Query 016474
Match_columns 389
No_of_seqs 194 out of 495
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 07:11:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016474.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016474hhsearch_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 3.1E-59 6.6E-64 454.5 19.1 251 117-385 55-328 (331)
2 KOG2861 Uncharacterized conser 100.0 3E-55 6.4E-60 440.9 23.0 262 120-387 93-397 (399)
3 PF02582 DUF155: Uncharacteris 100.0 4.2E-40 9.1E-45 299.6 13.3 151 187-337 1-175 (175)
4 PRK11085 magnesium/nickel/coba 84.0 11 0.00024 38.0 11.0 123 243-366 129-264 (316)
5 PRK09546 zntB zinc transporter 76.8 72 0.0016 31.8 13.9 132 250-386 154-323 (324)
6 TIGR00383 corA magnesium Mg(2+ 75.0 43 0.00093 32.9 11.7 77 310-386 209-317 (318)
7 PF01544 CorA: CorA-like Mg2+ 63.3 27 0.00058 33.1 7.2 61 315-378 194-254 (292)
8 COG0598 CorA Mg2+ and Co2+ tra 49.2 2.5E+02 0.0055 28.0 11.8 55 310-364 213-268 (322)
9 PF00352 TBP: Transcription fa 45.0 59 0.0013 26.2 5.4 59 122-205 10-70 (86)
10 PF09418 DUF2009: Protein of u 39.3 52 0.0011 35.2 5.2 87 247-337 9-100 (458)
11 PF12998 ING: Inhibitor of gro 37.2 1.6E+02 0.0034 24.0 6.9 23 332-354 74-96 (105)
12 PHA02844 putative transmembran 32.3 1.3E+02 0.0029 24.5 5.4 39 341-379 19-65 (75)
13 PF15136 UPF0449: Uncharacteri 30.9 1.3E+02 0.0027 25.8 5.3 42 313-354 50-91 (97)
14 PHA02819 hypothetical protein; 29.4 1.1E+02 0.0025 24.7 4.5 62 316-379 2-63 (71)
15 PF08702 Fib_alpha: Fibrinogen 28.0 4.5E+02 0.0098 23.7 10.2 103 247-369 26-131 (146)
16 PF04102 SlyX: SlyX; InterPro 27.9 97 0.0021 24.3 3.9 29 328-356 2-30 (69)
17 PHA03054 IMV membrane protein; 26.9 2E+02 0.0043 23.4 5.4 56 316-379 2-65 (72)
18 PRK00736 hypothetical protein; 26.4 1.1E+02 0.0025 24.0 4.1 31 327-357 2-32 (68)
19 PHA02650 hypothetical protein; 25.5 2.1E+02 0.0045 23.7 5.4 16 341-356 19-34 (81)
20 PF04678 DUF607: Protein of un 25.5 2.7E+02 0.0058 25.7 7.0 58 328-386 62-119 (180)
21 cd04517 TLF TBP-like factors ( 25.4 98 0.0021 28.7 4.1 54 124-203 11-65 (174)
22 PRK02119 hypothetical protein; 25.3 1E+02 0.0022 24.6 3.7 31 327-357 6-36 (73)
23 PRK02793 phi X174 lysis protei 25.0 1.1E+02 0.0023 24.4 3.7 31 327-357 5-35 (72)
24 cd04518 TBP_archaea archaeal T 24.9 2E+02 0.0044 26.7 6.1 57 122-203 8-65 (174)
25 PRK00394 transcription factor; 24.2 2.3E+02 0.0051 26.3 6.4 58 122-204 7-65 (179)
26 PF05659 RPW8: Arabidopsis bro 24.1 5.3E+02 0.012 23.2 11.9 109 236-347 20-135 (147)
27 PRK04406 hypothetical protein; 23.8 1.1E+02 0.0024 24.6 3.6 31 327-357 8-38 (75)
28 cd04518 TBP_archaea archaeal T 23.0 2.8E+02 0.0061 25.7 6.6 59 122-205 99-158 (174)
29 PF05088 Bac_GDH: Bacterial NA 22.9 1.1E+03 0.025 29.3 13.1 138 236-381 1131-1302(1528)
30 PRK00295 hypothetical protein; 22.6 1.4E+02 0.0031 23.5 4.0 31 327-357 2-32 (68)
31 PRK04325 hypothetical protein; 22.5 1.3E+02 0.0028 24.1 3.7 31 327-357 6-36 (74)
32 cd00652 TBP_TLF TATA box bindi 22.3 2.5E+02 0.0054 25.9 6.1 59 122-205 8-67 (174)
33 PF12575 DUF3753: Protein of u 22.3 2.7E+02 0.0059 22.6 5.5 11 316-326 2-12 (72)
34 PF07889 DUF1664: Protein of u 21.7 1.8E+02 0.004 25.8 4.9 45 314-358 51-96 (126)
35 PLN00062 TATA-box-binding prot 21.7 2.6E+02 0.0057 26.1 6.2 56 123-203 9-65 (179)
36 TIGR00208 fliS flagellar biosy 21.5 5.4E+02 0.012 22.3 7.8 92 254-353 27-121 (124)
37 PTZ00171 acyl carrier protein; 21.2 2.5E+02 0.0055 25.4 5.8 85 269-355 58-146 (148)
38 PRK00394 transcription factor; 21.1 2.8E+02 0.0061 25.8 6.2 58 122-204 98-158 (179)
39 COG2101 SPT15 TATA-box binding 21.0 2E+02 0.0044 27.2 5.2 58 122-204 14-72 (185)
40 PF06008 Laminin_I: Laminin Do 20.6 7.7E+02 0.017 23.8 11.2 102 251-354 92-202 (264)
41 cd04516 TBP_eukaryotes eukaryo 20.1 3E+02 0.0065 25.5 6.2 58 122-204 8-66 (174)
No 1
>COG1723 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.1e-59 Score=454.52 Aligned_cols=251 Identities=22% Similarity=0.383 Sum_probs=213.0
Q ss_pred CCcccEEEEeeccccchhhHHHHhccCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcE
Q 016474 117 RTNIPVKAYFFSTSVDLRGLVDQNRQNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSI 196 (389)
Q Consensus 117 ~~~~~V~Ay~~aesidL~~L~~~l~~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvV 196 (389)
...++++|||+|++|||+.|...++.+...|. ..+.-++... +.. + ..+..+++|+|.||||
T Consensus 55 ~~~~R~taYct~~~y~l~~L~~~LK~~~l~p~--~y~e~v~~~~----~e~---------~---~~~~~~~~f~f~yGvV 116 (331)
T COG1723 55 LKLMRCTAYCTASGYRLKVLFKLLKKNGLYPS--VYNEDVLSLM----PEM---------N---TDEEFGEAFFFPYGVV 116 (331)
T ss_pred hccceeeeEeccccccHHHHHHHhhhccCChh--HHHHHHHhcc----hhh---------c---CCcccceEEEecCceE
Confidence 45678999999999999999999985411110 1110000000 000 0 2346689999999999
Q ss_pred EEEcCCCchhh-Hh-------hhc----ccc-----------cccccCCCEEEEecCChhhHHHHHHHHHHHHHHHHHHH
Q 016474 197 VLFNVSEPEYE-VI-------EKQ----TLS-----------TWMQGGLDHIMLQFLNIDGIRIIGSVLGQSIALDYYVR 253 (389)
Q Consensus 197 Vfwn~se~e~e-v~-------~~p----~l~-----------~~~~~~~D~I~L~~~d~~~~~aIS~aLAQSVkL~~fE~ 253 (389)
||||+++.|-. +. .+| ..+ +..++.||.|+|++.+...+++|||||||||||++||+
T Consensus 117 V~Wg~se~eE~~iL~~i~~~~~~~L~e~e~E~e~fhy~~~~~~~prI~nD~I~L~s~~~~~klaiS~aLAQSVkLs~fE~ 196 (331)
T COG1723 117 VFWGFSESEEKNILRDITKAESNPLKEPEIETEEFHYNVTETEKPRIFNDKIILRSSNVFTKLAISHALAQSVKLSVFEE 196 (331)
T ss_pred EEeCCcHHHHhhHHHhhhhcccCCCCCccceEEEEEeeeecccCceeECCEEEEcCCchhHHHHHHHHHHHHhhHHHHHH
Confidence 99999996522 11 111 111 11246799999999999999999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHHHHHHHHHhhccchhHHH
Q 016474 254 QVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYAQIWEYLRDEFELTQRFA 333 (389)
Q Consensus 254 ~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le~lY~~l~~~fEI~~R~~ 333 (389)
.++++|+.++++|++||++|+++++|++|+|++|++|..|.++||+++|||+|||||++|+|+++|.++++|+||++|++
T Consensus 197 ~v~~ti~~t~~~pq~la~~gkvslsr~eilk~iG~LFllR~~iNL~s~IlDtPef~W~ePqleplY~~~~~yLdI~~Rvn 276 (331)
T COG1723 197 SVDNTIDQTKPIPQELARTGKVSLSRKEILKQIGKLFLLRVSINLHSDILDTPEFFWSEPQLEPLYLAVREYLDINPRVN 276 (331)
T ss_pred HHHHHHHhcchhHHHHhhcCCccccHHHHHHHHhHHhheeeeeeeeeccccCchhcccCcchhHHHHHHHHHhchhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHhcc
Q 016474 334 SLDFKLKFVEHNIRFLQEILQNRKSDFLEWLIIILISAEILISLYDLFQRTA 385 (389)
Q Consensus 334 ~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIIIiLI~vEIvl~l~ei~~r~~ 385 (389)
+||+||++|.|++++|.+.++++|+++|||||||||++||++++++++.+..
