Query 023181
Match_columns 286
No_of_seqs 237 out of 1428
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 09:02:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023181hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1315 Predicted DHHC-type Zn 100.0 7.8E-34 1.7E-38 256.6 7.6 189 83-286 19-259 (307)
2 KOG0509 Ankyrin repeat and DHH 100.0 5.7E-33 1.2E-37 265.4 13.8 257 14-284 275-584 (600)
3 KOG1314 DHHC-type Zn-finger pr 100.0 3.5E-33 7.6E-38 249.8 10.0 178 102-285 48-263 (414)
4 KOG1311 DHHC-type Zn-finger pr 100.0 1.1E-31 2.5E-36 245.7 12.8 145 125-286 79-267 (299)
5 PF01529 zf-DHHC: DHHC palmito 100.0 5.8E-31 1.3E-35 222.3 6.6 129 117-245 2-174 (174)
6 COG5273 Uncharacterized protei 100.0 3.3E-28 7.2E-33 222.5 12.1 185 101-285 55-280 (309)
7 KOG1313 DHHC-type Zn-finger pr 99.9 9.9E-28 2.1E-32 208.8 7.7 129 146-286 101-277 (309)
8 KOG1312 DHHC-type Zn-finger pr 99.9 1.2E-24 2.7E-29 190.5 9.7 74 114-187 110-188 (341)
9 PF13240 zinc_ribbon_2: zinc-r 87.0 0.43 9.3E-06 26.4 1.4 21 149-169 1-21 (23)
10 KOG1311 DHHC-type Zn-finger pr 84.7 1.9 4.2E-05 39.4 5.5 27 160-186 112-138 (299)
11 PF13248 zf-ribbon_3: zinc-rib 80.9 1.2 2.6E-05 25.3 1.6 22 148-169 3-24 (26)
12 PRK04136 rpl40e 50S ribosomal 78.6 1.3 2.9E-05 29.0 1.5 24 146-169 13-36 (48)
13 PF12773 DZR: Double zinc ribb 77.2 2.7 5.8E-05 27.5 2.7 34 147-180 12-48 (50)
14 PTZ00303 phosphatidylinositol 75.6 2.2 4.8E-05 43.8 2.7 22 148-169 461-489 (1374)
15 PF10571 UPF0547: Uncharacteri 65.8 4.6 0.0001 23.0 1.5 21 149-169 2-22 (26)
16 COG3336 Predicted membrane pro 64.0 38 0.00083 31.0 7.8 58 75-132 126-187 (299)
17 PF01529 zf-DHHC: DHHC palmito 62.8 3.8 8.1E-05 33.9 1.1 29 157-185 44-72 (174)
18 PF01363 FYVE: FYVE zinc finge 56.0 3.8 8.3E-05 28.6 0.0 25 147-171 9-35 (69)
19 KOG1842 FYVE finger-containing 55.4 3.7 8.1E-05 39.4 -0.1 27 145-171 178-206 (505)
20 PF06906 DUF1272: Protein of u 55.3 5.8 0.00013 27.0 0.8 32 148-179 6-45 (57)
21 smart00064 FYVE Protein presen 55.0 11 0.00024 26.1 2.3 25 147-171 10-36 (68)
22 PF12773 DZR: Double zinc ribb 53.1 13 0.00029 24.1 2.3 23 146-168 28-50 (50)
23 COG4986 ABC-type anion transpo 50.3 1.4E+02 0.003 29.1 9.3 99 28-128 6-108 (523)
24 PF11674 DUF3270: Protein of u 49.8 77 0.0017 23.8 6.1 19 43-61 63-81 (90)
25 TIGR00155 pqiA_fam integral me 48.0 28 0.00062 33.4 4.6 31 148-178 216-247 (403)
26 PF00641 zf-RanBP: Zn-finger i 46.5 7.1 0.00015 22.7 0.2 21 149-169 6-26 (30)
27 COG1552 RPL40A Ribosomal prote 46.3 5 0.00011 26.5 -0.6 25 147-171 14-38 (50)
28 cd00065 FYVE FYVE domain; Zinc 45.0 15 0.00032 24.4 1.6 23 148-170 3-27 (57)
29 PF01020 Ribosomal_L40e: Ribos 43.8 12 0.00026 25.0 0.9 24 147-170 17-42 (52)
30 COG2093 DNA-directed RNA polym 39.6 17 0.00037 25.3 1.2 23 148-170 5-27 (64)
31 cd01995 ExsB ExsB is a transcr 38.5 10 0.00023 31.2 0.0 23 149-174 142-164 (169)
32 PF09726 Macoilin: Transmembra 36.8 3.7E+02 0.008 27.9 10.8 18 82-99 101-118 (697)
33 PF13842 Tnp_zf-ribbon_2: DDE_ 36.5 26 0.00057 20.8 1.6 19 150-168 3-23 (32)
34 PF07010 Endomucin: Endomucin; 36.0 72 0.0016 28.2 4.7 25 111-135 203-227 (259)
35 KOG0509 Ankyrin repeat and DHH 35.0 1.8E+02 0.0039 29.4 7.8 29 158-186 416-445 (600)
36 PF08600 Rsm1: Rsm1-like; Int 33.1 22 0.00047 26.6 1.0 13 173-185 53-65 (91)
37 KOG1729 FYVE finger containing 29.4 20 0.00044 32.8 0.3 27 147-173 168-197 (288)
38 PRK14559 putative protein seri 29.3 47 0.001 34.0 2.9 30 148-179 16-45 (645)
39 TIGR02745 ccoG_rdxA_fixG cytoc 27.8 4.8E+02 0.01 25.4 9.4 21 111-131 184-204 (434)
40 KOG3183 Predicted Zn-finger pr 27.4 32 0.00069 30.5 1.2 16 168-183 35-50 (250)
41 PRK15103 paraquat-inducible me 27.3 5.7E+02 0.012 24.7 12.8 32 148-179 222-253 (419)
42 KOG1818 Membrane trafficking a 27.0 25 0.00054 35.6 0.5 22 148-169 166-189 (634)
43 smart00423 PSI domain found in 24.9 29 0.00064 22.1 0.4 17 165-181 5-21 (46)
44 TIGR00364 exsB protein. This p 24.2 39 0.00084 28.7 1.2 13 161-173 189-201 (201)
45 smart00547 ZnF_RBZ Zinc finger 23.7 48 0.001 18.2 1.1 21 149-169 4-24 (26)
46 COG3694 ABC-type uncharacteriz 23.7 2.3E+02 0.005 25.4 5.8 38 8-48 190-229 (260)
47 PF01437 PSI: Plexin repeat; 23.4 17 0.00037 23.8 -1.0 17 165-181 6-22 (51)
48 COG5273 Uncharacterized protei 23.3 45 0.00097 30.8 1.4 103 146-248 122-248 (309)
49 KOG1315 Predicted DHHC-type Zn 23.3 2E+02 0.0044 26.6 5.7 28 160-187 108-135 (307)
50 TIGR03747 conj_TIGR03747 integ 23.2 2.6E+02 0.0056 24.8 6.1 46 11-60 177-222 (233)
51 PF14127 DUF4294: Domain of un 22.8 67 0.0015 26.7 2.2 32 233-285 103-134 (157)
52 PRK14559 putative protein seri 22.3 97 0.0021 31.7 3.7 24 148-171 28-51 (645)
53 smart00661 RPOL9 RNA polymeras 22.2 52 0.0011 21.2 1.2 10 148-157 1-10 (52)
54 PF00751 DM: DM DNA binding do 22.0 35 0.00075 22.4 0.3 15 168-182 12-28 (47)
55 PF06796 NapE: Periplasmic nit 21.0 2.1E+02 0.0046 19.5 3.9 22 14-35 14-35 (56)
56 PRK00432 30S ribosomal protein 20.6 69 0.0015 21.1 1.5 24 146-169 19-45 (50)
57 PF14319 Zn_Tnp_IS91: Transpos 20.4 51 0.0011 25.6 1.0 22 148-169 43-68 (111)
58 PF02150 RNA_POL_M_15KD: RNA p 20.1 36 0.00079 20.6 0.1 9 148-156 2-10 (35)
59 PF04161 Arv1: Arv1-like famil 20.1 38 0.00082 29.3 0.2 26 149-174 2-37 (208)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=7.8e-34 Score=256.60 Aligned_cols=189 Identities=17% Similarity=0.272 Sum_probs=131.1
Q ss_pred HHHHHHHHhhhhhhcc--------chhhHHHHHHHHHHHHHHHHHHHHhhcCCCccCCCCCccccc----c---------
Q 023181 83 FNILFIWGFYIAVVRQ--------AVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKL----V--------- 141 (286)
Q Consensus 83 ~~~~~~w~~~~~~~~~--------~~~~~~~~~f~~~~~~~~~~~~~~~~~dPG~i~~~~~~~~~~----~--------- 141 (286)
..+...|.+|+++... ....+..+.+.++.++..|++++++++|||.+|.......+. +
T Consensus 19 i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~~~~~~~ 98 (307)
T KOG1315|consen 19 ILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGSDNERDL 98 (307)
T ss_pred eeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccCcccccc
Confidence 3455668777776552 123556778888999999999999999999998765421110 0
Q ss_pred -----cCCCCCCCCCCCCCCCCCCCCCCcccCcccccCCCccccccCeeeeeee------eeec----------------
Q 023181 142 -----EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIVVGKS------QNFD---------------- 194 (286)
Q Consensus 142 -----~~~~~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpWi~nCVg~~~~------i~~~---------------- 194 (286)
..+...++|.+|+.+||+|||||++|+|||+||||||||+|||||.... +.+.
