00394 161 AEKAVEKILE 170 (179)
T ss_pred HHHHHHHHHH
Confidence 4544555443
No 14
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=57.83 E-value=66 Score=29.55 Aligned_cols=66 Identities=12% Similarity=0.178 Sum_probs=42.2
Q ss_pred EEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCChHH-HH
Q 017028 88 KAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIEDHE-VE 165 (379)
Q Consensus 88 ~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~~e-~~ 165 (379)
-.+.++..+||..++..+.. .+.|..+. .+++|..+ ..-.+-+|+.|-||+=|....+ ..
T Consensus 100 as~~l~~~i~L~~la~~~~~~~YePe~fp---glvyR~~~---------------pk~~~lIF~SGKvvitGaks~~~~~ 161 (174)
T cd04518 100 ASADLGREVNLDAIAIGLPNAEYEPEQFP---GLVYRLDE---------------PKVVLLLFSSGKMVITGAKSEEDAK 161 (174)
T ss_pred EEEEcCCccCHHHHHhhCCCCccCcccCc---eEEEEecC---------------CcEEEEEeCCCEEEEEecCCHHHHH
Confidence 44568999999999876541 23444443 34555432 1235889999999999987554 44
Q ss_pred HHHHHH
Q 017028 166 NYLHII 171 (379)
Q Consensus 166 ~~L~~L 171 (379)
.-++.+
T Consensus 162 ~a~~~i 167 (174)
T cd04518 162 RAVEKL 167 (174)
T ss_pred HHHHHH
Confidence 444444
No 15
>PLN00062 TATA-box-binding protein; Provisional
Probab=56.28 E-value=67 Score=29.68 Aligned_cols=61 Identities=18% Similarity=0.284 Sum_probs=39.2
Q ss_pred EEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC-hHHH
Q 017028 87 VKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE-DHEV 164 (379)
Q Consensus 87 v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~-~~e~ 164 (379)
|-...++..+||.+|+..+.. .+.|..+. .+++|..+ . ...+-||+.|-+|+=|.. +++.
T Consensus 8 Vas~~l~~~idL~~la~~~~n~eYePe~fp---gli~Rl~~--------------P-k~t~lIF~SGKiviTGaks~e~a 69 (179)
T PLN00062 8 VSTVNLDCKLDLKKIALQARNAEYNPKRFA---AVIMRIRE--------------P-KTTALIFASGKMVCTGAKSEHDS 69 (179)
T ss_pred EEEEEcCCcccHHHHHhhCCCCEECCccCc---EEEEEeCC--------------C-cEEEEEECCCeEEEEecCCHHHH
Confidence 334558999999999976541 23444433 24445431 1 235889999999999984 5444
Q ss_pred H
Q 017028 165 E 165 (379)
Q Consensus 165 ~ 165 (379)
.
T Consensus 70 ~ 70 (179)
T PLN00062 70 K 70 (179)
T ss_pred H
Confidence 3
No 16
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=56.22 E-value=71 Score=29.24 Aligned_cols=70 Identities=14% Similarity=0.285 Sum_probs=43.5
Q ss_pred EEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeC-ChHHHH
Q 017028 88 KAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNI-EDHEVE 165 (379)
Q Consensus 88 ~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~-~~~e~~ 165 (379)
-...++..+||.+|+..+.. .+.|..+. .+++|..+ -...+-+|+.|.+|+=|. +.++..
T Consensus 9 as~~l~~~idL~~la~~~~n~~YePe~fp---gli~R~~~---------------P~~t~lIf~sGKivitGaks~~~~~ 70 (174)
T cd00652 9 ATVNLGCELDLRKIALAARNAEYNPKRFP---GVIMRLRE---------------PKTTALIFSSGKMVITGAKSEEDAK 70 (174)
T ss_pred EEEEcCCccCHHHHHhhCCCcEECCCccc---eEEEEcCC---------------CcEEEEEECCCEEEEEecCCHHHHH
Confidence 34458899999999987642 23454443 24445431 134688999999999997 455543
Q ss_pred ----HHHHHHHHhh
Q 017028 166 ----NYLHIIRRHA 175 (379)
Q Consensus 166 ----~~L~~L~~~~ 175 (379)
.+++.|++..