T Consensus 277 vLN~Rl~vi~d~l~il~e~ln~~~s~~lEWivIiLI~~eVllsl~~i~~~~~ 328 (331)
T COG1723 277 VLNRRLEVISDLLDILNEQLNHSHSTRLEWIVIILIGLEVLLSLYNIIVKYI 328 (331)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcccceeEEEehhHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999998754
No 2
>KOG2861 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3e-55 Score=440.94 Aligned_cols=262 Identities=32% Similarity=0.448 Sum_probs=206.5
Q ss_pred ccEEEEeeccccchhhHHHHhcc--------------CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccC-CCC
Q 016474 120 IPVKAYFFSTSVDLRGLVDQNRQ--------------NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASIS-GSD 184 (389)
Q Consensus 120 ~~V~Ay~~aesidL~~L~~~l~~--------------~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~-~~~ 184 (389)
-..+|||+|+.+.++.+.+.++. .+.++....++|.....++-. +. .-....+.++ .++
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~g~~~~s~~ 166 (399)
T KOG2861|consen 93 PRETAYCTEETLGLKELRKYFKSTSLLTKLGLAEFNECLYEPTSFNTNYVGLDFSDKS-DS-----SIKPLNGSINGSGE 166 (399)
T ss_pred cchhccchhhhcCcchHHHHHHHhhhhhhcchhhhhhcccCccccccccccccccCcc-cc-----ccccccccccCCCC
Confidence 34789999999998888877642 111222222222221111100 00 0011223334 457
Q ss_pred ccEEEEEecCcEEEEcCCCchhh-------Hhh-h----------------ccccccc---ccCCCEEEEecCChhh-HH
Q 016474 185 CCFMVVFQYGSIVLFNVSEPEYE-------VIE-K----------------QTLSTWM---QGGLDHIMLQFLNIDG-IR 236 (389)
Q Consensus 185 ~~~vfvF~yGvVVfwn~se~e~e-------v~~-~----------------p~l~~~~---~~~~D~I~L~~~d~~~-~~ 236 (389)
.+++|||+||||||||+++.|.. ..+ . +.....+ ++.+|.|++.+.+... +.
T Consensus 167 ~~eifvF~yGvvVfwn~s~~q~~~iL~~le~~e~~~~~~~l~~~e~ev~~~~~~~t~~~~~~~~~~~i~l~~~~~~l~k~ 246 (399)
T KOG2861|consen 167 FSEIFVFRYGVVVFWNVSENQEKHILKELERHEYGPLEIALDEEESEVEEFTYLITGSTFRRGINDDIVLDDSDNILIKL 246 (399)
T ss_pred cceEEEEecceEEEEecChhHHHhHHHHHHHhccccchhhhchhhhhhhccccccccccccccccceeEEecccchhHHH
Confidence 89999999999999999985311 000 0 0011111 2234677777666555 56
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHH
Q 016474 237 IIGSVLGQSIALDYYVRQVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYA 316 (389)
Q Consensus 237 aIS~aLAQSVkL~~fE~~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le 316 (389)
+||+||||||||++||++||++|++++++|+.|+++|+++++|++++|++|++|.+|++|||+++|||+|||+|++|+|+
T Consensus 247 aiS~alaQSvKL~~~E~~vd~~I~s~~~ipe~la~~gkl~lsr~e~lk~iGkLf~LR~~INL~s~lLdtPdf~W~ep~Le 326 (399)
T KOG2861|consen 247 AISHALAQSVKLSYFESLVDKTIESTTDIPESLALGGKLTLSREELLKKIGKLFALRHDINLSSGLLDTPDFYWDEPQLE 326 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcCeecccHHHHHHHHHHHHHHheeeecccccccCcccccCchhHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHhcccc
Q 016474 317 QIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWLIIILISAEILISLYDLFQRTAST 387 (389)
Q Consensus 317 ~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIIIiLI~vEIvl~l~ei~~r~~~~ 387 (389)
++|+++++||||++|+++||+||++|.|++++|.+.++++|+.+||||||+||++||++++++++.+....
T Consensus 327 ~iY~~~r~yleI~qRv~vLN~kl~~i~~~~~~l~e~ln~r~~~~LEWiIIiLI~~eV~i~i~~i~~~~~~~ 397 (399)
T KOG2861|consen 327 PIYEATRRYLEIGQRVNVLNYKLKVIEDLLDILQENLNERHSERLEWIIIILIAFEVAIEIYQIVVRYLSL 397 (399)
T ss_pred HHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHhhhccccceehhhHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999886543
No 3
>PF02582 DUF155: Uncharacterised ACR, YagE family COG1723; InterPro: IPR003734 This entry describes proteins of unknown function.
