Query 023587
Match_columns 280
No_of_seqs 242 out of 1522
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:09:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023587.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023587hhsearch_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 2.4E-41 5.2E-46 305.4 13.2 194 77-273 14-233 (307)
2 PF01529 zf-DHHC: DHHC palmito 100.0 2.6E-41 5.6E-46 285.1 11.2 157 117-273 2-174 (174)
3 KOG1311 DHHC-type Zn-finger pr 100.0 3.8E-37 8.3E-42 281.4 14.7 163 110-272 61-241 (299)
4 KOG1314 DHHC-type Zn-finger pr 100.0 1.2E-37 2.7E-42 278.5 10.8 199 67-270 9-224 (414)
5 COG5273 Uncharacterized protei 100.0 1.7E-36 3.7E-41 276.8 14.9 185 86-272 40-232 (309)
6 KOG1313 DHHC-type Zn-finger pr 100.0 4E-33 8.7E-38 242.6 9.5 126 146-271 101-244 (309)
7 KOG0509 Ankyrin repeat and DHH 100.0 8E-32 1.7E-36 257.6 16.5 252 17-278 278-559 (600)
8 KOG1312 DHHC-type Zn-finger pr 100.0 5E-31 1.1E-35 230.7 10.4 110 105-215 101-215 (341)
9 KOG1311 DHHC-type Zn-finger pr 92.9 0.44 9.6E-06 43.5 7.7 42 160-201 112-164 (299)
10 COG5273 Uncharacterized protei 92.7 0.85 1.8E-05 42.1 9.4 117 144-271 120-243 (309)
11 PF01529 zf-DHHC: DHHC palmito 92.5 2 4.4E-05 35.5 10.7 52 144-206 59-110 (174)
12 PF13240 zinc_ribbon_2: zinc-r 88.6 0.29 6.2E-06 27.2 1.4 21 149-169 1-21 (23)
13 PRK04136 rpl40e 50S ribosomal 88.0 0.26 5.6E-06 32.4 1.1 25 145-169 12-36 (48)
14 PF13248 zf-ribbon_3: zinc-rib 85.9 0.52 1.1E-05 26.8 1.5 23 147-169 2-24 (26)
15 PF12773 DZR: Double zinc ribb 80.1 1.6 3.5E-05 28.6 2.3 36 145-180 10-48 (50)
16 PF06906 DUF1272: Protein of u 78.7 1.3 2.8E-05 30.1 1.5 38 147-187 5-50 (57)
17 KOG1314 DHHC-type Zn-finger pr 78.1 58 0.0013 30.7 12.3 70 119-199 70-146 (414)
18 PTZ00303 phosphatidylinositol 78.0 1.5 3.2E-05 44.9 2.3 52 148-199 461-543 (1374)
19 PF10571 UPF0547: Uncharacteri 74.0 2.3 5E-05 24.3 1.5 22 148-169 1-22 (26)
20 PRK15103 paraquat-inducible me 70.7 69 0.0015 30.9 11.6 31 147-177 221-251 (419)
21 KOG0509 Ankyrin repeat and DHH 69.6 2.2 4.8E-05 42.5 1.1 85 115-201 290-379 (600)
22 TIGR00155 pqiA_fam integral me 66.3 53 0.0011 31.5 9.8 31 147-177 215-246 (403)
23 COG1552 RPL40A Ribosomal prote 64.9 1.5 3.3E-05 28.9 -0.7 25 145-169 12-36 (50)
24 PF01363 FYVE: FYVE zinc finge 64.7 3.4 7.3E-05 28.9 1.0 26 147-172 9-36 (69)
25 PF12773 DZR: Double zinc ribb 62.4 7.2 0.00016 25.4 2.2 24 145-168 27-50 (50)
26 KOG1842 FYVE finger-containing 59.3 3.2 6.9E-05 39.9 0.1 29 143-171 176-206 (505)
27 smart00064 FYVE Protein presen 57.9 9 0.00019 26.6 2.2 25 147-171 10-36 (68)
28 PF01020 Ribosomal_L40e: Ribos 57.7 4.3 9.4E-05 27.2 0.5 25 146-170 16-42 (52)
29 KOG1315 Predicted DHHC-type Zn 52.9 6.4 0.00014 36.3 1.0 48 144-202 120-167 (307)
30 PF07010 Endomucin: Endomucin; 52.2 27 0.00059 30.7 4.6 31 107-137 199-229 (259)
31 KOG3183 Predicted Zn-finger pr 49.9 7.3 0.00016 34.4 0.8 14 169-182 36-49 (250)
32 PF00641 zf-RanBP: Zn-finger i 46.6 6.4 0.00014 22.9 -0.0 21 149-169 6-26 (30)
33 PF08600 Rsm1: Rsm1-like; Int 42.5 14 0.00029 27.7 1.2 14 174-187 54-67 (91)
34 COG3336 Predicted membrane pro 38.5 61 0.0013 29.7 4.9 54 77-130 128-185 (299)
35 PF09889 DUF2116: Uncharacteri 36.2 33 0.00071 23.7 2.2 23 147-169 3-26 (59)