T Consensus 99 ~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~ 178 (307)
T KOG1315|consen 99 PGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFT 178 (307)
T ss_pred eeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0112458999999999999999999999999999999999999986421 0010
Q ss_pred ccc-c-CC--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhHHhhhccCCCccccccCCCCccccCCCcCCCC
Q 023181 195 KSQ-S-EN--DWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWKKYPEFQVIESEPGESFTRMRFTNPY 270 (286)
Q Consensus 195 ~~~-~-~~--~~~~~~~~~~~~~~~~~~~~~~~ll~~ql~lI~~n~TT~E~~~~~r~~~~~~~~~~~~~~~~~~~~~npy 270 (286)
... . .. +.....+.+.++.+....+-++.++++|+++|++|+||+|..+.+.+. .+....|.|
T Consensus 179 ~~~~~~~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~-------------~~~~~~~~~ 245 (307)
T KOG1315|consen 179 KYFQGGAGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFR-------------SGLHNKNGF 245 (307)
T ss_pred HHHhccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhcccccc-------------ccccccCCc
Confidence 000 0 11 111223333455555566666679999999999999999998644221 122356777
Q ss_pred CHhHHHHHHHhcCCCC
Q 023181 271 DKGFLQNVKDFLSLRR 286 (286)
Q Consensus 271 d~G~~~N~~~~fg~~r 286 (286)
|. ..|+.|+||.+.
T Consensus 246 ~~--~~n~~~vfg~~~ 259 (307)
T KOG1315|consen 246 NL--YVNFREVFGSNL 259 (307)
T ss_pred ce--eecHHHHhCCCc
Confidence 77 889999999763
No 2
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=100.00 E-value=5.7e-33 Score=265.45 Aligned_cols=257 Identities=21% Similarity=0.279 Sum_probs=170.6
Q ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHhHhHhhc-------cccccchHHH-HHHH
Q 023181 14 LPLICRCIISCILVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLLVQTLCGWCRRLL-------GVCASAPAFV-FFNI 85 (286)
Q Consensus 14 ~~~~~~~~~~~~~f~~p~~~~~~~~~~~~~~~~~~~lpl~~~~~~~~~~~~~~~~~~~-------~~~~~~p~~~-~~~~ 85 (286)
...+++.+++...|. .+..++.+....+.++.+-.+ +..+....+.+++.... +....+|+.. ++.+
T Consensus 275 K~~~~~~~~~~~~f~----~~~~~~~~~~~~~g~i~~~~~-~w~i~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 (600)
T KOG0509|consen 275 KWFLGSKLAALIFFI----FLGLFYFISSWLPGVIFLINS-LWLIKGLALGKLVLTCLCATRKIVGFLLRPPLLSGFFLS 349 (600)
T ss_pred chhhhhHHHHHHHHH----HHHHHHHHHhhccchhhhhhh-HHHHhhhhhhhhhhheeccchhhccccccchhHHHHHHH
Confidence 344566666666665 777888888888888876666 33333344444444221 2455667776 7778
Q ss_pred HHHHHhhhhhhccch--hhHHHHHHHHHHHHHHHHHHHHhhcCCCccCCCCCccc-------ccccCCCCCCCCCCCCCC
Q 023181 86 LFIWGFYIAVVRQAV--SSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLD-------KLVEGSELGVDPDNENSL 156 (286)
Q Consensus 86 ~~~w~~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~dPG~i~~~~~~~~-------~~~~~~~~~~~C~~C~~~ 156 (286)
+.+|.++.|.....+ .+...+.+.+..+.+++.++++..+|||++|.+.+... |.++.+..++||.+|.++
T Consensus 350 ~~fw~~~~w~~~i~~~~~~~~~~~~i~~~l~~~~~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~en~FC~~clir 429 (600)
T KOG0509|consen 350 TLFWFYYFWFSKITPYTLFDFHYCFIISVLAYFITFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLENRFCLTCLIR 429 (600)
T ss_pred HHHHHHHhhheeccchhhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCchhhHHHHHHHhhccccccccccceeeeeee
Confidence 999999999774332 34456666777777888889999999999999887532 344555433699999999
Q ss_pred CCCCCCCCcccCcccccCCCccccccCeeeeeeeeee----------------cc--cccCCch--HHH--HHHHHHHH-
Q 023181 157 SRKRVRYCKICKAHVEGFDHHCPAFGNCIVVGKSQNF----------------DK--SQSENDW--VVN--LATSTMLF- 213 (286)
Q Consensus 157 kP~RskHC~~C~~CV~rfDHHCpWi~nCVg~~~~i~~----------------~~--~~~~~~~--~~~--~~~~~~~~- 213 (286)
||.|||||+.|||||+||||||||++||||...--.+ .. ...+... ..+ .++.+..+
T Consensus 430 Kp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~~~~~~~l~~~~~~~ 509 (600)
T KOG0509|consen 430 KPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENASTIYVGFLIAVQAFR 509 (600)
T ss_pred cCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999987421000 00 0001110 000 00100000
Q ss_pred ------------HHHHHHHHHHHHH-HHHHHHHhCchhHHhhhccCCCccccccCCCCccccCCCcCCCCCHhHHHHHHH
Q 023181 214 ------------SILQLLWQAVFFM-WHIYCVCFNVRTDEWVNWKKYPEFQVIESEPGESFTRMRFTNPYDKGFLQNVKD 280 (286)
Q Consensus 214 ------------~~~~~~~~~~ll~-~ql~lI~~n~TT~E~~~~~r~~~~~~~~~~~~~~~~~~~~~npyd~G~~~N~~~ 280 (286)
.-+...|...... .|-..++.++||+|.+|.+||++++. ++...++|++.|..+|+.|
T Consensus 510 ~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~---------~~~~~~~~~s~g~~~Nl~d 580 (600)
T KOG0509|consen 510 IPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGI---------KRGPTRSPFSPGPIRNLVD 580 (600)
T ss_pred CCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhcccc---------ccCcCCCCCCchhhhcchh
Confidence 0001113333332 23345799999999999999999873 3445789999999999999
Q ss_pred hcCC
Q 023181 281 FLSL 284 (286)
Q Consensus 281 ~fg~ 284 (286)
|+-.