Probab=100.00 E-value=4.2e-40 Score=299.60 Aligned_cols=151 Identities=27% Similarity=0.437 Sum_probs=136.0
Q ss_pred EEEEEecCcEEEEcCCCchhhHh--------hhcc---c--cc-----------ccccCCCEEEEecCChhhHHHHHHHH
Q 016474 187 FMVVFQYGSIVLFNVSEPEYEVI--------EKQT---L--ST-----------WMQGGLDHIMLQFLNIDGIRIIGSVL 242 (389)
Q Consensus 187 ~vfvF~yGvVVfwn~se~e~ev~--------~~p~---l--~~-----------~~~~~~D~I~L~~~d~~~~~aIS~aL 242 (389)
+||+|+||||||||+++++.... .+|. . .+ ...+.+|.|+|++.+...++++|+||
T Consensus 1 dvf~F~~G~vVfw~~~~~~~~~~l~~l~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~i~~d~i~l~~~~~~~~~aiS~~L 80 (175)
T PF02582_consen 1 DVFLFRYGVVVFWGVSEEEEKQFLDYLKPFEEEPLSEPEVETEEMNYIYDPNLPKSRIQNDIIVLPELDVLEKLAISHAL 80 (175)
T ss_pred CEEEecCcEEEEEeCCHHHHHHHHHHHHHHHhCCCccccceeEEEEEEEeCCCCCceEECCEEEEcccchHHHHHHHHHH
Confidence 58999999999999999753221 1111 1 11 12245899999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHHHHHHHH
Q 016474 243 GQSIALDYYVRQVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYAQIWEYL 322 (389)
Q Consensus 243 AQSVkL~~fE~~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le~lY~~l 322 (389)
||||||++||+++++++++++++|+.|+++|+++++||+|+|++|+++..|+++|++.++||+||+||++|+|+++|+++
T Consensus 81 AqSv~L~~~E~~v~~~l~~~~~i~~~L~~~G~~~~~~k~l~k~~G~l~~~r~~i~l~~~ilD~Pe~~We~~~le~ly~~l 160 (175)
T PF02582_consen 81 AQSVKLDFFEEQVDKLLEETEPIPEELAKTGKLPLSRKELLKLIGELFSLRHDINLNSDILDTPEFFWENPELEPLYERL 160 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHHHHHhhhcccCchhccCChhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccchhHHHHHHH
Q 016474 323 RDEFELTQRFASLDF 337 (389)
Q Consensus 323 ~~~fEI~~R~~~LN~ 337 (389)
++||||++|+++||+
T Consensus 161 ~~~lei~~R~~~Ln~ 175 (175)
T PF02582_consen 161 RRYLEIKERIRILNE 175 (175)
T ss_pred HHHcCHHHHHHHhcC
Confidence 999999999999995
No 4
>PRK11085 magnesium/nickel/cobalt transporter CorA; Provisional
Probab=84.02 E-value=11 Score=38.02 Aligned_cols=123 Identities=19% Similarity=0.188 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCccc------chHHHHHHHHHHHH----hhhhhhhcccc---cccchhh
Q 016474 243 GQSIALDYYVRQVDGMVAEFTDINRGMEKTGTFTM------ESKKLFQLVGKANS----NLADVILKLGL---FERSDIA 309 (389)
Q Consensus 243 AQSVkL~~fE~~vd~~ie~~~~ip~~La~~G~i~l------srkeL~k~iGel~~----~r~~inl~~~l---LDtPD~~ 309 (389)
++.+-+..+|..++...+.++.+-.++.+-++--+ .-+++++.+|++-. .|..+.....+ +-++.-+
T Consensus 129 ~~~vl~~Lld~iVd~~ad~lE~~~~~ld~ls~~if~~~~~~~~~~~l~~i~~l~~~~~~~r~~l~~~~r~l~~l~~~~~~ 208 (316)
T PRK11085 129 AYELLLDLFETKIEQLADEIENIYSDLEKLSRVIMEGHQGDEYDEALSTLAELEDIGWKVRLCLMDTQRALNFLVRKARL 208 (316)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 35567777888888887777777666555433212 12466677776421 11111100011 1122111
Q ss_pred hccccHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHH
Q 016474 310 WKDAKYAQIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWLII 366 (389)
Q Consensus 310 We~p~le~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIII 366 (389)
.....+.+....++.-++.++.+.+..|++.+.|.+..+.+.-+++-.-.|..+-+
T Consensus 209 -~~~~~~~~~~~~~Di~~l~~~~~~~~~~~~~l~d~~~~~i~~~~N~~mk~lTv~s~ 264 (316)
T PRK11085 209 -PGGQLEQAREILRDIESLLPHNESLFQKVNFLMQAAMGFINIEQNRIIKIFSVVSV 264 (316)
T ss_pred -ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 22233555666677777888888888888888887776666555554444433333
No 5
>PRK09546 zntB zinc transporter; Reviewed
Probab=76.75 E-value=72 Score=31.75 Aligned_cols=132 Identities=10% Similarity=0.115 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccc---cchhhhc----cccHHHHHHHH
Q 016474 250 YYVRQVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFE---RSDIAWK----DAKYAQIWEYL 322 (389)
Q Consensus 250 ~fE~~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLD---tPD~~We----~p~le~lY~~l 322 (389)
.|...++++-+++..+-+.+-.+. -+ .+++|++.--++...|..+....+++. ..+.-|- .+++..+++.+
T Consensus 154 ~~~~~l~~i~~~ld~lE~~l~~~~-~~-~~~~l~~lrr~l~~lrr~l~p~~~~l~~L~~~~~~~~~~~~~~~l~Dv~d~~ 231 (324)
T PRK09546 154 HASEFIEELHDKIIDLEDNLLDQQ-IP-PRGELALLRKQLIVMRRYMAPQRDVFARLASERLPWMSDDDRRRMQDIADRL 231 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC-Cc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHH
Confidence 344444444444444444443321 11 245666555555555544433322221 1122232 24566666665
Q ss_pred HhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccc---------------------------c----chhHHHHHHHHH
Q 016474 323 RDEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKS---------------------------D----FLEWLIIILISA 371 (389)
Q Consensus 323 ~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS---------------------------~----rLEWIIIiLI~v 371 (389)
.+..+ .++.+..+++.+.+.+....+.-.++.. = ..=|.+++.|++
T Consensus 232 ~~~~~---~l~~~~~~~~~l~d~~~s~~s~~~N~~m~~Ltilt~IflPlT~IaGiyGMNf~~mPel~~~~gy~~~l~im~ 308 (324)
T PRK09546 232 GRGLD---DLDACIARTAVLADEIASVMAEAMNRRTYTMSLMAMVFLPTTFLTGLFGVNLGGIPGGGWPFGFSIFCLLLV 308 (324)
T ss_pred HHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCcCCcchHHHHHHHHH
Confidence 55553 5555555555554444443333333311 1 123556666666
Q ss_pred HHHHHHHHHHHhccc
Q 016474 372 EILISLYDLFQRTAS 386 (389)
Q Consensus 372 EIvl~l~ei~~r~~~ 386 (389)
=++++++-+|.|++|
T Consensus 309 ~i~~~~~~~fkrk~W 323 (324)
T PRK09546 309 VLIGGVAWWLKRSKW 323 (324)
T ss_pred HHHHHHHHHHHhccc
Confidence 666666667777776
No 6
>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=74.97 E-value=43 Score=32.87 Aligned_cols=77 Identities=12% Similarity=0.074 Sum_probs=42.4
Q ss_pred hccccHHHHHHHHH-hhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccch---------------------------
Q 016474 310 WKDAKYAQIWEYLR-DEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFL--------------------------- 361 (389)
Q Consensus 310 We~p~le~lY~~l~-~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rL--------------------------- 361 (389)
|-.++...++..+. +.-.+.+..+.+.++++-+.+.+..+.+.-.++-.-+|
T Consensus 209 ~~~~~~~~~~~dv~~~~~~l~~~~~~~~e~l~~l~d~~~~~~s~~~N~~mk~LTvvt~IflP~t~IaGiyGMNf~~mP~l 288 (318)