T Consensus 71 ~a~~~~~~~L~~~g 84 (174)
T cd00652 71 LAARKYARILQKLG 84 (174)
T ss_pred HHHHHHHHHHHHcC
Confidence 3444444433
No 17
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=56.09 E-value=79 Score=29.04 Aligned_cols=71 Identities=15% Similarity=0.116 Sum_probs=46.1
Q ss_pred eEEEEeccCccChhhHHHHhh--cCCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC-hH
Q 017028 86 PVKAYFLSTSIDLKSMQAENL--THVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE-DH 162 (379)
Q Consensus 86 ~v~Ay~lae~idL~~L~~~l~--~~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~-~~ 162 (379)
-|-.+++.-.+||..++.... ..+.|..+. .++.|..+ ..-.+-+|..|-||+=|.. ++
T Consensus 97 ivat~~l~~~i~L~~la~~~~~~~~YePE~fP---gliyr~~~---------------pk~~~liF~sGkvvitGaks~~ 158 (174)
T cd04516 97 IVGSCDVKFPIRLEGLAHAHKQFSSYEPELFP---GLIYRMVK---------------PKIVLLIFVSGKIVLTGAKSRE 158 (174)
T ss_pred EEEEEECCCcccHHHHHHhChhccEeCCccCc---eEEEEecC---------------CcEEEEEeCCCEEEEEecCCHH
Confidence 345567999999999997432 133454443 24444431 1235889999999999995 55
Q ss_pred HHHHHHHHHHHh
Q 017028 163 EVENYLHIIRRH 174 (379)
Q Consensus 163 e~~~~L~~L~~~ 174 (379)
+....++.+.|.
T Consensus 159 ~~~~a~~~i~p~ 170 (174)
T cd04516 159 EIYQAFENIYPI 170 (174)
T ss_pred HHHHHHHHHHHH
Confidence 566666666653
No 18
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=54.79 E-value=71 Score=30.20 Aligned_cols=59 Identities=14% Similarity=0.097 Sum_probs=27.8
Q ss_pred chhhhccchhHHHHHHHHHHh-chhhHHHHHHHHHHHHHHHHHHHHHHHHhccccchhHH
Q 017028 287 SEIAWRDAKYAQIYEYLREEY-EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDLLEWC 345 (379)
Q Consensus 287 Pe~~We~p~le~lY~~l~~~~-EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~rLEWI 345 (379)
....|-.++....+..+.+.+ .+.++.+.+..+++-+.+......+.-+++...+|-++
T Consensus 181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~n~~m~~LT~~ 240 (292)
T PF01544_consen 181 DDSPFISDEDKEYLRDLLDRIERLLERAESLRERLESLQDLYQSKLSNRQNRVMKVLTIV 240 (292)
T ss_dssp CCSTTSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455544433333332222 24555666666655555555555444445544444333
No 19
>PRK00394 transcription factor; Reviewed
Probab=54.72 E-value=79 Score=29.15 Aligned_cols=70 Identities=14% Similarity=0.179 Sum_probs=44.4
Q ss_pred EEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCC-hHHH
Q 017028 87 VKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIE-DHEV 164 (379)
Q Consensus 87 v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~-~~e~ 164 (379)
|....++..+||.+|+..+.. .+.|..+. .+++|..+ -...+-||+.|-+|+=|.. +++.
T Consensus 7 Vas~~l~~~ldL~~la~~~~n~eYePe~fp---gli~Rl~~---------------Pk~t~lIf~sGKiv~tGa~S~~~a 68 (179)
T PRK00394 7 VASTDLGQELDLEKVAEDLPNAEYNPEQFP---GLVYRLED---------------PKIAALIFRSGKVVCTGAKSVEDL 68 (179)
T ss_pred EEEEEcCCCcCHHHHHhhCCCceeCcccCc---eEEEEecC---------------CceEEEEEcCCcEEEEccCCHHHH
Confidence 556778999999999977642 23454433 24455431 1246889999999999965 4443
Q ss_pred ----HHHHHHHHHh
Q 017028 165 ----ENYLHIIRRH 174 (379)
Q Consensus 165 ----~~~L~~L~~~ 174 (379)
..+++.|++.