T Consensus 581 f~~~ 584 (600)
T KOG0509|consen 581 FFLC 584 (600)
T ss_pred eeec
Confidence 9853
No 3
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.5e-33 Score=249.82 Aligned_cols=178 Identities=16% Similarity=0.144 Sum_probs=127.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcCCCccCCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCcccCcccccCCCccccc
Q 023181 102 SLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAF 181 (286)
Q Consensus 102 ~~~~~~f~~~~~~~~~~~~~~~~~dPG~i~~~~~~~~~~~~~~~~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpWi 181 (286)
..-.+.|.+...+.+|+|+.++++.||++|..+.++...+ +.-.+||..|+.+|++|||||+.|||||.+|||||||+
T Consensus 48 ~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D--~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWi 125 (414)
T KOG1314|consen 48 VPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKD--EMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWI 125 (414)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChh--HHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcch
Confidence 4455677778889999999999999999999887533222 12248999999999999999999999999999999999
Q ss_pred cCeeeee--------------eeee---------ecccc--------c-------CCchHHHHHHHHHHHHHHHHHHHHH
Q 023181 182 GNCIVVG--------------KSQN---------FDKSQ--------S-------ENDWVVNLATSTMLFSILQLLWQAV 223 (286)
Q Consensus 182 ~nCVg~~--------------~~i~---------~~~~~--------~-------~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (286)
|||||.. +|+- +..++ . -.......+++.+.+++..++-+++
T Consensus 126 nnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~ 205 (414)
T KOG1314|consen 126 NNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTM 205 (414)
T ss_pred hhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHH
Confidence 9999752 1111 10110 0 0011112233445556666777788
Q ss_pred HHHHHHHHHHhCchhHHhhhccCCCccccccCCCCccccCCCcCCCCCHhHHHHHHHhcCCC
Q 023181 224 FFMWHIYCVCFNVRTDEWVNWKKYPEFQVIESEPGESFTRMRFTNPYDKGFLQNVKDFLSLR 285 (286)
Q Consensus 224 ll~~ql~lI~~n~TT~E~~~~~r~~~~~~~~~~~~~~~~~~~~~npyd~G~~~N~~~~fg~~ 285 (286)
|++.|+.+|.+|+|.+|...-+|..+.+.... .+..++...|||.|+..|+++||..+
T Consensus 206 Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~----~d~~~~f~ypydlgWr~n~r~vf~~~ 263 (414)
T KOG1314|consen 206 LFFIQLKQILNNRTGIESWIVEKAMDRREYYF----NDDEGEFTYPYDLGWRINLREVFFQN 263 (414)
T ss_pred HHHHHHHHHHcCCcchHHHHHHHHHHHHHhhc----cCCCCceeeeccccccccHHHHhhhc
Confidence 99999999999999999866444433332111 12235688999999778999999765
No 4
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=1.1e-31 Score=245.68 Aligned_cols=145 Identities=23% Similarity=0.299 Sum_probs=101.8
Q ss_pred cCCCccCCCCCcccccc------c------CCCCCCCCCCCCCCCCCCCCCCcccCcccccCCCccccccCeeeeeee--
Q 023181 125 KDPGLITNEFPHLDKLV------E------GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIVVGKS-- 190 (286)
Q Consensus 125 ~dPG~i~~~~~~~~~~~------~------~~~~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpWi~nCVg~~~~-- 190 (286)
+|||.+|+..+...|.. + .+...+||.+|+.+||+|||||+.||+||.||||||||+|||||....
T Consensus 79 sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~ 158 (299)
T KOG1311|consen 79 SDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRY 158 (299)
T ss_pred CCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHH
Confidence 49999999632111110 0 111358999999999999999999999999999999999999986321
Q ss_pred ----eee--------------c------cc---cc--CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhHHh
Q 023181 191 ----QNF--------------D------KS---QS--ENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEW 241 (286)
Q Consensus 191 ----i~~--------------~------~~---~~--~~~~~~~~~~~~~~~~~~~~~~~~~ll~~ql~lI~~n~TT~E~ 241 (286)
+.+ . .. .. ..+......+.+.+++++.+..++.|+.+|++++.+|+||+|.
T Consensus 159 F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~ 238 (299)
T KOG1311|consen 159 FVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYES 238 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhh
Confidence 000 0 00 00 1111112233345667777777788999999999999999999
Q ss_pred hhccCCCccccccCCCCccccCCCc-CCCCCHhHHHHHHHhcCCCC
Q 023181 242 VNWKKYPEFQVIESEPGESFTRMRF-TNPYDKGFLQNVKDFLSLRR 286 (286)
Q Consensus 242 ~~~~r~~~~~~~~~~~~~~~~~~~~-~npyd~G~~~N~~~~fg~~r 286 (286)
++. ++ .+. .+|||+|.++|++++||.++
T Consensus 239 ~~~--~~---------------~~~~~~~~~~g~~~n~~~~~~~~~ 267 (299)
T KOG1311|consen 239 IKS--LD---------------FVSRSNPYDLGLLKNLQEVFGGPL 267 (299)
T ss_pred hhc--cc---------------cccccCCCchhHHHHHHHHhCCCC
Confidence 854 11 112 59999999999999999863
No 5
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=99.97 E-value=5.8e-31 Score=222.31 Aligned_cols=129 Identities=20% Similarity=0.334 Sum_probs=92.6
Q ss_pred HHHHHHhhcCCCccCCC-CCc--------cc-------ccccCCCCCCCCCCCCCCCCCCCCCCcccCcccccCCCcccc
Q 023181 117 IGLCSIMSKDPGLITNE-FPH--------LD-------KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPA 180 (286)
Q Consensus 117 ~~~~~~~~~dPG~i~~~-~~~--------~~-------~~~~~~~~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpW 180 (286)
++|+++..+|||++|.. .++ .. +..+.+...++|.+|+..||+|||||+.||+||.||||||||
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w 81 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPW 81 (174)
T ss_pred EEehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchh
Confidence 56889999999999998 111 00 001112245899999999999999999999999999999999
Q ss_pred ccCeeeeeee------eee-------------ccc----c--cCCchH--HHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023181 181 FGNCIVVGKS------QNF-------------DKS----Q--SENDWV--VNL-ATSTMLFSILQLLWQAVFFMWHIYCV 232 (286)
Q Consensus 181 i~nCVg~~~~------i~~-------------~~~----~--~~~~~~--~~~-~~~~~~~~~~~~~~~~~ll~~ql~lI 232 (286)
+|||||.... +.+ ... . ....+. ... .+..++++++..++++.+++.|++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i 161 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLI 161 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999986311 000 000 0 001111 111 14567777888899999999999999
Q ss_pred HhCchhHHhhhcc
Q 023181 233 CFNVRTDEWVNWK 245 (286)
Q Consensus 233 ~~n~TT~E~~~~~ 245 (286)
++|+||+|.+|+|
T Consensus 162 ~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 162 LRNITTYERIKRK 174 (174)
T ss_pred HcCCcHHHHHHcC
Confidence 9999999998753
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.95 E-value=3.3e-28 Score=222.46 Aligned_cols=185 Identities=18% Similarity=0.230 Sum_probs=121.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcCCCccCCCCCcc--ccc------ccCCCCCCCCCCCCCCCCCCCCCCcccCcccc
Q 023181 101 SSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHL--DKL------VEGSELGVDPDNENSLSRKRVRYCKICKAHVE 172 (286)
Q Consensus 101 ~~~~~~~f~~~~~~~~~~~~~~~~~dPG~i~~~~~~~--~~~------~~~~~~~~~C~~C~~~kP~RskHC~~C~~CV~ 172 (286)
.....+.+.+...+...++++..++|||..+++.... ++. ...+...++|.+|+.+||+|||||+.||+||+
T Consensus 55 ~~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~ 134 (309)
T COG5273 55 VVLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVL 134 (309)
T ss_pred hhhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcchhh
Confidence 3556677777788888999999999999998653321 111 01122569999999999999999999999999
Q ss_pred cCCCccccccCeeeeeee---------------ee-------ecccc--cCCchH--HHHHHHHHHHHHHHHHHHHHHHH
Q 023181 173 GFDHHCPAFGNCIVVGKS---------------QN-------FDKSQ--SENDWV--VNLATSTMLFSILQLLWQAVFFM 226 (286)
Q Consensus 173 rfDHHCpWi~nCVg~~~~---------------i~-------~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~ll~ 226 (286)
||||||||+|||||.... +. ..... ...+.. ...+......+...++.+..++.