T TIGR00383 209 IQTEEVREYLRDIYDHILSLLEMIETYRELLSSLMDLYLSLVNNKMNEIMKILTVVSTIFIPLTFIAGIYGMNFKFMPEL 288 (318)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccCccc
Confidence 44444444444443 23345566666777777666666655555444433222
Q ss_pred h----HHHHHHHHHHHHHHHHHHHHhccc
Q 016474 362 E----WLIIILISAEILISLYDLFQRTAS 386 (389)
Q Consensus 362 E----WIIIiLI~vEIvl~l~ei~~r~~~ 386 (389)
+ |.+++++++=+++.++=+|.|++|
T Consensus 289 ~~~~gy~~~l~~m~~i~~~~~~~fkrk~W 317 (318)
T TIGR00383 289 NWKYGYPAVLIVMAVIALGPLIYFRRKGW 317 (318)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 2 455555555556666666777776
No 7
>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=63.29 E-value=27 Score=33.13 Aligned_cols=61 Identities=16% Similarity=0.226 Sum_probs=37.5
Q ss_pred HHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHH
Q 016474 315 YAQIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWLIIILISAEILISLY 378 (389)
Q Consensus 315 le~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIIIiLI~vEIvl~l~ 378 (389)
++.++..+.+ +.++.+.+..+++-+.+.+....+.-.++...+|.++-++.+=+-.+-++|
T Consensus 194 ~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~n~~m~~LT~~t~iflPlt~i~g~f 254 (292)
T PF01544_consen 194 LRDLLDRIER---LLERAESLRERLESLQDLYQSKLSNRQNRVMKVLTIVTAIFLPLTFITGIF 254 (292)
T ss_dssp HHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHTTST
T ss_pred HHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444444443 667777777777777777766666666666667766655555445554444
No 8
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=49.22 E-value=2.5e+02 Score=28.01 Aligned_cols=55 Identities=16% Similarity=0.117 Sum_probs=29.5
Q ss_pred hccccHHHHHHHHHh-hccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHH
Q 016474 310 WKDAKYAQIWEYLRD-EFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWL 364 (389)
Q Consensus 310 We~p~le~lY~~l~~-~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWI 364 (389)
|-..+...++..+.+ .-.+.++.+.+.++++-+.+.+..+-+.-+|+..-.|-.+
T Consensus 213 ~~~~~~~~~l~dv~~~~~~~~~~~~~~~~~l~~l~d~~~s~is~~~N~imk~LTi~ 268 (322)
T COG0598 213 WLSEEDREYLRDVLDHLTQLIEMLEALRERLSSLLDAYLSLINNNQNEIMKILTIV 268 (322)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555544444443332 2345566777777777777666655555555444333333
No 9
>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=44.99 E-value=59 Score=26.25 Aligned_cols=59 Identities=19% Similarity=0.364 Sum_probs=38.0
Q ss_pred EEEEeeccccchhhHHHHhcc-CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNRQ-NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~~-~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-.+.+.-.+||..|+..+.. .|-|.+|.+ ++++.. +....+.+|+.|-|+.-|
T Consensus 10 va~~~l~~~idL~~la~~~~~~~YePe~fpg---l~~r~~----------------------~p~~t~~IF~sGki~itG 64 (86)
T PF00352_consen 10 VASFDLPFEIDLEELAEELENVEYEPERFPG---LIYRLR----------------------NPKATVLIFSSGKIVITG 64 (86)
T ss_dssp EEEEE-SSEB-HHHHHHHSTTEEEETTTESS---EEEEET----------------------TTTEEEEEETTSEEEEEE
T ss_pred EEEEECCCccCHHHHHhhccCcEEeeccCCe---EEEeec----------------------CCcEEEEEEcCCEEEEEe
Confidence 556788999999999988742 233332222 344433 123578999999999999
Q ss_pred CC-Cch
Q 016474 201 VS-EPE 205 (389)
Q Consensus 201 ~s-e~e 205 (389)
.. +++
T Consensus 65 aks~~~ 70 (86)
T PF00352_consen 65 AKSEEE 70 (86)
T ss_dssp ESSHHH
T ss_pred cCCHHH
Confidence 84 444
No 10
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=39.33 E-value=52 Score=35.18 Aligned_cols=87 Identities=15% Similarity=0.321 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHhhcCCccc-----chHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHHHHHHH
Q 016474 247 ALDYYVRQVDGMVAEFTDINRGMEKTGTFTM-----ESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYAQIWEY 321 (389)
Q Consensus 247 kL~~fE~~vd~~ie~~~~ip~~La~~G~i~l-----srkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le~lY~~ 321 (389)
+|..=|+.+-++++..-++.+. |.++.. ..|.+.+.+-++.....-+..-.+. ..=.-++++-.+...=+-
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 5666777777777777666654 445432 3466777777777777666655443 122234444333333344
Q ss_pred HHhhccchhHHHHHHH
Q 016474 322 LRDEFELTQRFASLDF 337 (389)
Q Consensus 322 l~~~fEI~~R~~~LN~ 337 (389)
..+.|||..|+++||=
T Consensus 85 fQ~vFEIgRRYKIMNP 100 (458)
T PF09418_consen 85 FQDVFEIGRRYKIMNP 100 (458)
T ss_pred HHHHHHHHHHHhhhCH
Confidence 4566999999999994
No 11
>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=37.25 E-value=1.6e+02 Score=23.98 Aligned_cols=23 Identities=9% Similarity=0.206 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 016474 332 FASLDFKLKFVEHNIRFLQEILQ 354 (389)
Q Consensus 332 ~~~LN~KL~vi~e~l~~L~e~l~ 354 (389)
.+..++|+.++..+++++..++.
T Consensus 74 ~~l~deKv~lA~~~~d~v~~hi~ 96 (105)
T PF12998_consen 74 LELSDEKVALAQQAYDLVDRHIR 96 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778999999999999977664
No 12
>PHA02844 putative transmembrane protein; Provisional
Probab=32.32 E-value=1.3e+02 Score=24.50 Aligned_cols=39 Identities=10% Similarity=0.120 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHhhc--------cccchhHHHHHHHHHHHHHHHHH
Q 016474 341 FVEHNIRFLQEILQNR--------KSDFLEWLIIILISAEILISLYD 379 (389)
Q Consensus 341 vi~e~l~~L~e~l~~~--------hS~rLEWIIIiLI~vEIvl~l~e 379 (389)
=..+.+++.+..+..+ .....-|++|++|++=+++.++-
T Consensus 19 DFnnFI~vVksVLtd~~~s~~~~~~~~~~~~~~ii~i~~v~~~~~~~ 65 (75)
T PHA02844 19 DFNNFIDVVKSVLSDDYDGVNKNNVCSSSTKIWILTIIFVVFATFLT 65 (75)
T ss_pred HHHHHHHHHHHHHcCCCCCccccccCChhHHHHHHHHHHHHHHHHHH
Confidence 3456666667777665 33345555555555555555443
No 13
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=30.95 E-value=1.3e+02 Score=25.81 Aligned_cols=42 Identities=19% Similarity=0.180 Sum_probs=28.9
Q ss_pred ccHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 016474 313 AKYAQIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQ 354 (389)
Q Consensus 313 p~le~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~ 354 (389)
.+-|+.|...+.|+++++|.+-.-..|.--.|-+....+.|.