T Consensus 69 ~~a~~~~~~~l~~~ 82 (179)
T PRK00394 69 HEAVKIIIKKLKEL 82 (179)
T ss_pred HHHHHHHHHHHHHc
Confidence 3344445443
No 20
>PLN00062 TATA-box-binding protein; Provisional
Probab=52.84 E-value=1.1e+02 Score=28.33 Aligned_cols=71 Identities=14% Similarity=0.088 Sum_probs=45.5
Q ss_pred eEEEEeccCccChhhHHHHhh--cCCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCCh-H
Q 017028 86 PVKAYFLSTSIDLKSMQAENL--THVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIED-H 162 (379)
Q Consensus 86 ~v~Ay~lae~idL~~L~~~l~--~~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~-~ 162 (379)
-|-.+++.-.+||..|+.... ..+.|..+. .++.|..+ ..-.+-+|..|-||+=|... +
T Consensus 97 Ivas~~l~~~i~L~~la~~~~~~~~YePE~fP---gliyr~~~---------------pk~~~liF~sGkvvitGaks~~ 158 (179)
T PLN00062 97 IVGSCDVKFPIRLEGLAYAHGAFSSYEPELFP---GLIYRMKQ---------------PKIVLLIFVSGKIVITGAKVRE 158 (179)
T ss_pred EEEEEECCCcccHHHHHHhchhhcccCcccCc---eEEEEeCC---------------CcEEEEEeCCCEEEEEecCCHH
Confidence 345677999999999986422 234555443 24555432 12357899999999999984 4
Q ss_pred HHHHHHHHHHHh
Q 017028 163 EVENYLHIIRRH 174 (379)
Q Consensus 163 e~~~~L~~L~~~ 174 (379)
+....++.+.|.
T Consensus 159 ~~~~ai~~i~p~ 170 (179)
T PLN00062 159 EIYTAFENIYPV 170 (179)
T ss_pred HHHHHHHHHHHH
Confidence 455555555543
No 21
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=49.69 E-value=1.6e+02 Score=27.01 Aligned_cols=59 Identities=17% Similarity=0.232 Sum_probs=38.3
Q ss_pred EEEEeccCccChhhHHHHhhc-CCCCCCCCCCcceEEEecCCCcccccccccCCCCceeEEEEEcCCcEEEEeCChHH
Q 017028 87 VKAYFLSTSIDLKSMQAENLT-HVVPPSSRSTKYIALRYSDFPSEISALGVHGNVSHCRYMVVFHYGSAVLFNIEDHE 163 (379)
Q Consensus 87 v~Ay~lae~idL~~L~~~l~~-~~~p~~~~~~~~l~l~~~~~~~~~~~~~~~~~~~~~~~vfiF~yGvVVfwn~~~~e 163 (379)
|-...++..+||.+++..+.. .+.|..+. .+++|..+ -...+-+|+.|-+|+=|....+
T Consensus 8 Vas~~l~~~idL~~la~~~~n~eYePe~fp---gli~Rl~~---------------Pk~t~lIF~SGKiviTGaks~e 67 (174)
T cd04516 8 VATVNLGCKLDLKKIALRARNAEYNPKRFA---AVIMRIRE---------------PKTTALIFSSGKMVCTGAKSED 67 (174)
T ss_pred EEEEEcCCeecHHHHHhhCCCCEECCccCc---EEEEEeCC---------------CcEEEEEECCCeEEEEecCCHH
Confidence 344558899999999976642 33454433 34555431 1235889999999999965443
No 22
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=47.95 E-value=2.9e+02 Score=27.39 Aligned_cols=125 Identities=11% Similarity=0.077 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHhcC-CC-cccHHHHHHHHHHH----HHHHHHhhhhc----cccccchhhhcc
Q 017028 224 GQSMALDYFVSQVDCLVEEFAGINRAMEKTG-TF-TMDRTKLIQLVGKA----NSNLADVILKV----GLFERSEIAWRD 293 (379)
Q Consensus 224 AQSVkL~~~E~~vd~~ie~~~~i~~~Lak~G-~i-~lsrk~llk~iG~l----~~~r~~inl~~----~lLD~Pe~~We~ 293 (379)
+..+.+..++..++.+.+-++.+-.++..-. ++ .-.+++.++.++++ ...|..+.... .+...+.. |-.
T Consensus 137 ~~~l~~~lld~i~d~~~~~le~i~~~~~~ie~~l~~~~~~~~l~~l~~l~~~l~~lr~~l~~~~~~l~~l~~~~~~-~~~ 215 (322)
T COG0598 137 ADELLYALLDAIVDNYFPVLEQIEDELEAIEDQLLASTTNEELERLGELRRSLVYLRRALAPLRDVLLRLARRPLD-WLS 215 (322)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcCcc-cCC
Confidence 3456666777777777666655554443321 11 11223444444443 11222222111 11222222 666
Q ss_pred chhHHHHHHHHHH-hchhhHHHHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHHH
Q 017028 294 AKYAQIYEYLREE-YEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDLLEWCIIFL 349 (379)
Q Consensus 294 p~le~lY~~l~~~-~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~rLEWIIIiL 349 (379)
++.+.+++.+.+. -.+.++.+.+.++++-+.+.+..+...-+|+.--.|-++=+++
T Consensus 216 ~~~~~~l~dv~~~~~~~~~~~~~~~~~l~~l~d~~~s~is~~~N~imk~LTi~s~if 272 (322)
T COG0598 216 EEDREYLRDVLDHLTQLIEMLEALRERLSSLLDAYLSLINNNQNEIMKILTIVSTIF 272 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6555555544443 3455677777777777666665555554444444443333333
No 23
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=38.94 E-value=66 Score=22.15 Aligned_cols=28 Identities=11% Similarity=0.367 Sum_probs=22.3
Q ss_pred eEEEEEcCCcEEEEe-CChHHHHHHHHHH
Q 017028 144 RYMVVFHYGSAVLFN-IEDHEVENYLHII 171 (379)
Q Consensus 144 ~~vfiF~yGvVVfwn-~~~~e~~~~L~~L 171 (379)
.-+-||-.|.|..+| ++++..+.++...