T Consensus 135 k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~ 214 (309)
T COG5273 135 KFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLIFGCSLLGVVFFIITTLLLL 214 (309)
T ss_pred ccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 999999999999987310 00 01111 111111 11222223444445666677889
Q ss_pred HHHHHHHhCchhHHhhhccCCCccccccC----C--CCc-cccCCCcCCCCCHhHHHHHHHhcCCC
Q 023181 227 WHIYCVCFNVRTDEWVNWKKYPEFQVIES----E--PGE-SFTRMRFTNPYDKGFLQNVKDFLSLR 285 (286)
Q Consensus 227 ~ql~lI~~n~TT~E~~~~~r~~~~~~~~~----~--~~~-~~~~~~~~npyd~G~~~N~~~~fg~~ 285 (286)
++.+++..|+||+|.....|......... . +++ ........+|++.|.-+|+..+++.+
T Consensus 215 ~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~i~~~~ 280 (309)
T COG5273 215 FLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDLGIGQNLSTIKGSN 280 (309)
T ss_pred HHHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCccccccccCccccceeecCCC
Confidence 99999999999999887555554432211 0 000 01111246788888888888877754
No 7
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.94 E-value=9.9e-28 Score=208.84 Aligned_cols=129 Identities=20% Similarity=0.256 Sum_probs=92.8
Q ss_pred CCCCCCCCCCCCCCCCCCCcccCcccccCCCccccccCeeeeee------e----------eee-------------c--
Q 023181 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIVVGK------S----------QNF-------------D-- 194 (286)
Q Consensus 146 ~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpWi~nCVg~~~------~----------i~~-------------~-- 194 (286)
...+|.+|..+||+|+|||+.||+||+||||||||+|||||.+. + ..+ .
T Consensus 101 ~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~ 180 (309)
T KOG1313|consen 101 NDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEI 180 (309)
T ss_pred cccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhc
Confidence 34899999999999999999999999999999999999998631 0 000 0
Q ss_pred ccc-----cCCch---H-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhHHhhhc--cCCCccccccCCC
Q 023181 195 KSQ-----SENDW---V-------VNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNW--KKYPEFQVIESEP 257 (286)
Q Consensus 195 ~~~-----~~~~~---~-------~~~~~~~~~~~~~~~~~~~~ll~~ql~lI~~n~TT~E~~~~--~r~~~~~~~~~~~ 257 (286)
+.+ ...|. . ........+.++..++.++.+..+|.++|.+|.|..|+... +|.++++
T Consensus 181 tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a------ 254 (309)
T KOG1313|consen 181 TAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLA------ 254 (309)
T ss_pred ccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHH------
Confidence 000 00110 0 01123345556666777888999999999999999998653 3323322
Q ss_pred CccccCCCcCCCCCHhHHHHHHHhcCCCC
Q 023181 258 GESFTRMRFTNPYDKGFLQNVKDFLSLRR 286 (286)
Q Consensus 258 ~~~~~~~~~~npyd~G~~~N~~~~fg~~r 286 (286)
+ ...||++.|..+||+.++|-.|
T Consensus 255 -----~-~R~~~~n~g~k~nWr~fLg~~~ 277 (309)
T KOG1313|consen 255 -----H-LRSNPTNFGGKANWRNFLGLFR 277 (309)
T ss_pred -----h-ccCCCcccchHHHHHHhhcccc
Confidence 1 2489999999999999999764
No 8
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.91 E-value=1.2e-24 Score=190.46 Aligned_cols=74 Identities=27% Similarity=0.400 Sum_probs=59.6
Q ss_pred HHHHHHHHHhhcCCCccCCCCCcc-cccccCCC----CCCCCCCCCCCCCCCCCCCcccCcccccCCCccccccCeeee
Q 023181 114 MIIIGLCSIMSKDPGLITNEFPHL-DKLVEGSE----LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIVV 187 (286)
Q Consensus 114 ~~~~~~~~~~~~dPG~i~~~~~~~-~~~~~~~~----~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCpWi~nCVg~ 187 (286)
+-..+++.+..+|||.+.++.... .+.-+.|. ...-|+||+++||.|||||+.||+||+||||||.|+|||||.
T Consensus 110 vp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~ 188 (341)
T KOG1312|consen 110 VPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGA 188 (341)
T ss_pred HHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccceEeeeccccc
Confidence 334677889999999998865431 12222332 347899999999999999999999999999999999999986
No 9
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=87.02 E-value=0.43 Score=26.42 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCCCCCcccCc
Q 023181 149 DPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 149 ~C~~C~~~kP~RskHC~~C~~ 169 (286)
+|..|...-++.++.|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 688999999999999998875
No 10
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=84.73 E-value=1.9 Score=39.36 Aligned_cols=27 Identities=26% Similarity=0.742 Sum_probs=25.3
Q ss_pred CCCCCcccCcccccCCCccccccCeee
Q 023181 160 RVRYCKICKAHVEGFDHHCPAFGNCIV 186 (286)
Q Consensus 160 RskHC~~C~~CV~rfDHHCpWi~nCVg 186 (286)
+-|+|..|+..+.++-|||+.=|+||-
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~ 138 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVL 138 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhccccc
Confidence 379999999999999999999999993
No 11
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=80.90 E-value=1.2 Score=25.29 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCCCCCCcccCc
Q 023181 148 VDPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 148 ~~C~~C~~~kP~RskHC~~C~~ 169 (286)
.+|..|....++.++.|+.|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 6799999888888889988875
No 12
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=78.63 E-value=1.3 Score=29.00 Aligned_cols=24 Identities=17% Similarity=0.052 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCCCCCCCCcccCc
Q 023181 146 LGVDPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 146 ~~~~C~~C~~~kP~RskHC~~C~~ 169 (286)
....|..|..+-|+|+..|+.|+.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 357899999999999999998875
No 13
>PF12773 DZR: Double zinc ribbon
Probab=77.20 E-value=2.7 Score=27.47 Aligned_cols=34 Identities=15% Similarity=0.196 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCC---CCCCCCcccCcccccCCCcccc
Q 023181 147 GVDPDNENSLSR---KRVRYCKICKAHVEGFDHHCPA 180 (286)
Q Consensus 147 ~~~C~~C~~~kP---~RskHC~~C~~CV~rfDHHCpW 180 (286)
.+||..|....+ ...+.|..|+.=+...+.+|+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 478888887765 3466788888887777777764
No 14
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=75.59 E-value=2.2 Score=43.77 Aligned_cols=22 Identities=14% Similarity=0.166 Sum_probs=18.1
Q ss_pred CCCCCCCCCCC-------CCCCCCcccCc
Q 023181 148 VDPDNENSLSR-------KRVRYCKICKA 169 (286)
Q Consensus 148 ~~C~~C~~~kP-------~RskHC~~C~~ 169 (286)
.-|..|+..-. .|-|||+.|++
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 67999998764 39999998876
No 15
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=65.80 E-value=4.6 Score=23.01 Aligned_cols=21 Identities=10% Similarity=0.267 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCCCCCCcccCc
Q 023181 149 DPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 149 ~C~~C~~~kP~RskHC~~C~~ 169 (286)
.|..|....|.-++-|..||.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCC
Confidence 588999999999999988874
No 16
>COG3336 Predicted membrane protein [Function unknown]
Probab=63.99 E-value=38 Score=30.99 Aligned_cols=58 Identities=19% Similarity=0.189 Sum_probs=36.0
Q ss_pred ccchHHH-HHHHHHHHHhhhhhhcc--chhhHHHHHHHHHHHHHHHHHHHHhhc-CCCccCC
Q 023181 75 ASAPAFV-FFNILFIWGFYIAVVRQ--AVSSLIGGLFNIEVAMIIIGLCSIMSK-DPGLITN 132 (286)
Q Consensus 75 ~~~p~~~-~~~~~~~w~~~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~-dPG~i~~ 132 (286)
...|..+ +...-.+|.+++-...+ ..++..+.+..+.++...|.++..+.. |||.=+.