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 467899999999999999987655544444444444444443
No 14
>PHA02819 hypothetical protein; Provisional
Probab=29.41 E-value=1.1e+02 Score=24.66 Aligned_cols=62 Identities=11% Similarity=0.253 Sum_probs=25.4
Q ss_pred HHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHH
Q 016474 316 AQIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWLIIILISAEILISLYD 379 (389)
Q Consensus 316 e~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIIIiLI~vEIvl~l~e 379 (389)
++||.++-..|= ..--+-.|+=+++++..+.- .+.-...+..+.-|++|++|++=+++.++-
T Consensus 2 DKLYaaiFGvFm-sS~DdDFnnFI~VVksVLtd-~s~~~~~~~~~~~~~~ii~l~~~~~~~~~~ 63 (71)
T PHA02819 2 DKLYSAIFGVFM-SSSDDDFNNFINVVKSVLNN-ENYNKKTKKSFLRYYLIIGLVTIVFVIIFI 63 (71)
T ss_pred hhHHHHHHHhhh-CCchhHHHHHHHHHHHHHcC-CCCcccccCChhHHHHHHHHHHHHHHHHHH
Confidence 456665554442 22233344444444433222 110011122445555555555555554443
No 15
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=28.02 E-value=4.5e+02 Score=23.69 Aligned_cols=103 Identities=22% Similarity=0.207 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHHHHHHHHHhhc
Q 016474 247 ALDYYVRQVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYAQIWEYLRDEF 326 (389)
Q Consensus 247 kL~~fE~~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le~lY~~l~~~f 326 (389)
-|..||.-+++-|+++++.-..++.. +.+-.++.+.+-+.+.-+..-.. ..+.+|..+.+.+
T Consensus 26 ~L~k~~~~v~~~i~~L~~~L~~~~n~---t~~~~~~v~~i~~~~~~~q~~~~---------------~n~~i~~~~s~~l 87 (146)
T PF08702_consen 26 FLDKYERDVDKDIQELENLLDQISNS---TSEAFEYVKNIKDSLRPRQKQAK---------------PNDNIYNQYSKSL 87 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHH
T ss_pred HHHHHccchHHHHHHHHHHHHHHHHh---hhhHHHHHHHHHHHHhccccccC---------------CcccHHHHHHHHH
Confidence 47889999999999999988887763 22445555555544443332211 1223444444432
Q ss_pred cchhHH-HHHHHHHHHHHHHHHHHHHHHhh--ccccchhHHHHHHH
Q 016474 327 ELTQRF-ASLDFKLKFVEHNIRFLQEILQN--RKSDFLEWLIIILI 369 (389)
Q Consensus 327 EI~~R~-~~LN~KL~vi~e~l~~L~e~l~~--~hS~rLEWIIIiLI 369 (389)
..|. ..++.+..-....+..|.+.+.. ++-.+||--|-+++
T Consensus 88 --~~~~~~~~e~~i~~~~~~I~~Lq~~~~~~~~ki~~Le~~i~~~~ 131 (146)
T PF08702_consen 88 --RKMIIYILETKIINQPSNIRVLQNILRSNRQKIQRLEQDIDQQE 131 (146)
T ss_dssp --HHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred --HHHHHHHHHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344 66666666666666777776654 45578888777765
No 16
>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=27.88 E-value=97 Score=24.32 Aligned_cols=29 Identities=31% Similarity=0.589 Sum_probs=26.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 016474 328 LTQRFASLDFKLKFVEHNIRFLQEILQNR 356 (389)
Q Consensus 328 I~~R~~~LN~KL~vi~e~l~~L~e~l~~~ 356 (389)
+.+|+..|..|+.+..++++-|++.+..+
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 57899999999999999999999998754
No 17
>PHA03054 IMV membrane protein; Provisional
Probab=26.91 E-value=2e+02 Score=23.36 Aligned_cols=56 Identities=13% Similarity=0.199 Sum_probs=27.9
Q ss_pred HHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHhhc--------cccchhHHHHHHHHHHHHHHHHH
Q 016474 316 AQIWEYLRDEFELTQRFASLDFKLKFVEHNIRFLQEILQNR--------KSDFLEWLIIILISAEILISLYD 379 (389)
Q Consensus 316 e~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~--------hS~rLEWIIIiLI~vEIvl~l~e 379 (389)
+++|..+-..|=-++ -+-. .+.+++.+..+..+ +..+.-|++|++|++=+++.++-
T Consensus 2 dkLya~ifGvF~ss~-d~Df-------~~Fi~vV~sVl~dk~~~~~~~~~~~~~~~~~ii~l~~v~~~~l~~ 65 (72)
T PHA03054 2 DKLYAAIFGVFMGSP-EDDL-------TDFIEIVKSVLSDEKTVTSTNNTGCWGWYWLIIIFFIVLILLLLI 65 (72)
T ss_pred hhHHHHHHHHhhCCc-hHHH-------HHHHHHHHHHHcCCCCcccccccCCchHHHHHHHHHHHHHHHHHH
Confidence 566666655554333 3333 34445555555554 23445555555555555554443
No 18
>PRK00736 hypothetical protein; Provisional
Probab=26.44 E-value=1.1e+02 Score=24.04 Aligned_cols=31 Identities=19% Similarity=0.323 Sum_probs=27.6
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
.+.+|+..|..|+.+-.++++-|++.+..+.
T Consensus 2 ~~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq 32 (68)
T PRK00736 2 DAEERLTELEIRVAEQEKTIEELSDQLAEQW 32 (68)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999998664
No 19
>PHA02650 hypothetical protein; Provisional
Probab=25.47 E-value=2.1e+02 Score=23.74 Aligned_cols=16 Identities=13% Similarity=0.247 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHhhc
Q 016474 341 FVEHNIRFLQEILQNR 356 (389)
Q Consensus 341 vi~e~l~~L~e~l~~~ 356 (389)
=..+.+++.+..+..+
T Consensus 19 DFnnFI~VVkSVLtD~ 34 (81)
T PHA02650 19 DFNNFIDVVKSVLSDE 34 (81)
T ss_pred HHHHHHHHHHHHHcCC
Confidence 3455566666666654
No 20
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=25.46 E-value=2.7e+02 Score=25.74 Aligned_cols=58 Identities=19% Similarity=0.167 Sum_probs=37.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHhccc
Q 016474 328 LTQRFASLDFKLKFVEHNIRFLQEILQNRKSDFLEWLIIILISAEILISLYDLFQRTAS 386 (389)
Q Consensus 328 I~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS~rLEWIIIiLI~vEIvl~l~ei~~r~~~ 386 (389)
+.++.+.+.+.|+-+.+.-..+.+. .+++..|+=|....+++++.++..+=.|..-+|
T Consensus 62 l~~~l~~~~~el~~le~~k~~id~~-A~~~~~~~~w~gl~~l~~q~~~l~rLTf~e~sW 119 (180)
T PF04678_consen 62 LRKRLEELRQELAPLEKIKQEIDEK-AEKRARRLLWGGLALLVVQFGILARLTFWEYSW 119 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3445555555555544444444333 347888999999999999988877655555555
No 21
>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=25.43 E-value=98 Score=28.67 Aligned_cols=54 Identities=19% Similarity=0.329 Sum_probs=35.0
Q ss_pred EEeeccccchhhHHHHhcc-CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEcCC
Q 016474 124 AYFFSTSVDLRGLVDQNRQ-NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFNVS 202 (389)
Q Consensus 124 Ay~~aesidL~~L~~~l~~-~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn~s 202 (389)
..-++..+||..++..+.. .|-| +|.. ++++..+ ....+-+|+.|-+|+=|..
T Consensus 11 s~~l~~~idL~~la~~l~n~eYeP-~fpg---li~R~~~----------------------Pk~t~lIF~sGKiviTGak 64 (174)
T cd04517 11 QFSLRCHIDLRKLALAGRNVEYNP-RYPK---VTMRLRE----------------------PRATASVWSSGKITITGAT 64 (174)
T ss_pred EEEcCCcccHHHHHhhCCCCEEeC-CCCE---EEEEecC----------------------CcEEEEEECCCeEEEEccC
Confidence 3448899999999977642 2222 2221 3333321 2247889999999999995
Q ss_pred C
Q 016474 203 E 203 (389)
Q Consensus 203 e 203 (389)
.
T Consensus 65 s 65 (174)
T cd04517 65 S 65 (174)
T ss_pred C
Confidence 4
No 22
>PRK02119 hypothetical protein; Provisional
Probab=25.33 E-value=1e+02 Score=24.64 Aligned_cols=31 Identities=29% Similarity=0.494 Sum_probs=28.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
++.+|+..|..|+.+-.++++-|++.+..+.
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 4679999999999999999999999998664
No 23
>PRK02793 phi X174 lysis protein; Provisional
Probab=25.01 E-value=1.1e+02 Score=24.42 Aligned_cols=31 Identities=29% Similarity=0.397 Sum_probs=27.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
++.+|+.-|..|+.+-.++++-|++.+..+.
T Consensus 5 ~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq 35 (72)
T PRK02793 5 SLEARLAELESRLAFQEITIEELNVTVTAHE 35 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999999999999998664
No 24
>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=24.89 E-value=2e+02 Score=26.66 Aligned_cols=57 Identities=14% Similarity=0.216 Sum_probs=37.6
Q ss_pred EEEEeeccccchhhHHHHhcc-CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNRQ-NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~~-~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-..-++.++||..|+..+.. .|-|.+|.. ++++..+ ....+-+|+.|-+|+=|
T Consensus 8 Vas~~l~~~ldL~~la~~~~n~eY~P~~fpg---li~Rl~~----------------------Pk~t~lIF~SGKiv~tG 62 (174)
T cd04518 8 VASVDLGQELDLEKVAAELPNAEYNPDQFPG---LVYRLED----------------------PKIAALIFRSGKMVCTG 62 (174)
T ss_pred EEEEEcCCeecHHHHHhhCCCcEECCCcCcE---EEEEccC----------------------CcEEEEEECCCeEEEEc
Confidence 445678889999999987642 333322221 3444331 23578899999999999
Q ss_pred CCC
Q 016474 201 VSE 203 (389)
Q Consensus 201 ~se 203 (389)
...