36 cd00065 FYVE FYVE domain; Zinc 34.4 31 0.00067 22.8 1.9 23 149-171 4-28 (57)
37 COG0805 TatC Sec-independent p 33.4 3.6E+02 0.0078 24.2 9.0 22 254-275 177-198 (255)
38 KOG1729 FYVE finger containing 33.2 16 0.00035 33.4 0.4 27 147-173 168-197 (288)
39 KOG1819 FYVE finger-containing 32.5 16 0.00035 35.8 0.3 22 148-169 902-925 (990)
40 KOG1398 Uncharacterized conser 31.8 18 0.00039 34.4 0.5 30 157-192 10-39 (460)
41 PF09297 zf-NADH-PPase: NADH p 30.4 27 0.00058 20.6 0.9 23 147-169 3-29 (32)
42 smart00661 RPOL9 RNA polymeras 29.3 39 0.00084 21.9 1.6 22 148-169 1-28 (52)
43 PF13842 Tnp_zf-ribbon_2: DDE_ 28.5 46 0.001 19.8 1.7 19 150-168 3-23 (32)
44 cd01995 ExsB ExsB is a transcr 28.4 18 0.00039 29.7 -0.2 22 150-174 143-164 (169)
45 PRK14559 putative protein seri 28.1 36 0.00078 34.8 1.9 40 146-187 14-53 (645)
46 COG2093 DNA-directed RNA polym 26.8 35 0.00076 23.8 1.0 22 148-169 5-26 (64)
47 PF01437 PSI: Plexin repeat; 26.6 15 0.00032 24.1 -0.8 18 165-182 6-23 (51)
48 smart00547 ZnF_RBZ Zinc finger 26.3 40 0.00086 18.5 1.1 21 149-169 4-24 (26)
49 TIGR00364 exsB protein. This p 24.0 36 0.00078 28.8 0.9 21 150-173 181-201 (201)
50 PRK14559 putative protein seri 23.4 69 0.0015 32.8 2.9 25 148-172 28-52 (645)
51 PF07649 C1_3: C1-like domain; 22.6 43 0.00093 19.3 0.8 21 149-169 2-23 (30)
52 smart00423 PSI domain found in 22.6 29 0.00062 22.1 -0.0 17 165-181 5-21 (46)
53 KOG1409 Uncharacterized conser 22.4 21 0.00046 33.5 -0.9 25 148-172 283-320 (404)
54 KOG1313 DHHC-type Zn-finger pr 22.2 2.3E+02 0.005 25.9 5.6 79 114-203 80-161 (309)
55 PF03503 Chlam_OMP3: Chlamydia 21.6 86 0.0019 20.7 2.1 21 149-169 25-45 (55)
56 KOG1841 Smad anchor for recept 20.7 43 0.00092 36.1 0.8 37 149-197 559-597 (1287)
57 PRK00432 30S ribosomal protein 20.6 73 0.0016 21.0 1.7 24 146-169 19-45 (50)
58 PF03606 DcuC: C4-dicarboxylat 20.4 5.9E+02 0.013 24.8 8.6 41 8-48 113-154 (465)
59 KOG3611 Semaphorins [Signal tr 20.4 36 0.00078 35.3 0.2 37 161-197 491-535 (737)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.4e-41 Score=305.38 Aligned_cols=194 Identities=19% Similarity=0.282 Sum_probs=145.4
Q ss_pred chhHHHHHHHhhhhhhhhhcccc--------hhhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCchhhhc------
Q 023587 77 APAFVFFNILFIWGFYIAVVRQA--------VSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLVE------ 142 (280)
Q Consensus 77 ~P~~v~~~~~~~w~~~~~~~~~~--------~~~~~~iif~~l~~~~~~~~~~~~~~DPG~vp~~~~~~~~~~~------ 142 (280)
.|+ +++.....|.+|+++.... ......+.++.+.++..|+|++++++|||.+|.....+.++++
T Consensus 14 ~~~-~~i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~ 92 (307)
T KOG1315|consen 14 IPV-LIILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGS 92 (307)
T ss_pred hhh-eeeeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccC
Confidence 555 4455678888888876543 2344567888999999999999999999999976443321110
Q ss_pred ------------CCCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 023587 143 ------------GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVAC 210 (280)
Q Consensus 143 ------------~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~ 210 (280)
.+...++|.+|+..||+|||||+.|+|||+||||||||+|||||.+|||+|++|+++..+.....+..