T Consensus 126 ~~~P~vA~ilfig~~~~~hvpplfda~v~~p~~H~lm~~~~f~~aylfww~mI~~dpg~r~l 187 (299)
T COG3336 126 LSHPIVALILFIGAFWAWHVPPLFDAAVTSPTLHLLMNLLFFLSAYLFWWAMIGPDPGPRRL 187 (299)
T ss_pred hhhHHHHHHHHHHHHHHhccchhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHccCCCCccc
Confidence 3456666 33344556555443333 245777888888888888877777665 9995433
No 17
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=62.82 E-value=3.8 Score=33.90 Aligned_cols=29 Identities=28% Similarity=0.753 Sum_probs=22.6
Q ss_pred CCCCCCCCcccCcccccCCCccccccCee
Q 023181 157 SRKRVRYCKICKAHVEGFDHHCPAFGNCI 185 (286)
Q Consensus 157 kP~RskHC~~C~~CV~rfDHHCpWi~nCV 185 (286)
...+.++|..|+.=....-|||..-+.||
T Consensus 44 ~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV 72 (174)
T PF01529_consen 44 ENGELKYCSTCKIIKPPRSHHCRVCNRCV 72 (174)
T ss_pred cCCCCEECcccCCcCCCcceecccccccc
Confidence 55567788888777777788888888887
No 18
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=55.97 E-value=3.8 Score=28.62 Aligned_cols=25 Identities=16% Similarity=0.126 Sum_probs=12.1
Q ss_pred CCCCCCCCCC--CCCCCCCCcccCccc
Q 023181 147 GVDPDNENSL--SRKRVRYCKICKAHV 171 (286)
Q Consensus 147 ~~~C~~C~~~--kP~RskHC~~C~~CV 171 (286)
...|..|... --.|-|||+.||+.|
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEE
Confidence 3667778765 346888999998854
No 19
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=55.41 E-value=3.7 Score=39.39 Aligned_cols=27 Identities=11% Similarity=0.117 Sum_probs=21.2
Q ss_pred CCCCCCCCCCCC--CCCCCCCCcccCccc
Q 023181 145 ELGVDPDNENSL--SRKRVRYCKICKAHV 171 (286)
Q Consensus 145 ~~~~~C~~C~~~--kP~RskHC~~C~~CV 171 (286)
..-.+|+.|... --.|-|||+.||+-+
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHH
Confidence 345899999976 345899999999854
No 20
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=55.28 E-value=5.8 Score=26.96 Aligned_cols=32 Identities=16% Similarity=0.282 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCCCC-------CCCcccCcccccC-CCccc
Q 023181 148 VDPDNENSLSRKRV-------RYCKICKAHVEGF-DHHCP 179 (286)
Q Consensus 148 ~~C~~C~~~kP~Rs-------kHC~~C~~CV~rf-DHHCp 179 (286)
.-|..|..--|+-| .-|..|..|+... +++||
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP 45 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP 45 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc
Confidence 34666666655543 6688999999998 99998
No 21
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF12773 DZR: Double zinc ribbon
Probab=53.14 E-value=13 Score=24.06 Aligned_cols=23 Identities=13% Similarity=0.192 Sum_probs=20.5
Q ss_pred CCCCCCCCCCCCCCCCCCCcccC
Q 023181 146 LGVDPDNENSLSRKRVRYCKICK 168 (286)
Q Consensus 146 ~~~~C~~C~~~kP~RskHC~~C~ 168 (286)
...+|..|....++.+++|..|+
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 45889999999999999999886
No 23
>COG4986 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]
Probab=50.31 E-value=1.4e+02 Score=29.15 Aligned_cols=99 Identities=17% Similarity=0.169 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH---HHHHhHhHhhccccccchHHHHHHHHHHHHhhhhhhccchh-hH
Q 023181 28 LLTQLTLSLVPRFFAASPFIVQFALSGLVLLLV---QTLCGWCRRLLGVCASAPAFVFFNILFIWGFYIAVVRQAVS-SL 103 (286)
Q Consensus 28 ~~p~~~~~~~~~~~~~~~~~~~lpl~~~~~~~~---~~~~~~~~~~~~~~~~~p~~~~~~~~~~w~~~~~~~~~~~~-~~ 103 (286)
++|...+..+.+.+.. ..+.+..+..++++. +...+.......++++-|.+-+|...+....+.+--..+.+ ..
T Consensus 6 ~i~la~LaT~gRm~~a--i~iSi~~~~~lAy~A~Ksk~~E~i~ip~ldVlqSVPVlgFfpi~l~~Fv~lfpG~lGvElAa 83 (523)
T COG4986 6 LIPLALLATAGRMLLA--ILISILTGWFLAYAAIKSKRFENIYIPVLDVLQSVPVLGFFPIVLIFFVYLFPGPLGVELAA 83 (523)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhhhhHhhhhhHHHHHhcCchheehhhhhhhhhhhcCcchhHHHHH
Confidence 4555666666555542 222344444445444 34445555555688899999888765555444332111112 23
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCC
Q 023181 104 IGGLFNIEVAMIIIGLCSIMSKDPG 128 (286)
Q Consensus 104 ~~~~f~~~~~~~~~~~~~~~~~dPG 128 (286)
..++|.....-+..+.|++..+-|.
T Consensus 84 ~FlvFTs~aWNi~fs~YQsFkTvP~ 108 (523)
T COG4986 84 DFLVFTSVAWNIWFSEYQSFKTVPS 108 (523)
T ss_pred HHHHHHHHHHHHHHHHHHHHccCCH
Confidence 3456666666677788888877664
No 24
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=49.78 E-value=77 Score=23.79 Aligned_cols=19 Identities=21% Similarity=0.202 Sum_probs=14.2
Q ss_pred cchHHHHHHHHHHHHHHHH
Q 023181 43 ASPFIVQFALSGLVLLLVQ 61 (286)
Q Consensus 43 ~~~~~~~lpl~~~~~~~~~ 61 (286)
.++.+.|.|+|.++.++..
T Consensus 63 kl~t~~Af~~Ai~~Sl~~~ 81 (90)
T PF11674_consen 63 KLNTFWAFPLAILISLAIT 81 (90)
T ss_pred hhhHHHHHHHHHHHHHHHH
Confidence 3677778888888887763
No 25
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=47.96 E-value=28 Score=33.38 Aligned_cols=31 Identities=6% Similarity=0.068 Sum_probs=23.5
Q ss_pred CCCCCCCC-CCCCCCCCCcccCcccccCCCcc
Q 023181 148 VDPDNENS-LSRKRVRYCKICKAHVEGFDHHC 178 (286)
Q Consensus 148 ~~C~~C~~-~kP~RskHC~~C~~CV~rfDHHC 178 (286)
.-|+.|+. ..|....+|..|+.-..+.+++.
T Consensus 216 ~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 216 RSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 45999998 45566678999998887777654
No 26
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=46.52 E-value=7.1 Score=22.65 Aligned_cols=21 Identities=14% Similarity=0.192 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCCCcccCc
Q 023181 149 DPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 149 ~C~~C~~~kP~RskHC~~C~~ 169 (286)
.|..|...-+.++.+|..|+.