T Consensus 63 aks 65 (174)
T cd04518 63 AKS 65 (174)
T ss_pred cCC
Confidence 954
No 25
>PRK00394 transcription factor; Reviewed
Probab=24.20 E-value=2.3e+02 Score=26.32 Aligned_cols=58 Identities=14% Similarity=0.217 Sum_probs=37.7
Q ss_pred EEEEeeccccchhhHHHHhcc-CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNRQ-NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~~-~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-..-++..+||.+|+..+.. .|-|.+|.. ++++.. +....+-+|+.|-+|+=|
T Consensus 7 Vas~~l~~~ldL~~la~~~~n~eYePe~fpg---li~Rl~----------------------~Pk~t~lIf~sGKiv~tG 61 (179)
T PRK00394 7 VASTDLGQELDLEKVAEDLPNAEYNPEQFPG---LVYRLE----------------------DPKIAALIFRSGKVVCTG 61 (179)
T ss_pred EEEEEcCCCcCHHHHHhhCCCceeCcccCce---EEEEec----------------------CCceEEEEEcCCcEEEEc
Confidence 455677899999999977642 333322221 334333 123578899999999999
Q ss_pred CCCc
Q 016474 201 VSEP 204 (389)
Q Consensus 201 ~se~ 204 (389)
....
T Consensus 62 a~S~ 65 (179)
T PRK00394 62 AKSV 65 (179)
T ss_pred cCCH
Confidence 6543
No 26
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=24.10 E-value=5.3e+02 Score=23.21 Aligned_cols=109 Identities=9% Similarity=0.163 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhcC-CcccchHHHHHHHHHHHHhhhhhhhc------ccccccchh
Q 016474 236 RIIGSVLGQSIALDYYVRQVDGMVAEFTDINRGMEKTG-TFTMESKKLFQLVGKANSNLADVILK------LGLFERSDI 308 (389)
Q Consensus 236 ~aIS~aLAQSVkL~~fE~~vd~~ie~~~~ip~~La~~G-~i~lsrkeL~k~iGel~~~r~~inl~------~~lLDtPD~ 308 (389)
..+-.+-.++..-...=+++..+++++.++.+++.+.| .++-.|++-++.+-+++..=..++.+ .+++-+|-+
T Consensus 20 k~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk~~r~n~~kk~~y 99 (147)
T PF05659_consen 20 KAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELVEKCSKVRRWNLYKKPRY 99 (147)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhccccHHHHHhhHhH
Confidence 45566667777777777888999999999999998877 45667455454444443222222221 111111111
Q ss_pred hhccccHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHH
Q 016474 309 AWKDAKYAQIWEYLRDEFELTQRFASLDFKLKFVEHNIR 347 (389)
Q Consensus 309 ~We~p~le~lY~~l~~~fEI~~R~~~LN~KL~vi~e~l~ 347 (389)
.-.++.+.+.+.+++.++--...+..=..+..++-+
T Consensus 100 ---~~Ki~~le~~l~~f~~v~~q~~~~~D~~~l~~~~~e 135 (147)
T PF05659_consen 100 ---ARKIEELEESLRRFIQVDLQLHQLRDIKELLAKMSE 135 (147)
T ss_pred ---HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHH
Confidence 135778888888888877665555444444433333
No 27
>PRK04406 hypothetical protein; Provisional
Probab=23.85 E-value=1.1e+02 Score=24.64 Aligned_cols=31 Identities=29% Similarity=0.538 Sum_probs=27.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
.+.+|+..|..|+.+..++++-|++.+..+.
T Consensus 8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq 38 (75)
T PRK04406 8 QLEERINDLECQLAFQEQTIEELNDALSQQQ 38 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4779999999999999999999999998664
No 28
>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=22.96 E-value=2.8e+02 Score=25.69 Aligned_cols=59 Identities=15% Similarity=0.240 Sum_probs=38.3
Q ss_pred EEEEeeccccchhhHHHHhc-cCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNR-QNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~-~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-.+.++-.+||..++..+. ..|-|.+|.. ++++..+ ....+-+|+.|-||+=|
T Consensus 99 Vas~~l~~~i~L~~la~~~~~~~YePe~fpg---lvyR~~~----------------------pk~~~lIF~SGKvvitG 153 (174)
T cd04518 99 VASADLGREVNLDAIAIGLPNAEYEPEQFPG---LVYRLDE----------------------PKVVLLLFSSGKMVITG 153 (174)
T ss_pred EEEEEcCCccCHHHHHhhCCCCccCcccCce---EEEEecC----------------------CcEEEEEeCCCEEEEEe
Confidence 44566889999999997754 2233322222 3444431 22467899999999999
Q ss_pred CCCch
Q 016474 201 VSEPE 205 (389)
Q Consensus 201 ~se~e 205 (389)
....|
T Consensus 154 aks~~ 158 (174)
T cd04518 154 AKSEE 158 (174)
T ss_pred cCCHH
Confidence 87643
No 29
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=22.86 E-value=1.1e+03 Score=29.30 Aligned_cols=138 Identities=17% Similarity=0.188 Sum_probs=82.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCc---------------------ccchHHHHHHHHHHHHhhh
Q 016474 236 RIIGSVLGQSIALDYYVRQVDGMVAEFTDINRGMEKTGTF---------------------TMESKKLFQLVGKANSNLA 294 (389)
Q Consensus 236 ~aIS~aLAQSVkL~~fE~~vd~~ie~~~~ip~~La~~G~i---------------------~lsrkeL~k~iGel~~~r~ 294 (389)
+++.+.-.|+.+|+.=|..-...++....+.+.|++.|.+ +++|-||+-+++..=....
T Consensus 1131 lVL~~N~~Q~~alsl~~~~~~~~~~~~~r~~~~Le~~g~Ldr~~e~lP~~~~l~~r~~~g~gltrPelavLlay~K~~l~ 1210 (1528)
T PF05088_consen 1131 LVLRDNYRQTLALSLAERRAAERLEEHQRLIERLEREGRLDRELEFLPSDEELAERAAAGQGLTRPELAVLLAYAKIFLK 1210 (1528)
T ss_pred HHHHhHHHHHHHHHHHHHhhhccHHHHHHHHHHHHhcCCCChhhcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence 4667788899999999999999999999999999999876 2456666666665544445
Q ss_pred hhhhcccccccchhhhccccHHHHHHHHHhhccchhHH--HHHHHHHH-------HHHHHH----HHHHHHHhhccccch
Q 016474 295 DVILKLGLFERSDIAWKDAKYAQIWEYLRDEFELTQRF--ASLDFKLK-------FVEHNI----RFLQEILQNRKSDFL 361 (389)
Q Consensus 295 ~inl~~~lLDtPD~~We~p~le~lY~~l~~~fEI~~R~--~~LN~KL~-------vi~e~l----~~L~e~l~~~hS~rL 361 (389)
+-.+.+++.|.|-+ ...|..+|=.. +.+|+ ++.+|+|. +..+++ -.+-..+.+..+...