T Consensus 93 ~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~ 172 (307)
T KOG1315|consen 93 DNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVT 172 (307)
T ss_pred cccccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHH
Confidence 12256899999999999999999999999999999999999999999999999999999887655555
Q ss_pred HHHHhhhhccCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhccccc
Q 023587 211 SAQFVGKSQNFDKSQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVSPQ 273 (280)
Q Consensus 211 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~Ll~~h~~lI~~n~TT~E~~~~~ 273 (280)
....+.+....+. ...........+.++.+...++.+++++++|+++|++|+||+|..+++
T Consensus 173 ~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~ 233 (307)
T KOG1315|consen 173 TLIGFTKYFQGGA--GPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSP 233 (307)
T ss_pred HHHHHHHHHhccc--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccc
Confidence 4444444431111 112222223344555666667777789999999999999999988754
No 2
>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=100.00 E-value=2.6e-41 Score=285.12 Aligned_cols=157 Identities=18% Similarity=0.268 Sum_probs=120.1
Q ss_pred HHHHHHhhcCCCcCCCC-CCCch---------------hhhcCCCCCCCCCCCCCCCCCCcccccccCceeccccccccc
Q 023587 117 IGLCSIMSKDPGLITNE-FPHLD---------------KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPA 180 (280)
Q Consensus 117 ~~~~~~~~~DPG~vp~~-~~~~~---------------~~~~~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpW 180 (280)
++|+++..+|||++|+. .+.++ ...+.+...++|.+|+.+||+|||||+.||+||.||||||||
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 57889999999999998 11110 001123457899999999999999999999999999999999
Q ss_pred ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023587 181 FGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCV 260 (280)
Q Consensus 181 l~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~Ll~~h~~lI 260 (280)
+|||||.+|||+|++|+++..++.++....++.++....................+..++.+++..++++.+++.|++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i 161 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLI 161 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999988777666655555443322211111111111124566777888999999999999999
Q ss_pred hcCchhhhccccc
Q 023587 261 CFNVRTDEWVSPQ 273 (280)
Q Consensus 261 ~~n~TT~E~~~~~ 273 (280)
++|+||+|.+|+|
T Consensus 162 ~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 162 LRNITTYERIKRK 174 (174)
T ss_pred HcCCcHHHHHHcC
Confidence 9999999999875
No 3
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.8e-37 Score=281.43 Aligned_cols=163 Identities=23% Similarity=0.237 Sum_probs=112.8
Q ss_pred HHHHHHHHHHHHHhh---cCCCcCCCCCCCchhh---h---------cCCCCCCCCCCCCCCCCCCcccccccCceeccc
Q 023587 110 IEVAMIIIGLCSIMS---KDPGLITNEFPHLDKL---V---------EGSELGVDPDNENSLSRKRVRYCKICKAHVEGF 174 (280)
Q Consensus 110 ~l~~~~~~~~~~~~~---~DPG~vp~~~~~~~~~---~---------~~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rf 174 (280)
++....+.....+.. +|||.+|++.+...+. . ..+.+.++|.+|+..||+|||||+.||+||.||
T Consensus 61 if~~~~~~~~~~~~~~~~sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rf 140 (299)
T KOG1311|consen 61 IFFLLNILNLMLACFRMLSDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRF 140 (299)
T ss_pred HHHHHHHHHHHHHHhcccCCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhccccccc
Confidence 333333444444443 4999999953211111 0 011246899999999999999999999999999
Q ss_pred ccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCC-CCC--CchhHHHHHHHHHHHHHHHHHHHHH
Q 023587 175 DHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDK-SQS--ENDWVVNLATSTMLFSILQLLWQAV 251 (280)
Q Consensus 175 DHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~~~~i~~~~~~~~~~~~~~~ 251 (280)
||||||+|||||+||||+|+.|++++.++...........+........ ... .........+...+.+++....++.