T Consensus 6 ~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 6 KCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EETTTTEEEESSSSB-TTT--
T ss_pred cCCCCcCCchHHhhhhhCcCC
Confidence 488888888888888888864
No 27
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=46.32 E-value=5 Score=26.45 Aligned_cols=25 Identities=12% Similarity=0.074 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCCCCCCCCcccCccc
Q 023181 147 GVDPDNENSLSRKRVRYCKICKAHV 171 (286)
Q Consensus 147 ~~~C~~C~~~kP~RskHC~~C~~CV 171 (286)
...|..|..+-|+|+.-|+.|+.=-
T Consensus 14 kkIC~rC~Arnp~~A~kCRkC~~k~ 38 (50)
T COG1552 14 KKICRRCYARNPPRATKCRKCGYKN 38 (50)
T ss_pred HHHHHHhcCCCCcchhHHhhccCCC
Confidence 4779999999999999999887543
No 28
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=44.99 E-value=15 Score=24.35 Aligned_cols=23 Identities=13% Similarity=0.140 Sum_probs=15.2
Q ss_pred CCCCCCCCC--CCCCCCCCcccCcc
Q 023181 148 VDPDNENSL--SRKRVRYCKICKAH 170 (286)
Q Consensus 148 ~~C~~C~~~--kP~RskHC~~C~~C 170 (286)
+-|..|... .-.|.|||+.|++-
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~ 27 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRI 27 (57)
T ss_pred CcCcccCccccCCccccccCcCcCC
Confidence 346666643 35578889888774
No 29
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=43.77 E-value=12 Score=25.02 Aligned_cols=24 Identities=13% Similarity=0.137 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCCCCCCcc--cCcc
Q 023181 147 GVDPDNENSLSRKRVRYCKI--CKAH 170 (286)
Q Consensus 147 ~~~C~~C~~~kP~RskHC~~--C~~C 170 (286)
...|..|..+-|+|+..|+. ||.+
T Consensus 17 k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 17 KMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp -EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ceecccccCcCCCCccceecccCCCC
Confidence 47899999999999999998 7754
No 30
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=39.60 E-value=17 Score=25.29 Aligned_cols=23 Identities=17% Similarity=0.395 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCCCCCCCcccCcc
Q 023181 148 VDPDNENSLSRKRVRYCKICKAH 170 (286)
Q Consensus 148 ~~C~~C~~~kP~RskHC~~C~~C 170 (286)
.-|..|+...|+.++-|+.|+.=
T Consensus 5 kAC~~Ck~l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 5 KACKNCKRLTPEDTEICPVCGST 27 (64)
T ss_pred HHHhhccccCCCCCccCCCCCCc
Confidence 45999999999999999999863
No 31
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=38.52 E-value=10 Score=31.15 Aligned_cols=23 Identities=9% Similarity=-0.010 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCCCCCcccCcccccC
Q 023181 149 DPDNENSLSRKRVRYCKICKAHVEGF 174 (286)
Q Consensus 149 ~C~~C~~~kP~RskHC~~C~~CV~rf 174 (286)
...+|. .| ..+||..|..|+.|.
T Consensus 142 ~s~sC~--~~-~~~~CG~C~~C~~r~ 164 (169)
T cd01995 142 LTWSCY--NG-GEKHCGECDSCLLRK 164 (169)
T ss_pred heeecc--CC-CCCCCCCCHHHHHHH
Confidence 355565 33 338999999999874
No 32
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=36.81 E-value=3.7e+02 Score=27.92 Aligned_cols=18 Identities=17% Similarity=0.460 Sum_probs=12.2
Q ss_pred HHHHHHHHHhhhhhhccc
Q 023181 82 FFNILFIWGFYIAVVRQA 99 (286)
Q Consensus 82 ~~~~~~~w~~~~~~~~~~ 99 (286)
++..+.+|+.|+|-+..+
T Consensus 101 ~~~~~~v~~~~~~~~~~~ 118 (697)
T PF09726_consen 101 FAASTYVWVQYVWHTDRG 118 (697)
T ss_pred HHHhHHHHHHHhhhccCC
Confidence 445677888888865543
No 33
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=36.50 E-value=26 Score=20.84 Aligned_cols=19 Identities=26% Similarity=0.620 Sum_probs=9.4
Q ss_pred CCCCCCCCCCC-CCC-CcccC
Q 023181 150 PDNENSLSRKR-VRY-CKICK 168 (286)
Q Consensus 150 C~~C~~~kP~R-skH-C~~C~ 168 (286)
|..|...+..+ +++ |+.|+
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CeECCcCCccceeEEEccCCC
Confidence 55555544444 333 66665
No 34
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=36.02 E-value=72 Score=28.16 Aligned_cols=25 Identities=20% Similarity=0.077 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhhcCCCccCCCCC
Q 023181 111 EVAMIIIGLCSIMSKDPGLITNEFP 135 (286)
Q Consensus 111 ~~~~~~~~~~~~~~~dPG~i~~~~~ 135 (286)
+.+.++-+|..+...|||......+
T Consensus 203 ~vf~LvgLyr~C~k~dPg~p~~g~~ 227 (259)
T PF07010_consen 203 SVFTLVGLYRMCWKTDPGTPENGPD 227 (259)
T ss_pred HHHHHHHHHHHhhcCCCCCcccCCC
Confidence 3444555677788999997655444
No 35
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=34.99 E-value=1.8e+02 Score=29.45 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=20.6
Q ss_pred CCCC-CCCcccCcccccCCCccccccCeee
Q 023181 158 RKRV-RYCKICKAHVEGFDHHCPAFGNCIV 186 (286)
Q Consensus 158 P~Rs-kHC~~C~~CV~rfDHHCpWi~nCVg 186 (286)
=++. +.|..|-.=..-.-+||..=++||.
T Consensus 416 f~~en~FC~~clirKp~rSkhc~vcnrcVa 445 (600)
T KOG0509|consen 416 FDLENRFCLTCLIRKPLRSKHCSVCNRCVA 445 (600)
T ss_pred ccccccceeeeeeecCCccchhhhhHHHHh
Confidence 3445 5777776666667888888888883
No 36
>PF08600 Rsm1: Rsm1-like; InterPro: IPR013909 This entry contains Nuclear-interacting partner of ALK (NIPA) and NIPA like proteins, as well as mRNA export factor Rsm1, all of which contain a C3HC-type zinc finger. The domain represented in this entry is found C-terminal to the zinc-finger like domain IPR012935 from INTERPRO. Rsm1 is involved in mRNA export from the nucleus []. NIPA is an essential component of an SCF-type E3 ligase complex, SCF(NIPA), a complex that controls mitotic entry by mediating ubiquitination and subsequent degradation of cyclin B1 (CCNB1). Its cell-cycle-dependent phosphorylation regulates the assembly of the SCF(NIPA) complex, restricting CCNB1 ubiquitination activity to interphase. Its inactivation results in nuclear accumulation of CCNB1 in interphase and premature mitotic entry [].
Probab=33.09 E-value=22 Score=26.60 Aligned_cols=13 Identities=15% Similarity=0.299 Sum_probs=9.3
Q ss_pred cCCCccccccCee
Q 023181 173 GFDHHCPAFGNCI 185 (286)
Q Consensus 173 rfDHHCpWi~nCV 185 (286)
.+-.||||++.-.
T Consensus 53 eHr~~CPwv~~~~ 65 (91)
T PF08600_consen 53 EHREYCPWVNPST 65 (91)
T ss_pred cccccCCccCCcc
Confidence 3447899998643
No 37
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.40 E-value=20 Score=32.78 Aligned_cols=27 Identities=15% Similarity=0.114 Sum_probs=20.0
Q ss_pred CCCCCCCCC-CC--CCCCCCCcccCccccc
Q 023181 147 GVDPDNENS-LS--RKRVRYCKICKAHVEG 173 (286)
Q Consensus 147 ~~~C~~C~~-~k--P~RskHC~~C~~CV~r 173 (286)
..-|..|.. .. -.|-|||+.||.-|-.