T Consensus 1211 ~~l~~s~l~d~~~~---~~~l~~yFP~~-----l~~~f~~~i~~H~L~reIiaT~~~N~ivn~~G~tf~~r~~~~~g~~~ 1282 (1528)
T PF05088_consen 1211 DELLASDLPDDPYF---ARYLENYFPKP-----LRERFADEILNHPLRREIIATQLANDIVNRMGITFVFRLEEETGASP 1282 (1528)
T ss_pred HHHhcCCCCCCHHH---HHHHHHhCCHH-----HHHHHHHHHhcCCcHHHHHHHHHHHHHHHccCHHHHHHHHHHHCcCH
Confidence 55566677776633 33333333221 22333 45555543 111111 123333445555566
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 016474 362 EWLIIILISAEILISLYDLF 381 (389)
Q Consensus 362 EWIIIiLI~vEIvl~l~ei~ 381 (389)
+=++-.-+++.-+|.+-.++
T Consensus 1283 ~~v~~a~~~a~~~f~~~~l~ 1302 (1528)
T PF05088_consen 1283 ADVARAYLIAREIFGLDALW 1302 (1528)
T ss_pred HHHHHHHHHHHHHhCcHHHH
Confidence 66666666666666554443
No 30
>PRK00295 hypothetical protein; Provisional
Probab=22.57 E-value=1.4e+02 Score=23.47 Aligned_cols=31 Identities=23% Similarity=0.487 Sum_probs=27.5
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
.+.+|+.-|..|+.+..++++-|++.+..+.
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 3678999999999999999999999998664
No 31
>PRK04325 hypothetical protein; Provisional
Probab=22.47 E-value=1.3e+02 Score=24.14 Aligned_cols=31 Identities=26% Similarity=0.437 Sum_probs=27.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 016474 327 ELTQRFASLDFKLKFVEHNIRFLQEILQNRK 357 (389)
Q Consensus 327 EI~~R~~~LN~KL~vi~e~l~~L~e~l~~~h 357 (389)
.+.+|+.-|..|+.+-.++++-|++.+..+.
T Consensus 6 ~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq 36 (74)
T PRK04325 6 EMEDRITELEIQLAFQEDLIDGLNATVARQQ 36 (74)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999999999999999999998665
No 32
>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=22.32 E-value=2.5e+02 Score=25.93 Aligned_cols=59 Identities=19% Similarity=0.317 Sum_probs=0.0
Q ss_pred EEEEeeccccchhhHHHHhc-cCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNR-QNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~-~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-.+-++..+||..|+..+. ..|-|.+|.. ++++..+.. ..+-+|+.|-+|+=|
T Consensus 8 Vas~~l~~~idL~~la~~~~n~~YePe~fpg---li~R~~~P~----------------------~t~lIf~sGKivitG 62 (174)
T cd00652 8 VATVNLGCELDLRKIALAARNAEYNPKRFPG---VIMRLREPK----------------------TTALIFSSGKMVITG 62 (174)
T ss_pred EEEEEcCCccCHHHHHhhCCCcEECCCccce---EEEEcCCCc----------------------EEEEEECCCEEEEEe
Q ss_pred CCCch
Q 016474 201 VSEPE 205 (389)
Q Consensus 201 ~se~e 205 (389)
....|
T Consensus 63 aks~~ 67 (174)
T cd00652 63 AKSEE 67 (174)
T ss_pred cCCHH
No 33
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=22.27 E-value=2.7e+02 Score=22.60 Aligned_cols=11 Identities=9% Similarity=0.326 Sum_probs=6.0
Q ss_pred HHHHHHHHhhc
Q 016474 316 AQIWEYLRDEF 326 (389)
Q Consensus 316 e~lY~~l~~~f 326 (389)
++||.++...|
T Consensus 2 DKLyaaifGvF 12 (72)
T PF12575_consen 2 DKLYAAIFGVF 12 (72)
T ss_pred hhHHHHHHhhh
Confidence 45666655544
No 34
>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=21.74 E-value=1.8e+02 Score=25.82 Aligned_cols=45 Identities=20% Similarity=0.222 Sum_probs=36.0
Q ss_pred cHHHHHHHHHhh-ccchhHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 016474 314 KYAQIWEYLRDE-FELTQRFASLDFKLKFVEHNIRFLQEILQNRKS 358 (389)
Q Consensus 314 ~le~lY~~l~~~-fEI~~R~~~LN~KL~vi~e~l~~L~e~l~~~hS 358 (389)
+|+++|+.+..- =+|.+|++.|..|++=..++.+.+.+.+..-++
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 577777776543 256799999999999999999999998876554
No 35
>PLN00062 TATA-box-binding protein; Provisional
Probab=21.69 E-value=2.6e+02 Score=26.11 Aligned_cols=56 Identities=16% Similarity=0.281 Sum_probs=36.0
Q ss_pred EEEeeccccchhhHHHHhc-cCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEcC
Q 016474 123 KAYFFSTSVDLRGLVDQNR-QNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFNV 201 (389)
Q Consensus 123 ~Ay~~aesidL~~L~~~l~-~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn~ 201 (389)
-..-++.++||+.|+..+. ..|-|.+|.. ++++..+ ....+-+|+.|-+|+=|.
T Consensus 9 as~~l~~~idL~~la~~~~n~eYePe~fpg---li~Rl~~----------------------Pk~t~lIF~SGKiviTGa 63 (179)
T PLN00062 9 STVNLDCKLDLKKIALQARNAEYNPKRFAA---VIMRIRE----------------------PKTTALIFASGKMVCTGA 63 (179)
T ss_pred EEEEcCCcccHHHHHhhCCCCEECCccCcE---EEEEeCC----------------------CcEEEEEECCCeEEEEec
Confidence 3445889999999997764 2333322222 3343331 224678999999999998
Q ss_pred CC
Q 016474 202 SE 203 (389)
Q Consensus 202 se 203 (389)
..
T Consensus 64 ks 65 (179)
T PLN00062 64 KS 65 (179)
T ss_pred CC
Confidence 54
No 36
>TIGR00208 fliS flagellar biosynthetic protein FliS. The function of this protein in flagellar biosynthesis is unknown, but appears to be regulatory. The member of this family in Vibrio parahaemolyticus is designated FlaJ (creating a synonym for FliS) and was shown essential for flagellin biosynthesis.
Probab=21.52 E-value=5.4e+02 Score=22.32 Aligned_cols=92 Identities=9% Similarity=0.105 Sum_probs=47.6
Q ss_pred HHHHHHHHHHhHHHHHhhcCCcccchHHHHHHHHHHHHhhhhhhhcccccccchhhhccccHHHHHHHHHhhcc---chh
Q 016474 254 QVDGMVAEFTDINRGMEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFERSDIAWKDAKYAQIWEYLRDEFE---LTQ 330 (389)
Q Consensus 254 ~vd~~ie~~~~ip~~La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~~We~p~le~lY~~l~~~fE---I~~ 330 (389)
..++.+..+..--..++. |.+......|.|-+.=+..++..++. =.-+|+. .+|.++|+.+.+.+- ++.
T Consensus 27 Lydg~i~~l~~a~~ai~~-~d~~~~~~~i~ka~~Ii~eL~~~Ld~----e~ggeiA---~nL~~LY~y~~~~L~~An~~~ 98 (124)
T TIGR00208 27 LYNGCLKFIRLAAQAIEN-DDIERKNENLIKAQNIIQELNFTLDR----EKNIELS---ASLGALYDYMYRRLVQANIKN 98 (124)
T ss_pred HHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHHhhcCC----ccchHHH---HHHHHHHHHHHHHHHHHHhhC
Confidence 344444444444444444 77777777776655544433333322 1223443 469999999977662 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 016474 331 RFASLDFKLKFVEHNIRFLQEIL 353 (389)
Q Consensus 331 R~~~LN~KL~vi~e~l~~L~e~l 353 (389)
-.+.+++=..++.++.+...+..