T Consensus 141 DHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 220 (299)
T KOG1311|consen 141 DHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSA 220 (299)
T ss_pred CCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998777655444443333322211111 111 1122223344455778888888899
Q ss_pred HHHHHHHHHhcCchhhhcccc
Q 023587 252 FFMWHIYCVCFNVRTDEWVSP 272 (280)
Q Consensus 252 Ll~~h~~lI~~n~TT~E~~~~ 272 (280)
|+.+|++++.+|+||+|.++.
T Consensus 221 l~~fh~~li~~~~Tt~e~~~~ 241 (299)
T KOG1311|consen 221 LLCFHIYLIKSGSTTYESIKS 241 (299)
T ss_pred HHHhheeeEecCcchhhhhhc
Confidence 999999999999999999874
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.2e-37 Score=278.54 Aligned_cols=199 Identities=16% Similarity=0.128 Sum_probs=137.9
Q ss_pred hhhcccccccchhHHHHHH-Hhhhh-hhh---hh--cccchhhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCchh
Q 023587 67 CRRLLGVCASAPAFVFFNI-LFIWG-FYI---AV--VRQAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDK 139 (280)
Q Consensus 67 ~~~~~~~~~~~P~~v~~~~-~~~w~-~~~---~~--~~~~~~~~~~iif~~l~~~~~~~~~~~~~~DPG~vp~~~~~~~~ 139 (280)
.+|++.| .|.+.+..+ +++|. .|. +. .....+....+.|.....+.+++|+.+++++||++|+.+.++..
T Consensus 9 ~rr~~hw---Gpi~alsiit~i~~~~~~~n~lww~p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~ 85 (414)
T KOG1314|consen 9 FRRFLHW---GPITALSIITIITSTTGYMNSLWWFPLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENP 85 (414)
T ss_pred hhheecc---ccHHHHHHHHHHHHHHHHhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Confidence 5677887 776533322 22222 222 11 11224556777888888999999999999999999998776532
Q ss_pred hhcCCCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHH--HHHHH--HHHHh
Q 023587 140 LVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEA--SYVAC--SAQFV 215 (280)
Q Consensus 140 ~~~~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~--~~~~~--~~~~~ 215 (280)
. ++.-.+||.+|+.+|+||||||+.|||||.+|||||||+|||||.+||.+|..||++..+++. ..+.+ .+.-+
T Consensus 86 ~--D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~I 163 (414)
T KOG1314|consen 86 K--DEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGI 163 (414)
T ss_pred h--hHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHH
Confidence 2 223357999999999999999999999999999999999999999999999999998877432 11111 11111
Q ss_pred hhhcc--CCC----CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhcc
Q 023587 216 GKSQN--FDK----SQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWV 270 (280)
Q Consensus 216 ~~~~~--~~~----~~~~~~~~~~~~i~~~~~~~~~~~~~~~Ll~~h~~lI~~n~TT~E~~ 270 (280)
...+. ... ...-...+....++.+.+++...+.+++|++.|+.+|.+|+|.+|..
T Consensus 164 y~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~w 224 (414)
T KOG1314|consen 164 YFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESW 224 (414)
T ss_pred HHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHH
Confidence 11111 110 00112222333445556677777888999999999999999999964
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=1.7e-36 Score=276.80 Aligned_cols=185 Identities=18% Similarity=0.304 Sum_probs=137.4
Q ss_pred HhhhhhhhhhcccchhhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCchhh--------hcCCCCCCCCCCCCCCC
Q 023587 86 LFIWGFYIAVVRQAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKL--------VEGSELGVDPDNENSLS 157 (280)
Q Consensus 86 ~~~w~~~~~~~~~~~~~~~~iif~~l~~~~~~~~~~~~~~DPG~vp~~~~~~~~~--------~~~~~~~~~C~~C~~~k 157 (280)
++.|.....+..........+.+.+......+++++...+|||+.+++.....-+ ......+++|.+|+.+|
T Consensus 40 ~~~~~~~~~~~~~~~~~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~K 119 (309)
T COG5273 40 IVVYTLLVIVKSLSLVVLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYK 119 (309)
T ss_pred HHHHhhhheeeeccchhhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceecccccccc
Confidence 4556555555555566677778888888999999999999999999663322111 12234688999999999
Q ss_pred CCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCchhHHHHHHH
Q 023587 158 RKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATS 237 (280)
Q Consensus 158 P~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 237 (280)
|+|||||+.||+||+||||||||+|||||.+|||+|+.|+++........+.....++......... ...+...++..