T Consensus 168 a~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 168 ATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred ceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 467888876 32 4588999999987765
No 38
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=29.31 E-value=47 Score=34.01 Aligned_cols=30 Identities=20% Similarity=0.319 Sum_probs=14.6
Q ss_pred CCCCCCCCCCCCCCCCCcccCcccccCCCccc
Q 023181 148 VDPDNENSLSRKRVRYCKICKAHVEGFDHHCP 179 (286)
Q Consensus 148 ~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCp 179 (286)
+||..|.. +...+.|..|+.=+..=..+||
T Consensus 16 kFC~~CG~--~l~~~~Cp~CG~~~~~~~~fC~ 45 (645)
T PRK14559 16 RFCQKCGT--SLTHKPCPQCGTEVPVDEAHCP 45 (645)
T ss_pred ccccccCC--CCCCCcCCCCCCCCCccccccc
Confidence 55555543 2223445555555554444554
No 39
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=27.81 E-value=4.8e+02 Score=25.36 Aligned_cols=21 Identities=10% Similarity=-0.070 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHhhcCCCccC
Q 023181 111 EVAMIIIGLCSIMSKDPGLIT 131 (286)
Q Consensus 111 ~~~~~~~~~~~~~~~dPG~i~ 131 (286)
+..++.|.-+..+..|++.+.
T Consensus 184 C~~~CP~g~~qs~m~d~~tl~ 204 (434)
T TIGR02745 184 CIYMCPYARIQSVMFDKDTLI 204 (434)
T ss_pred hhhhCCHHHHHHHhccCCcce
Confidence 445666777777777877653
No 40
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=27.44 E-value=32 Score=30.51 Aligned_cols=16 Identities=31% Similarity=0.337 Sum_probs=11.8
Q ss_pred CcccccCCCccccccC
Q 023181 168 KAHVEGFDHHCPAFGN 183 (286)
Q Consensus 168 ~~CV~rfDHHCpWi~n 183 (286)
-.=..+.+|||||...
T Consensus 35 ~eHrsye~H~Cp~~~~ 50 (250)
T KOG3183|consen 35 LEHRSYESHHCPKGLR 50 (250)
T ss_pred hccchHhhcCCCcccc
Confidence 3345778999999763
No 41
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=27.31 E-value=5.7e+02 Score=24.66 Aligned_cols=32 Identities=6% Similarity=-0.030 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCCCCCCCcccCcccccCCCccc
Q 023181 148 VDPDNENSLSRKRVRYCKICKAHVEGFDHHCP 179 (286)
Q Consensus 148 ~~C~~C~~~kP~RskHC~~C~~CV~rfDHHCp 179 (286)
.-|+.|+...|....||..|+.-..+.+++..
T Consensus 222 ~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s~ 253 (419)
T PRK15103 222 RSCSCCTAILPADQPVCPRCHTKGYVRRRNSL 253 (419)
T ss_pred CcCCCCCCCCCCCCCCCCCCCCcCcCCCCCCH
Confidence 56999999888888899999998877776543
No 42
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.99 E-value=25 Score=35.59 Aligned_cols=22 Identities=14% Similarity=0.149 Sum_probs=17.5
Q ss_pred CCCCCCCCC--CCCCCCCCcccCc
Q 023181 148 VDPDNENSL--SRKRVRYCKICKA 169 (286)
Q Consensus 148 ~~C~~C~~~--kP~RskHC~~C~~ 169 (286)
.-|..|... ---|+|||+.||+
T Consensus 166 ~~C~rCr~~F~~~~rkHHCr~CG~ 189 (634)
T KOG1818|consen 166 EECLRCRVKFGLTNRKHHCRNCGQ 189 (634)
T ss_pred cccceeeeeeeeccccccccccch
Confidence 458888865 3449999999998
No 43
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=24.86 E-value=29 Score=22.05 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=11.0
Q ss_pred cccCcccccCCCccccc
Q 023181 165 KICKAHVEGFDHHCPAF 181 (286)
Q Consensus 165 ~~C~~CV~rfDHHCpWi 181 (286)
+.|..|+..-|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 45666776666667663
No 44
>TIGR00364 exsB protein. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown.
Probab=24.20 E-value=39 Score=28.69 Aligned_cols=13 Identities=15% Similarity=0.255 Sum_probs=11.3
Q ss_pred CCCCcccCccccc
Q 023181 161 VRYCKICKAHVEG 173 (286)
Q Consensus 161 skHC~~C~~CV~r 173 (286)
.+||..|..|+.|
T Consensus 189 ~~~CG~C~~C~~r 201 (201)
T TIGR00364 189 GEGCGKCPSCMLR 201 (201)
T ss_pred CCCCCCChhhhcc
Confidence 5699999999876
No 45
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=23.68 E-value=48 Score=18.19 Aligned_cols=21 Identities=19% Similarity=0.165 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCCCCCcccCc
Q 023181 149 DPDNENSLSRKRVRYCKICKA 169 (286)
Q Consensus 149 ~C~~C~~~kP~RskHC~~C~~ 169 (286)
.|..|......++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 588888888888888887764
No 46
>COG3694 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=23.67 E-value=2.3e+02 Score=25.39 Aligned_cols=38 Identities=18% Similarity=0.157 Sum_probs=26.9
Q ss_pred hccccchhhHHHHhHHHHHHHHHHHHHHHHHH--HhccchHHH
Q 023181 8 RKLSASLPLICRCIISCILVLLTQLTLSLVPR--FFAASPFIV 48 (286)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~f~~p~~~~~~~~~--~~~~~~~~~ 48 (286)
|.--++||.+=| +.++|..|..++..++. +..++.+..
T Consensus 190 ~yPmsiYp~~lR---~~~tFIIP~af~t~~Pa~~vlgr~~~~~ 229 (260)
T COG3694 190 RYPMSIYPAILR---KFFTFIIPVAFLTYVPALYVLGRLDPEW 229 (260)
T ss_pred cCChhhhhHHHH---HHHHHHHHHHHHhhccHHHHhcCCChHH
Confidence 444567888877 78999999988887654 455555444
No 47
>PF01437 PSI: Plexin repeat; InterPro: IPR002165 This is a cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found in plexin (P70206 from SWISSPROT) []. Two copies of the repeat are found in mahogany protein. A related Caenorhabditis elegans protein (Q19981 from SWISSPROT) contains four copies of the repeat, while the Met receptor contains a single copy of the repeat.; GO: 0016020 membrane; PDB: 3NVQ_B 3NVN_B 3OL2_B 3OKT_A 3AL8_A 3OKW_A 3OKY_B 3AFC_B 1OLZ_B 1SHY_B ....
Probab=23.42 E-value=17 Score=23.80 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=14.2
Q ss_pred cccCcccccCCCccccc
Q 023181 165 KICKAHVEGFDHHCPAF 181 (286)
Q Consensus 165 ~~C~~CV~rfDHHCpWi 181 (286)
..|+.|+.-.|-+|-|=
T Consensus 6 ~sC~~Cl~~~dp~CgWc 22 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWC 22 (51)
T ss_dssp SSHHHHHHSTCTTEEEE
T ss_pred CcHHHHHcCCCcCcccc
Confidence 67888888888889884
No 48
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=23.26 E-value=45 Score=30.82 Aligned_cols=103 Identities=12% Similarity=-0.095 Sum_probs=64.6
Q ss_pred CCCCCCCCCCCCCCCCCCCcccCcccccCCCc-----cccc--cCeeee-------eeeeeecc---------cccCCch
Q 023181 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHH-----CPAF--GNCIVV-------GKSQNFDK---------SQSENDW 202 (286)
Q Consensus 146 ~~~~C~~C~~~kP~RskHC~~C~~CV~rfDHH-----CpWi--~nCVg~-------~~~i~~~~---------~~~~~~~ 202 (286)
..+.|..|+.=....-|||.-=|+||.+-.|- +.++ ..++.. ........ +..+...
T Consensus 122 RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~ 201 (309)
T COG5273 122 RSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLIFGCSLL 201 (309)
T ss_pred CCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHhhhHH
Confidence 46899999999999999999999999886652 1111 112211 11110100 0111121
Q ss_pred HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhHHhhhccCCC
Q 023181 203 VV-NLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWKKYP 248 (286)
Q Consensus 203 ~~-~~~~~~~~~~~~~~~~~~~ll~~ql~lI~~n~TT~E~~~~~r~~ 248 (286)
.. .+++..+++...+..|.......+.+++.++.++-|.....|++
T Consensus 202 ~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~ 248 (309)
T COG5273 202 GVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRES 248 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccC
Confidence 11 23333455555566677778899999999999999988766666
No 49
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=23.25 E-value=2e+02 Score=26.59 Aligned_cols=28 Identities=36% Similarity=0.847 Sum_probs=25.8
Q ss_pred CCCCCcccCcccccCCCccccccCeeee
Q 023181 160 RVRYCKICKAHVEGFDHHCPAFGNCIVV 187 (286)
Q Consensus 160 RskHC~~C~~CV~rfDHHCpWi~nCVg~ 187 (286)
+.+.|+.|+.-....-|||.--+.||..