T Consensus 99 d~~~l~ev~~~l~~Lr~aW~e~~ 121 (124)
T TIGR00208 99 DTSKLAEVEGYVRDFRDAWKEAI 121 (124)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHh
Confidence 23344444444555544444443
No 37
>PTZ00171 acyl carrier protein; Provisional
Probab=21.18 E-value=2.5e+02 Score=25.42 Aligned_cols=85 Identities=16% Similarity=0.208 Sum_probs=58.8
Q ss_pred HhhcCCcccchHHHHHHHHHHHHhhhhhhhccccccc----chhhhccccHHHHHHHHHhhccchhHHHHHHHHHHHHHH
Q 016474 269 MEKTGTFTMESKKLFQLVGKANSNLADVILKLGLFER----SDIAWKDAKYAQIWEYLRDEFELTQRFASLDFKLKFVEH 344 (389)
Q Consensus 269 La~~G~i~lsrkeL~k~iGel~~~r~~inl~~~lLDt----PD~~We~p~le~lY~~l~~~fEI~~R~~~LN~KL~vi~e 344 (389)
..++|..-|++.+++..+-+++....++... .+.+. -|.-||.-..-.+-..+.+.|+|.==.+.+ .++..+++
T Consensus 58 ~~~~~~~~~~~~~v~~~l~eiiae~l~vd~~-~I~~ds~~~~dLg~DSLd~veLv~~LEdeFgI~Ipded~-~~i~TV~d 135 (148)
T PTZ00171 58 SSKSKQYLLSKEDVLTRVKKVVKNFEKVDAS-KITPESNFVKDLGADSLDVVELLIAIEQEFNLTIPDHDA-EKIKTVQD 135 (148)
T ss_pred hhcccccccCHHHHHHHHHHHHHHHhCCCHh-hCCCCcchhhhcCCCHHHHHHHHHHHHHHHCCccCHHHH-HHCCCHHH
Confidence 4456666788888888887777665544221 11111 166799999999999999999987434434 57888888
Q ss_pred HHHHHHHHHhh
Q 016474 345 NIRFLQEILQN 355 (389)
Q Consensus 345 ~l~~L~e~l~~ 355 (389)
+++.+.+...+
T Consensus 136 lvd~V~~~~~~ 146 (148)
T PTZ00171 136 AIDYIEQNNMA 146 (148)
T ss_pred HHHHHHHHHhc
Confidence 88888776544
No 38
>PRK00394 transcription factor; Reviewed
Probab=21.09 E-value=2.8e+02 Score=25.81 Aligned_cols=58 Identities=12% Similarity=0.208 Sum_probs=37.2
Q ss_pred EEEEeeccccchhhHHHHh--c-cCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEE
Q 016474 122 VKAYFFSTSVDLRGLVDQN--R-QNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVL 198 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l--~-~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVf 198 (389)
|-.+.++-.+||..++..+ . ..|-|.+|.. ++++.. +....+-+|+.|-||+
T Consensus 98 Vas~~l~~~i~L~~la~~~~~~~~~YePe~fPg---lvyR~~----------------------~pk~~~lIF~SGKvvi 152 (179)
T PRK00394 98 VASADLGVELNLNAIAIGLGLENIEYEPEQFPG---LVYRLD----------------------DPKVVVLLFGSGKLVI 152 (179)
T ss_pred EEEEEcCCeEcHHHHHHhcCcCCcEECcccCce---EEEEec----------------------CCcEEEEEEcCCEEEE
Confidence 3446788999999999876 2 2232322221 334333 1224678999999999
Q ss_pred EcCCCc
Q 016474 199 FNVSEP 204 (389)
Q Consensus 199 wn~se~ 204 (389)
=|....
T Consensus 153 tGaks~ 158 (179)
T PRK00394 153 TGAKSE 158 (179)
T ss_pred EecCCH
Confidence 999754
No 39
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=21.01 E-value=2e+02 Score=27.25 Aligned_cols=58 Identities=14% Similarity=0.175 Sum_probs=39.9
Q ss_pred EEEEeeccccchhhHHHHhcc-CCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNRQ-NFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~~-~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-.--++.++||..++..+.- .|-|.+|.. ++.+..+ ....+.+|+.|-+|+=|
T Consensus 14 VAS~~L~~elDL~~~~~~l~~aeYnP~qFpG---lv~Rl~e----------------------Pk~a~LIF~SGK~VcTG 68 (185)
T COG2101 14 VASVDLGQELDLEEVALDLPGAEYNPEQFPG---LVYRLEE----------------------PKTAALIFRSGKVVCTG 68 (185)
T ss_pred EEEechhhhccHHHHHhhCCCCccCHhHCCe---eEEEecC----------------------CcceEEEEecCcEEEec
Confidence 556678999999999988763 333433332 4455442 12467899999999999
Q ss_pred CCCc
Q 016474 201 VSEP 204 (389)
Q Consensus 201 ~se~ 204 (389)
..-.
T Consensus 69 aKs~ 72 (185)
T COG2101 69 AKSV 72 (185)
T ss_pred cCcH
Confidence 8763
No 40
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=20.63 E-value=7.7e+02 Score=23.77 Aligned_cols=102 Identities=11% Similarity=0.129 Sum_probs=61.5
Q ss_pred HHHHHHHHHHHHHhHHHHHhhcCC--cccchHHHHHHHHHHHHhhhhhhhcccccccchh--hhccccHHHHHHHHHhhc
Q 016474 251 YVRQVDGMVAEFTDINRGMEKTGT--FTMESKKLFQLVGKANSNLADVILKLGLFERSDI--AWKDAKYAQIWEYLRDEF 326 (389)
Q Consensus 251 fE~~vd~~ie~~~~ip~~La~~G~--i~lsrkeL~k~iGel~~~r~~inl~~~lLDtPD~--~We~p~le~lY~~l~~~f 326 (389)
.+..+..+...+..+.+.+...|. ...+...+-+.++++=.....|-.+ + +..+-- -=+-.+.+.++.++...|
T Consensus 92 L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r-~-f~~~~~~Ae~El~~A~~LL~~v~~~~ 169 (264)
T PF06008_consen 92 LEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKR-D-FTPQRQNAEDELKEAEDLLSRVQKWF 169 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhc-c-chhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777777777777665 3456677777776665555555433 2 222111 112235678888888888
Q ss_pred -----cchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 016474 327 -----ELTQRFASLDFKLKFVEHNIRFLQEILQ 354 (389)
Q Consensus 327 -----EI~~R~~~LN~KL~vi~e~l~~L~e~l~ 354 (389)
+...+.+.+..+|+=...-+.-+.+.++
T Consensus 170 ~~~~~~~~~l~~~i~~~L~~~~~kL~Dl~~~l~ 202 (264)
T PF06008_consen 170 QKPQQENESLAEAIRDDLNDYNAKLQDLRDLLN 202 (264)
T ss_pred hhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7777777776666655555555555544
No 41
>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=20.11 E-value=3e+02 Score=25.54 Aligned_cols=58 Identities=16% Similarity=0.280 Sum_probs=36.8
Q ss_pred EEEEeeccccchhhHHHHhc-cCCCCCCCcccccEEEEecCCCCCCCccccccCCCCCccCCCCccEEEEEecCcEEEEc
Q 016474 122 VKAYFFSTSVDLRGLVDQNR-QNFIPPTSRMTNYVVLKFGTLSNPSGLLSSLSQGTGASISGSDCCFMVVFQYGSIVLFN 200 (389)
Q Consensus 122 V~Ay~~aesidL~~L~~~l~-~~~ip~~~~~~~~lvl~~~dl~~~~~~~s~~~~~~~~~~~~~~~~~vfvF~yGvVVfwn 200 (389)
|-..-++-.+||+.|+..+. ..|-|.+|.. ++++..+ ....+-+|+.|-+|+=|
T Consensus 8 Vas~~l~~~idL~~la~~~~n~eYePe~fpg---li~Rl~~----------------------Pk~t~lIF~SGKiviTG 62 (174)
T cd04516 8 VATVNLGCKLDLKKIALRARNAEYNPKRFAA---VIMRIRE----------------------PKTTALIFSSGKMVCTG 62 (174)
T ss_pred EEEEEcCCeecHHHHHhhCCCCEECCccCcE---EEEEeCC----------------------CcEEEEEECCCeEEEEe
Confidence 33445888999999997765 2333333222 3444331 22467899999999999
Q ss_pred CCCc
Q 016474 201 VSEP 204 (389)
Q Consensus 201 ~se~ 204 (389)
....
T Consensus 63 aks~ 66 (174)
T cd04516 63 AKSE 66 (174)
T ss_pred cCCH
Confidence 6543
Done!