T Consensus 120 P~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~li~~ 197 (309)
T COG5273 120 PPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHD--TSLAICFLIFG 197 (309)
T ss_pred CCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCC--hHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999877666666555555544332222 12221222222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCchhhhcccc
Q 023587 238 TMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVSP 272 (280)
Q Consensus 238 ~~~~~~~~~~~~~~Ll~~h~~lI~~n~TT~E~~~~ 272 (280)
....+...++.+..++.++.+++..|+|+.|....
T Consensus 198 ~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~ 232 (309)
T COG5273 198 CSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQI 232 (309)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 23445555667778889999999999999998753
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=4e-33 Score=242.63 Aligned_cols=126 Identities=18% Similarity=0.247 Sum_probs=94.6
Q ss_pred CCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhh-ccCCC-
Q 023587 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKS-QNFDK- 223 (280)
Q Consensus 146 ~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~-~~~~~- 223 (280)
...+|.+|+.+||||+|||+.|||||+||||||||+|||||..|||||++|++++.++..+..+.....+... ....+
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 3478999999999999999999999999999999999999999999999999999998877655544333222 11110
Q ss_pred ----CC--CCc-h---------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhccc
Q 023587 224 ----SQ--SEN-D---------WVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVS 271 (280)
Q Consensus 224 ----~~--~~~-~---------~~~~~~i~~~~~~~~~~~~~~~Ll~~h~~lI~~n~TT~E~~~ 271 (280)
.+ ... + +...-+......+....+.++.+..+|.++|.+|.|.+|...
T Consensus 181 tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~ 244 (309)
T KOG1313|consen 181 TAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLI 244 (309)
T ss_pred ccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHH
Confidence 00 000 0 001112334555666778889999999999999999999753
No 7
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.98 E-value=8e-32 Score=257.59 Aligned_cols=252 Identities=21% Similarity=0.293 Sum_probs=153.8
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhhhchhhHHHHHHHHHHHHHH-----HHhhhchhhh-cccccccchhH-HHHHHHhhh
Q 023587 17 ICRCIISCILVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLL-----VQTLCGWCRR-LLGVCASAPAF-VFFNILFIW 89 (280)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~~~~l~-----~~~~~~~~~~-~~~~~~~~P~~-v~~~~~~~w 89 (280)
.++..+..+.-. .+.+.|+++.+++.+..+-.+..+... +.......++ +.....-.|+. .++....+|
T Consensus 278 ~~~~~~~~~~f~----~~~~~~~~~~~~~g~i~~~~~~w~i~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw 353 (600)
T KOG0509|consen 278 LGSKLAALIFFI----FLGLFYFISSWLPGVIFLINSLWLIKGLALGKLVLTCLCATRKIVGFLLRPPLLSGFFLSTLFW 353 (600)
T ss_pred hhhHHHHHHHHH----HHHHHHHHHhhccchhhhhhhHHHHhhhhhhhhhhheeccchhhccccccchhHHHHHHHHHHH
Confidence 445555444433 667777777777776655554221111 0000001111 11111123433 455567777
Q ss_pred hhhhhhcc--cchhhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCchhh-----hcCC-CCC-CCCCCCCCCCCCC
Q 023587 90 GFYIAVVR--QAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKL-----VEGS-ELG-VDPDNENSLSRKR 160 (280)
Q Consensus 90 ~~~~~~~~--~~~~~~~~iif~~l~~~~~~~~~~~~~~DPG~vp~~~~~~~~~-----~~~~-~~~-~~C~~C~~~kP~R 160 (280)
.++.+... +...+.....+.+..+..++++.+...+|||++|...+...+. +.++ ..+ +||.+|.++||.|
T Consensus 354 ~~~~w~~~i~~~~~~~~~~~~i~~~l~~~~~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~en~FC~~clirKp~r 433 (600)
T KOG0509|consen 354 FYYFWFSKITPYTLFDFHYCFIISVLAYFITFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLENRFCLTCLIRKPLR 433 (600)
T ss_pred HHHhhheeccchhhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCchhhHHHHHHHhhccccccccccceeeeeeecCCc
Confidence 77666541 1122333444445555666677788889999999986654221 1111 234 6999999999999
Q ss_pred cccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCchhHHHHHHHHH-
Q 023587 161 VRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATSTM- 239 (280)
Q Consensus 161 S~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~- 239 (280)
||||+.|||||+||||||||++||||.+|||+|+.|++.+...+.++++....|+....+.. ..+.. .+..+.