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLK 135 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLK 135 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhc
Confidence 7899999999999999999999999953
No 50
>TIGR03747 conj_TIGR03747 integrating conjugative element membrane protein, PFL_4697 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=23.24 E-value=2.6e+02 Score=24.82 Aligned_cols=46 Identities=17% Similarity=0.201 Sum_probs=30.8
Q ss_pred ccchhhHHHHhHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH
Q 023181 11 SASLPLICRCIISCILVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLLV 60 (286)
Q Consensus 11 ~~~~~~~~~~~~~~~~f~~p~~~~~~~~~~~~~~~~~~~lpl~~~~~~~~ 60 (286)
+-+|++-+| +++-+.+ +|+++.-..+ ++--|.++-+|.+++++.++
T Consensus 177 sfvyH~Akr-~~~p~~~-~p~~lYLslP--~sv~P~~illP~a~llg~~v 222 (233)
T TIGR03747 177 SFVYHHAKR-FVKPLMI-LPWVLYLSLP--ISIYPNLILLPAALLLGLAV 222 (233)
T ss_pred cHHHHHHHH-HHHHHHH-HHHHHHHhcc--cccChhHHHHHHHHHHHHHH
Confidence 345677777 3333333 6766666666 35568888999999998776
No 51
>PF14127 DUF4294: Domain of unknown function (DUF4294)
Probab=22.80 E-value=67 Score=26.68 Aligned_cols=32 Identities=6% Similarity=0.075 Sum_probs=26.0
Q ss_pred HhCchhHHhhhccCCCccccccCCCCccccCCCcCCCCCHhHHHHHHHhcCCC
Q 023181 233 CFNVRTDEWVNWKKYPEFQVIESEPGESFTRMRFTNPYDKGFLQNVKDFLSLR 285 (286)
Q Consensus 233 ~~n~TT~E~~~~~r~~~~~~~~~~~~~~~~~~~~~npyd~G~~~N~~~~fg~~ 285 (286)
-.|.|++|.++ ..++++.-|+++....+||-+
T Consensus 103 etg~TsyelIK---------------------~~rgg~~A~~~q~~A~~Fg~s 134 (157)
T PF14127_consen 103 ETGSTSYELIK---------------------ELRGGWRAFWYQTFAWLFGIS 134 (157)
T ss_pred hcCCcHHHHHH---------------------HhhCChhHHHHHHHHHHhCcc
Confidence 46999999985 256888899999999998854
No 52
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=22.33 E-value=97 Score=31.75 Aligned_cols=24 Identities=13% Similarity=0.048 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCCCCCCCcccCccc
Q 023181 148 VDPDNENSLSRKRVRYCKICKAHV 171 (286)
Q Consensus 148 ~~C~~C~~~kP~RskHC~~C~~CV 171 (286)
..|..|....|+.+++|..||.=.
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~~~ 51 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGAET 51 (645)
T ss_pred CcCCCCCCCCCcccccccccCCcc
Confidence 567777777777777777777643
No 53
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.20 E-value=52 Score=21.23 Aligned_cols=10 Identities=0% Similarity=-0.337 Sum_probs=6.4
Q ss_pred CCCCCCCCCC
Q 023181 148 VDPDNENSLS 157 (286)
Q Consensus 148 ~~C~~C~~~k 157 (286)
+||..|....
T Consensus 1 ~FCp~Cg~~l 10 (52)
T smart00661 1 KFCPKCGNML 10 (52)
T ss_pred CCCCCCCCcc
Confidence 3677776654
No 54
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=21.99 E-value=35 Score=22.38 Aligned_cols=15 Identities=27% Similarity=0.215 Sum_probs=6.4
Q ss_pred CcccccCCC--cccccc
Q 023181 168 KAHVEGFDH--HCPAFG 182 (286)
Q Consensus 168 ~~CV~rfDH--HCpWi~ 182 (286)
|.-+..-+| +|||-+
T Consensus 12 G~~~~lKgHk~~C~~~~ 28 (47)
T PF00751_consen 12 GVIVPLKGHKRYCPFRD 28 (47)
T ss_dssp T---TTTT-GGG-TTTT
T ss_pred CcccchhhhccccCcCC
Confidence 445555566 688864
No 55
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=21.01 E-value=2.1e+02 Score=19.49 Aligned_cols=22 Identities=14% Similarity=0.146 Sum_probs=11.6
Q ss_pred hhhHHHHhHHHHHHHHHHHHHH
Q 023181 14 LPLICRCIISCILVLLTQLTLS 35 (286)
Q Consensus 14 ~~~~~~~~~~~~~f~~p~~~~~ 35 (286)
...=++.+.-+..+++|.+.+.
T Consensus 14 k~~E~~~flfl~~~l~PiL~v~ 35 (56)
T PF06796_consen 14 KRSELKAFLFLAVVLFPILAVA 35 (56)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444555666666655544
No 56
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=20.58 E-value=69 Score=21.14 Aligned_cols=24 Identities=13% Similarity=-0.007 Sum_probs=14.6
Q ss_pred CCCCCCCCCC-C--CCCCCCCCcccCc
Q 023181 146 LGVDPDNENS-L--SRKRVRYCKICKA 169 (286)
Q Consensus 146 ~~~~C~~C~~-~--kP~RskHC~~C~~ 169 (286)
..++|+.|.. . .-....+|..|+.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 3579999976 2 2223456776653
No 57
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=20.42 E-value=51 Score=25.56 Aligned_cols=22 Identities=18% Similarity=0.295 Sum_probs=13.7
Q ss_pred CCCCCCCCCC----CCCCCCCcccCc
Q 023181 148 VDPDNENSLS----RKRVRYCKICKA 169 (286)
Q Consensus 148 ~~C~~C~~~k----P~RskHC~~C~~ 169 (286)
..|..|...+ .=|++||+.|+.
T Consensus 43 ~~C~~Cg~~~~~~~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 43 YRCEDCGHEKIVYNSCKNRHCPSCQA 68 (111)
T ss_pred eecCCCCceEEecCcccCcCCCCCCC
Confidence 4588887654 225667777664
No 58
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=20.12 E-value=36 Score=20.64 Aligned_cols=9 Identities=11% Similarity=-0.260 Sum_probs=5.4
Q ss_pred CCCCCCCCC
Q 023181 148 VDPDNENSL 156 (286)
Q Consensus 148 ~~C~~C~~~ 156 (286)
+||.+|...
T Consensus 2 ~FCp~C~nl 10 (35)
T PF02150_consen 2 RFCPECGNL 10 (35)
T ss_dssp -BETTTTSB
T ss_pred eeCCCCCcc
Confidence 467777654
No 59
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=20.05 E-value=38 Score=29.31 Aligned_cols=26 Identities=12% Similarity=0.153 Sum_probs=17.2
Q ss_pred CCCCCCCCCC----------CCCCCCcccCcccccC
Q 023181 149 DPDNENSLSR----------KRVRYCKICKAHVEGF 174 (286)
Q Consensus 149 ~C~~C~~~kP----------~RskHC~~C~~CV~rf 174 (286)
.|.+|..+.+ .|=-+|+.||+.+.|+
T Consensus 2 iCIeCg~~v~~Ly~~Ys~~~irLt~C~~C~~vaDkY 37 (208)
T PF04161_consen 2 ICIECGHPVKSLYRQYSPGNIRLTKCPNCGKVADKY 37 (208)
T ss_pred EeccCCCcchhhhhccCCCcEEEeeccccCCcccce
Confidence 3666665533 4667888888877664
Done!