T Consensus 6 ~qLTIfY~G~V~Vfd~v~~~Ka~~im~lA 34 (36)
T PF06200_consen 6 AQLTIFYGGQVCVFDDVPPDKAQEIMLLA 34 (36)
T ss_pred CcEEEEECCEEEEeCCCCHHHHHHHHHHh
Confidence 347788899998888 9999888877643
No 24
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=36.97 E-value=1.1e+02 Score=25.68 Aligned_cols=42 Identities=17% Similarity=0.145 Sum_probs=29.3
Q ss_pred chhHHHHHHHHHHhchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 017028 294 AKYAQIYEYLREEYEVAQRFGNLDFKLKFVEHNIHFLQEVIQ 335 (379)
Q Consensus 294 p~le~lY~~l~~~~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~ 335 (379)
.+-|++|.+.+.|+++++|.+-....|.--.+-+....+.|.
T Consensus 50 ~~~e~~Y~Qs~~Yv~~NerLqqa~~~Lkkk~e~L~~age~Le 91 (97)
T PF15136_consen 50 SEREQQYQQSRTYVAMNERLQQARDQLKKKCEELRQAGEELE 91 (97)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999987665555444444444444443
No 25
>PRK00736 hypothetical protein; Provisional
Probab=36.89 E-value=64 Score=25.06 Aligned_cols=31 Identities=16% Similarity=0.339 Sum_probs=27.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
.+.+|+.-|+.|+.+..++++-|++.+..+.
T Consensus 2 ~~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq 32 (68)
T PRK00736 2 DAEERLTELEIRVAEQEKTIEELSDQLAEQW 32 (68)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999988654
No 26
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=36.62 E-value=63 Score=25.02 Aligned_cols=29 Identities=31% Similarity=0.582 Sum_probs=26.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 017028 309 VAQRFGNLDFKLKFVEHNIHFLQEVIQNR 337 (379)
Q Consensus 309 I~~R~~~Ln~KL~~i~e~~~~L~e~l~~~ 337 (379)
+.+|+..|+.|+.+..++++-|++.+..+
T Consensus 2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Q 30 (69)
T PF04102_consen 2 LEERIEELEIKLAFQEDTIEELNDVVTEQ 30 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999998753
No 27
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=35.64 E-value=94 Score=27.25 Aligned_cols=45 Identities=20% Similarity=0.241 Sum_probs=36.5
Q ss_pred hhHHHHHHHHHH-hchhhHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 017028 295 KYAQIYEYLREE-YEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRS 339 (379)
Q Consensus 295 ~le~lY~~l~~~-~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s 339 (379)
+|+++|+.+... =++.+|++.|+.|++-..++.+...+.+..-++
T Consensus 51 ql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~ 96 (126)
T PF07889_consen 51 QLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVRE 96 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 577788777653 356799999999999999999999998876544
No 28
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=35.22 E-value=1.4e+02 Score=27.24 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=38.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDLLEWCIIFLLTIENVISVYEIVRDSTG 367 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~rLEWIIIiLI~vEIvl~l~~~~~~~~~ 367 (379)
.+.++.+.+.+.|+-+++.-..+.+. .++++.|+=|....++++..++-.+=-|...+|
T Consensus 61 ~l~~~l~~~~~el~~le~~k~~id~~-A~~~~~~~~w~gl~~l~~q~~~l~rLTf~e~sW 119 (180)
T PF04678_consen 61 QLRKRLEELRQELAPLEKIKQEIDEK-AEKRARRLLWGGLALLVVQFGILARLTFWEYSW 119 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 34455555555555555444444333 348888999999999999888777655555554
No 29
>PRK02119 hypothetical protein; Provisional
Probab=34.12 E-value=66 Score=25.38 Aligned_cols=31 Identities=19% Similarity=0.456 Sum_probs=27.9
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
++.+|+.-|+.|+.+-.++++-|++.+..+.