T Consensus 434 Skhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~-----~~~~~-~l~~~~~ 507 (600)
T KOG0509|consen 434 SKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS-----TIYVG-FLIAVQA 507 (600)
T ss_pred cchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH-----HHHHH-HHHHHHH
Confidence 99999999999999999999999999999999999999999888888888777776443211 01111 010000
Q ss_pred ------------HHHHHHHHHHHHHH-HHHHHHHhcCchhhhcccccchhhc
Q 023587 240 ------------LFSILQLLWQAVFF-MWHIYCVCFNVRTDEWVSPQVKQIL 278 (280)
Q Consensus 240 ------------~~~~~~~~~~~~Ll-~~h~~lI~~n~TT~E~~~~~~~~~l 278 (280)
...-+...|..... +.|...++.++||+|.++.+|++++
T Consensus 508 ~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~ 559 (600)
T KOG0509|consen 508 FRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHL 559 (600)
T ss_pred HhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhcc
Confidence 00011112333333 3344568899999999998877654
No 8
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=5e-31 Score=230.68 Aligned_cols=110 Identities=26% Similarity=0.391 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCch-hhhcCC----CCCCCCCCCCCCCCCCcccccccCceecccccccc
Q 023587 105 GGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLD-KLVEGS----ELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCP 179 (280)
Q Consensus 105 ~iif~~l~~~~~~~~~~~~~~DPG~vp~~~~~~~-~~~~~~----~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCp 179 (280)
-+......++-..++..++.+|||.+.++..... +.-+.| .....|+||+.+||.||||||.|||||.||||||.
T Consensus 101 ~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCi 180 (341)
T KOG1312|consen 101 LILPYLLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHCI 180 (341)
T ss_pred HHHHHHHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccceE
Confidence 3444455566677888999999999988754332 111222 23478999999999999999999999999999999
Q ss_pred cccccccccchHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023587 180 AFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFV 215 (280)
Q Consensus 180 Wl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~ 215 (280)
|+|||||++|.|||++|+++... .+.+......++
T Consensus 181 WiNNCIG~~N~ryF~lFLL~~i~-l~~yaivrlgfi 215 (341)
T KOG1312|consen 181 WINNCIGAWNIRYFLLFLLTLIS-LATYAIVRLGFI 215 (341)
T ss_pred eeecccccchHHHHHHHHHHHHH-HHHHHHHHHHhe
Confidence 99999999999999999999744 344444433333
No 9
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=92.87 E-value=0.44 Score=43.53 Aligned_cols=42 Identities=17% Similarity=0.414 Sum_probs=35.6
Q ss_pred CcccccccCceecccccccccccccccccch-----------HHHHHHHHHHH
Q 023587 160 RVRYCKICKAHVEGFDHHCPAFGNCIGQNNY-----------FLFIVLLVGFL 201 (280)
Q Consensus 160 RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~-----------r~Fi~Fl~~~~ 201 (280)
+.|+|..|+..+.++-|||+.-|+||-+.-| |.+-.|+.++.
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~ 164 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLF 164 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHH
Confidence 3799999999999999999999999988765 67888885554
No 10
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=92.74 E-value=0.85 Score=42.12 Aligned_cols=117 Identities=11% Similarity=-0.062 Sum_probs=77.1
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCC
Q 023587 144 SELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDK 223 (280)
Q Consensus 144 ~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (280)
.++.+.|+.|+.=....-|||.-=|+||.+..| |=.-.|+.++....+...+....-...........+
T Consensus 120 P~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (309)
T COG5273 120 PPRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTS 188 (309)
T ss_pred CCCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChH
Confidence 456789999999999999999999999998665 777888888866555444333322222211111111
Q ss_pred CC------CCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhccc
Q 023587 224 SQ------SENDWVV-NLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVS 271 (280)
Q Consensus 224 ~~------~~~~~~~-~~~i~~~~~~~~~~~~~~~Ll~~h~~lI~~n~TT~E~~~ 271 (280)
.. ....... .+.+....+...+..+.......+.+++.++.++-|...