T Consensus 6 ~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq 36 (73)
T PRK02119 6 NLENRIAELEMKIAFQENLLEELNQALIEQQ 36 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999999999999998654
No 30
>PRK02793 phi X174 lysis protein; Provisional
Probab=33.27 E-value=74 Score=24.99 Aligned_cols=31 Identities=23% Similarity=0.373 Sum_probs=27.9
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
++.+|+.-|+.|+.+-.++++-|++.+..+.
T Consensus 5 ~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq 35 (72)
T PRK02793 5 SLEARLAELESRLAFQEITIEELNVTVTAHE 35 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3679999999999999999999999998654
No 31
>PRK04406 hypothetical protein; Provisional
Probab=31.18 E-value=77 Score=25.18 Aligned_cols=31 Identities=23% Similarity=0.538 Sum_probs=27.9
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
.+.+|+.-|+.|+.+..++++-|++.+..+.
T Consensus 8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq 38 (75)
T PRK04406 8 QLEERINDLECQLAFQEQTIEELNDALSQQQ 38 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4779999999999999999999999988654
No 32
>PRK00295 hypothetical protein; Provisional
Probab=30.98 E-value=92 Score=24.19 Aligned_cols=31 Identities=19% Similarity=0.441 Sum_probs=27.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
.+.+|+.-|+.|+.+..++++-|++.+..+.
T Consensus 2 ~~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq 32 (68)
T PRK00295 2 SLEERVTELESRQAFQDDTIQALNDVLVEQQ 32 (68)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999999999999988654
No 33
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=30.71 E-value=5.1e+02 Score=31.88 Aligned_cols=138 Identities=15% Similarity=0.184 Sum_probs=83.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCc---------------------ccHHHHHHHHHHHHHHHHH
Q 017028 218 VIGSVLGQSMALDYFVSQVDCLVEEFAGINRAMEKTGTFT---------------------MDRTKLIQLVGKANSNLAD 276 (379)
Q Consensus 218 aiS~aLAQSVkL~~~E~~vd~~ie~~~~i~~~Lak~G~i~---------------------lsrk~llk~iG~l~~~r~~ 276 (379)
++.+.-.|+.+|+.=|.+....++....+.+.|++.|.+. ++|-+|+-+++-.=....+
T Consensus 1132 VL~~N~~Q~~alsl~~~~~~~~~~~~~r~~~~Le~~g~Ldr~~e~lP~~~~l~~r~~~g~gltrPelavLlay~K~~l~~ 1211 (1528)
T PF05088_consen 1132 VLRDNYRQTLALSLAERRAAERLEEHQRLIERLEREGRLDRELEFLPSDEELAERAAAGQGLTRPELAVLLAYAKIFLKD 1211 (1528)
T ss_pred HHHhHHHHHHHHHHHHHhhhccHHHHHHHHHHHHhcCCCChhhcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHH
Confidence 5678888999999999999999999999999999999762 4445555444443333344
Q ss_pred hhhhccccccchhhhccchhHHHHHHHHHHhc--hhhHH--HHHHHHHH-------HHHHHH----HHHHHHHHhccccc
Q 017028 277 VILKVGLFERSEIAWRDAKYAQIYEYLREEYE--VAQRF--GNLDFKLK-------FVEHNI----HFLQEVIQNRRSDL 341 (379)
Q Consensus 277 inl~~~lLD~Pe~~We~p~le~lY~~l~~~~E--I~~R~--~~Ln~KL~-------~i~e~~----~~L~e~l~~~~s~r 341 (379)
-.+.+++.|.|-+ ...| .+||= +.+|+ .+.+|+|. +..+++ -++--.+.+..+..
T Consensus 1212 ~l~~s~l~d~~~~---~~~l-------~~yFP~~l~~~f~~~i~~H~L~reIiaT~~~N~ivn~~G~tf~~r~~~~~g~~ 1281 (1528)
T PF05088_consen 1212 ELLASDLPDDPYF---ARYL-------ENYFPKPLRERFADEILNHPLRREIIATQLANDIVNRMGITFVFRLEEETGAS 1281 (1528)
T ss_pred HHhcCCCCCCHHH---HHHH-------HHhCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHccCHHHHHHHHHHHCcC
Confidence 4444555555522 3333 34442 23333 45566554 111111 12223344555666
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHh
Q 017028 342 LEWCIIFLLTIENVISVYEIVRDS 365 (379)
Q Consensus 342 LEWIIIiLI~vEIvl~l~~~~~~~ 365 (379)
.+=++-.-+++.-++.+-.++...