T Consensus 189 ~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~ 243 (309)
T COG5273 189 LAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFP 243 (309)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccc
Confidence 10 0111111 234445556667778888889999999999999999765
No 11
>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=92.54 E-value=2 Score=35.48 Aligned_cols=52 Identities=12% Similarity=0.045 Sum_probs=39.7
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHHHHHH
Q 023587 144 SELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEAS 206 (280)
Q Consensus 144 ~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~~~~~ 206 (280)
..+.+.|..|+.-...+-|||.--|.||.+.-| +.+=.|+.+.....+....
T Consensus 59 p~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~ 110 (174)
T PF01529_consen 59 PPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFI 110 (174)
T ss_pred CCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHH
Confidence 346778999999999999999999999998766 5566777776654444433
No 12
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=88.62 E-value=0.29 Score=27.18 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 023587 149 DPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 149 ~C~~C~~~kP~RS~HC~~C~~ 169 (280)
+|+.|...-++.++.|+.|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 689999999999999999985
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=88.03 E-value=0.26 Score=32.37 Aligned_cols=25 Identities=16% Similarity=-0.001 Sum_probs=22.3
Q ss_pred CCCCCCCCCCCCCCCCcccccccCc
Q 023587 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 145 ~~~~~C~~C~~~kP~RS~HC~~C~~ 169 (280)
.....|..|..+-|+|+..|+.|+.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 4567899999999999999999876
No 14
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=85.89 E-value=0.52 Score=26.83 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=19.4
Q ss_pred CCCCCCCCCCCCCCcccccccCc
Q 023587 147 GVDPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 147 ~~~C~~C~~~kP~RS~HC~~C~~ 169 (280)
..+|+.|...-++.++.|+.||.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcCCcccccChhhCC
Confidence 36799999988899999998875
No 15
>PF12773 DZR: Double zinc ribbon
Probab=80.08 E-value=1.6 Score=28.56 Aligned_cols=36 Identities=14% Similarity=0.173 Sum_probs=25.4
Q ss_pred CCCCCCCCCCCCCC---CCcccccccCceeccccccccc
Q 023587 145 ELGVDPDNENSLSR---KRVRYCKICKAHVEGFDHHCPA 180 (280)
Q Consensus 145 ~~~~~C~~C~~~kP---~RS~HC~~C~~CV~rfDHHCpW 180 (280)
...+||..|...-+ ...+.|+.|++=+...+.+|+.
T Consensus 10 ~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 10 DDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 34577888876655 3466788888877777777764
No 16
>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=78.68 E-value=1.3 Score=30.11 Aligned_cols=38 Identities=21% Similarity=0.396 Sum_probs=29.5
Q ss_pred CCCCCCCCCCCCCCc-------ccccccCceeccc-ccccccccccccc
Q 023587 147 GVDPDNENSLSRKRV-------RYCKICKAHVEGF-DHHCPAFGNCIGQ 187 (280)
Q Consensus 147 ~~~C~~C~~~kP~RS-------~HC~~C~~CV~rf-DHHCpWl~nCIG~ 187 (280)
..-|..|+..-|+-| .-|..|..|+... +++|| ||=|.
T Consensus 5 rpnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CCCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 345888887776664 5688899999998 99999 77664
No 17
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=78.08 E-value=58 Score=30.68 Aligned_cols=70 Identities=11% Similarity=-0.035 Sum_probs=50.5
Q ss_pred HHHHhhcCCCcCCCCCCCchhh-------hcCCCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchH
Q 023587 119 LCSIMSKDPGLITNEFPHLDKL-------VEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYF 191 (280)
Q Consensus 119 ~~~~~~~DPG~vp~~~~~~~~~-------~~~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r 191 (280)
+.---+.-||.-|++..+..-. .-+.+..+-|.+|+.=.-.--|||.--|.||.-..| .-.-
T Consensus 70 ~~gPG~vp~~wkPe~~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh-----------~~F~ 138 (414)
T KOG1314|consen 70 FTGPGFVPLGWKPENPKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANH-----------AYFL 138 (414)
T ss_pred hcCCCCCCCCCCCCCChhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhccccccc-----------HHHH
Confidence 3344566899999876654222 123456788999998777788999999999986555 4567
Q ss_pred HHHHHHHH
Q 023587 192 LFIVLLVG 199 (280)
Q Consensus 192 ~Fi~Fl~~ 199 (280)
+|++|...