T Consensus 1282 ~~~v~~a~~~a~~~f~~~~l~~~i 1305 (1528)
T PF05088_consen 1282 PADVARAYLIAREIFGLDALWDEI 1305 (1528)
T ss_pred HHHHHHHHHHHHHHhCcHHHHHHH
Confidence 666666666677777777666554
No 34
>PRK04325 hypothetical protein; Provisional
Probab=30.59 E-value=86 Score=24.76 Aligned_cols=30 Identities=23% Similarity=0.417 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 309 VAQRFGNLDFKLKFVEHNIHFLQEVIQNRR 338 (379)
Q Consensus 309 I~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~ 338 (379)
+.+|+.-|+.|+.+-.++++-|++.+..+.
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq 36 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNATVARQQ 36 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999999999998754
No 35
>KOG1690 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.45 E-value=2.4e+02 Score=26.90 Aligned_cols=65 Identities=14% Similarity=0.314 Sum_probs=40.5
Q ss_pred hHHHHHHHHHHhch-hhHHHHHHHHHHHHHHHHH-------HHHHHHHhccccchhHHHHHHHHHHHHHHHHHH
Q 017028 296 YAQIYEYLREEYEV-AQRFGNLDFKLKFVEHNIH-------FLQEVIQNRRSDLLEWCIIFLLTIENVISVYEI 361 (379)
Q Consensus 296 le~lY~~l~~~~EI-~~R~~~Ln~KL~~i~e~~~-------~L~e~l~~~~s~rLEWIIIiLI~vEIvl~l~~~ 361 (379)
-+.+|.+..+..++ ..|++.||.|+.-|+.-.+ .+++....-.|.-+=|.|+= +++=++..+++|
T Consensus 130 ~a~l~a~~ke~~k~l~~Rv~~L~~~~~~IrkEQ~~~R~RE~~FR~tSES~NsRvm~Wsv~Q-~vvL~~tc~wQm 202 (215)
T KOG1690|consen 130 HANLDAQIKETDKLLEGRVRQLNSRLESIRKEQNLQREREETFRDTSESANSRVMWWSVAQ-LVVLLVTCIWQM 202 (215)
T ss_pred hhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcceeeehhHHH-HHHHHHHHHHHH
Confidence 45566666665554 4699999999886665444 45555566666666665544 444455566654
No 36
>PHA02650 hypothetical protein; Provisional
Probab=28.24 E-value=2.3e+02 Score=23.04 Aligned_cols=16 Identities=13% Similarity=0.243 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHhc
Q 017028 322 FVEHNIHFLQEVIQNR 337 (379)
Q Consensus 322 ~i~e~~~~L~e~l~~~ 337 (379)
=..+.+++.+..++.+
T Consensus 19 DFnnFI~VVkSVLtD~ 34 (81)
T PHA02650 19 DFNNFIDVVKSVLSDE 34 (81)
T ss_pred HHHHHHHHHHHHHcCC
Confidence 3455667777777664
No 37
>PRK00846 hypothetical protein; Provisional
Probab=24.51 E-value=1.3e+02 Score=24.23 Aligned_cols=30 Identities=23% Similarity=0.422 Sum_probs=27.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 017028 308 EVAQRFGNLDFKLKFVEHNIHFLQEVIQNR 337 (379)
Q Consensus 308 EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~ 337 (379)
++.+|+..|+.|+.+-.++++-|++.+..+
T Consensus 10 ~le~Ri~~LE~rlAfQe~tIe~LN~~v~~q 39 (77)
T PRK00846 10 ALEARLVELETRLSFQEQALTELSEALADA 39 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577999999999999999999999998763
No 38
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=23.95 E-value=5.9e+02 Score=24.70 Aligned_cols=24 Identities=4% Similarity=0.022 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 017028 344 WCIIFLLTIENVISVYEIVRDSTG 367 (379)
Q Consensus 344 WIIIiLI~vEIvl~l~~~~~~~~~ 367 (379)
|.+++++++=+++.++=+|.+.||
T Consensus 294 y~~~l~~m~~i~~~~~~~fkrk~W 317 (318)
T TIGR00383 294 YPAVLIVMAVIALGPLIYFRRKGW 317 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCC
Confidence 344444444445555555555555
No 39
>PF12998 ING: Inhibitor of growth proteins N-terminal histone-binding; InterPro: IPR024610 Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail. This entry represents the N-terminal histone binding domain found in inhibitor proteins.; PDB: 4AFL_A.
Probab=23.67 E-value=3.6e+02 Score=21.59 Aligned_cols=95 Identities=9% Similarity=0.149 Sum_probs=46.2
Q ss_pred HHHHHHHHHHhHHHHHHhcCCCcccHHHHHHHHHHHHHH-HHHhhhhccccccchhhhccchhHHHHHHHHHHhchhhHH
Q 017028 235 QVDCLVEEFAGINRAMEKTGTFTMDRTKLIQLVGKANSN-LADVILKVGLFERSEIAWRDAKYAQIYEYLREEYEVAQRF 313 (379)
Q Consensus 235 ~vd~~ie~~~~i~~~Lak~G~i~lsrk~llk~iG~l~~~-r~~inl~~~lLD~Pe~~We~p~le~lY~~l~~~~EI~~R~ 313 (379)
-++++++.+..+|..|.+.-.. |...+ ...-..... ...+.-.......| -+..+.-..++..+.+.++- =.
T Consensus 2 ~le~f~d~~~~LP~el~r~l~~-irelD--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~I~~~~~~--~~ 74 (105)
T PF12998_consen 2 YLEDFLDSLENLPAELQRNLTL-IRELD--AKSQDLLEELDQQIQKFIKNHGSP--SLSPEKRRELLKEIQEEYER--AL 74 (105)
T ss_dssp HHHHHHTSGGGHHHHHHHHHHH-HHHHH--HHHHHHHHHHHHHHHHHHTCTTS----S-HHHHHHHHHHHHHHHHH--HH
T ss_pred cHHHHHHHHHHChHHHHHHHHH-HHHhh--hhHHHHHHHHHHHHHHHHhhcccc--cCChHHHHHHHHHHHHHHHH--HH
Confidence 4688899999999998763210 11110 011111111 11111111111221 11122334444444443322 24
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 017028 314 GNLDFKLKFVEHNIHFLQEVIQN 336 (379)
Q Consensus 314 ~~Ln~KL~~i~e~~~~L~e~l~~ 336 (379)
...++|+.++..+++++..++..
T Consensus 75 ~l~deKv~lA~~~~d~v~~hi~r 97 (105)
T PF12998_consen 75 ELSDEKVALAQQAYDLVDRHIRR 97 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999999877653
No 40
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=23.66 E-value=1.9e+02 Score=30.79 Aligned_cols=87 Identities=13% Similarity=0.298 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHhcCCCcc-----cHHHHHHHHHHHHHHHHHhhhhccccccchhhhccchhHHHHHH
Q 017028 228 ALDYFVSQVDCLVEEFAGINRAMEKTGTFTM-----DRTKLIQLVGKANSNLADVILKVGLFERSEIAWRDAKYAQIYEY 302 (379)
Q Consensus 228 kL~~~E~~vd~~ie~~~~i~~~Lak~G~i~l-----srk~llk~iG~l~~~r~~inl~~~lLD~Pe~~We~p~le~lY~~ 302 (379)
+|..=|..+-++++..-.+.+. |.++.. ..|.+.+.+-++......+..-.+. ..=.-++++..+..-=+-
T Consensus 9 RLt~~ERk~LrLLEAAL~VSEY---TDkVDi~s~~sk~kRi~~qlkeicsiLsGLvvA~d~-k~Gq~L~~~kdf~~n~~f 84 (458)
T PF09418_consen 9 RLTYEERKLLRLLEAALNVSEY---TDKVDIISYKSKAKRIVEQLKEICSILSGLVVASDY-KKGQKLLEDKDFSDNAEF 84 (458)
T ss_pred cCCHHHHHHHHHHHHHhhhhhC---cCccchhccCCHHHHHHHHHHHHHHHHHHHHHHccH-HHhhHHhcCCChHHHHHH
Confidence 4555566666666665554443 333332 3356666777777776666654443 112223443333333334
Q ss_pred HHHHhchhhHHHHHHH
Q 017028 303 LREEYEVAQRFGNLDF 318 (379)
Q Consensus 303 l~~~~EI~~R~~~Ln~ 318 (379)
..+.|||..|++++|=
T Consensus 85 fQ~vFEIgRRYKIMNP 100 (458)
T PF09418_consen 85 FQDVFEIGRRYKIMNP 100 (458)
T ss_pred HHHHHHHHHHHhhhCH
Confidence 4667999999999994
No 41
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=23.28 E-value=3.4e+02 Score=21.59 Aligned_cols=50 Identities=18% Similarity=0.153 Sum_probs=25.2
Q ss_pred HHhchhhHHHHHHHHHHHHHHHHHHHHHHHHhccccc-------hhHHHHHHHHHHHHHHHHHH
Q 017028 305 EEYEVAQRFGNLDFKLKFVEHNIHFLQEVIQNRRSDL-------LEWCIIFLLTIENVISVYEI 361 (379)
Q Consensus 305 ~~~EI~~R~~~Ln~KL~~i~e~~~~L~e~l~~~~s~r-------LEWIIIiLI~vEIvl~l~~~ 361 (379)
++=++..|.+-+++|+ ++...++.++-+-+ |-=++|.||+.=|...+.-+
T Consensus 16 dfne~~kRLdeieekv-------ef~~~Ev~Qr~GkkiGRDIGILYGlVIGlil~~i~~~l~~~ 72 (75)
T COG4064 16 DFNEIHKRLDEIEEKV-------EFVNGEVYQRIGKKIGRDIGILYGLVIGLILCMIYILLGVA 72 (75)
T ss_pred HHHHHHHHHHHHHHHH-------HhhHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555554 45555555444433 44456666665555554443
No 42
>PHA02844 putative transmembrane protein; Provisional
Probab=23.07 E-value=2.5e+02 Score=22.53 Aligned_cols=38 Identities=8% Similarity=0.033 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHhc--------cccchhHHHHHHHHHHHHHHHH
Q 017028 322 FVEHNIHFLQEVIQNR--------RSDLLEWCIIFLLTIENVISVY 359 (379)
Q Consensus 322 ~i~e~~~~L~e~l~~~--------~s~rLEWIIIiLI~vEIvl~l~ 359 (379)
=..+-+++.+..++.+ +....-|++|++|++=+++.++
T Consensus 19 DFnnFI~vVksVLtd~~~s~~~~~~~~~~~~~~ii~i~~v~~~~~~ 64 (75)
T PHA02844 19 DFNNFIDVVKSVLSDDYDGVNKNNVCSSSTKIWILTIIFVVFATFL 64 (75)
T ss_pred HHHHHHHHHHHHHcCCCCCccccccCChhHHHHHHHHHHHHHHHHH
Confidence 3456677777777765 3234444444444444444443
No 43
>PF07303 Occludin_ELL: Occludin homology domain; InterPro: IPR010844 This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA []. This shared domain is thought to mediate protein interactions [].; PDB: 1WPA_A 3G7C_A 1XAW_A.
Probab=22.18 E-value=3.2e+02 Score=22.86 Aligned_cols=39 Identities=23% Similarity=0.134 Sum_probs=29.1
Q ss_pred hccchhH---HHHHHH----HHHhchhhHHHHHHHHHHHHHHHHHH
Q 017028 291 WRDAKYA---QIYEYL----REEYEVAQRFGNLDFKLKFVEHNIHF 329 (379)
Q Consensus 291 We~p~le---~lY~~l----~~~~EI~~R~~~Ln~KL~~i~e~~~~ 329 (379)
|+....+ .=|..+ -.|.+-+.|..-|-.||.+|..++.-
T Consensus 53 ~ey~~i~~I~~eY~k~Kk~~p~y~~~K~Rc~yL~~KL~HIK~~I~~ 98 (101)
T PF07303_consen 53 QEYKRIAQILQEYNKKKKRDPNYQEKKKRCEYLHNKLSHIKQLIQD 98 (101)
T ss_dssp HHHHHHH---HHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444 556666 46888999999999999999887654
No 44
>PRK06746 peptide chain release factor 2; Provisional
Probab=20.08 E-value=1.8e+02 Score=29.58 Aligned_cols=45 Identities=16% Similarity=0.251 Sum_probs=32.2
Q ss_pred cchhhhccc-hhHHHHHHHHHHhchhhHHHHHHHHHHHHHHHHHHHH
Q 017028 286 RSEIAWRDA-KYAQIYEYLREEYEVAQRFGNLDFKLKFVEHNIHFLQ 331 (379)
Q Consensus 286 ~Pe~~We~p-~le~lY~~l~~~~EI~~R~~~Ln~KL~~i~e~~~~L~ 331 (379)
.|+ ||+++ .+.++...+.+.-++-..++.+.+..+-+.++.+++.
T Consensus 3 ~~~-fw~d~~~~~~~~ke~~~l~~~v~~~~~~~~~~~d~~~~~el~~ 48 (326)
T PRK06746 3 GAG-FWDDQQGAQAVINEANALKDMVGKFRQLDETFENLEITHELLK 48 (326)
T ss_pred CCc-hhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467 69887 4677777777777777777777777777776666653
Done!