T Consensus 139 ~FLlf~iv 146 (414)
T KOG1314|consen 139 RFLLFSIV 146 (414)
T ss_pred HHHHHHHH
Confidence 88888875
No 18
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=78.03 E-value=1.5 Score=44.92 Aligned_cols=52 Identities=10% Similarity=0.079 Sum_probs=33.1
Q ss_pred CCCCCCCCCCC-------CCcccccccCc-----eecccc-------------------cccccccccccccchHHHHHH
Q 023587 148 VDPDNENSLSR-------KRVRYCKICKA-----HVEGFD-------------------HHCPAFGNCIGQNNYFLFIVL 196 (280)
Q Consensus 148 ~~C~~C~~~kP-------~RS~HC~~C~~-----CV~rfD-------------------HHCpWl~nCIG~~N~r~Fi~F 196 (280)
+.|..|+..-. .|-||||.||+ |-.++- +.|.+-..---..|+..|+.-
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~EnLlQm~LLca 540 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEYETVSQLHYLGA 540 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHHHHHhHHhhHHHHH
Confidence 56999987664 39999999866 654432 455432222256777777775
Q ss_pred HHH
Q 023587 197 LVG 199 (280)
Q Consensus 197 l~~ 199 (280)
++-
T Consensus 541 lf~ 543 (1374)
T PTZ00303 541 LFA 543 (1374)
T ss_pred HHH
Confidence 443
No 19
>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=74.02 E-value=2.3 Score=24.29 Aligned_cols=22 Identities=9% Similarity=0.229 Sum_probs=18.5
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 023587 148 VDPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 148 ~~C~~C~~~kP~RS~HC~~C~~ 169 (280)
+.|+.|....|.-++-|+.||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 3589999999999999988874
No 20
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=70.75 E-value=69 Score=30.93 Aligned_cols=31 Identities=6% Similarity=-0.054 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCCCCcccccccCceecccccc
Q 023587 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHH 177 (280)
Q Consensus 147 ~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHH 177 (280)
...|+.|+...|....||..||.-..+.+++
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 4469999988777777888888877655543
No 21
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=69.61 E-value=2.2 Score=42.51 Aligned_cols=85 Identities=15% Similarity=-0.093 Sum_probs=59.5
Q ss_pred HHHHHHHHhhcCCCcCCCCCCCchhhhc----CCCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccch
Q 023587 115 IIIGLCSIMSKDPGLITNEFPHLDKLVE----GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNY 190 (280)
Q Consensus 115 ~~~~~~~~~~~DPG~vp~~~~~~~~~~~----~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~ 190 (280)
....++..+.-+||++-.... .-..+. .-.....|.+|....+.+..++..+-.+...+++||+|.. +|+.+|-
T Consensus 290 ~~~~~~~~~~~~~g~i~~~~~-~w~i~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~ 367 (600)
T KOG0509|consen 290 FLGLFYFISSWLPGVIFLINS-LWLIKGLALGKLVLTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTL 367 (600)
T ss_pred HHHHHHHHHhhccchhhhhhh-HHHHhhhhhhhhhhheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhh
Confidence 334445566678887765433 211111 1113456888899999999999999999999999999999 9999998
Q ss_pred HHH-HHHHHHHH
Q 023587 191 FLF-IVLLVGFL 201 (280)
Q Consensus 191 r~F-i~Fl~~~~ 201 (280)
..+ +.|+++..
T Consensus 368 ~~~~~~~i~~~l 379 (600)
T KOG0509|consen 368 FDFHYCFIISVL 379 (600)
T ss_pred hhhHHHHHHHHH
Confidence 854 44444433
No 22
>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=66.29 E-value=53 Score=31.54 Aligned_cols=31 Identities=6% Similarity=0.020 Sum_probs=21.4
Q ss_pred CCCCCCCCC-CCCCCcccccccCceecccccc
Q 023587 147 GVDPDNENS-LSRKRVRYCKICKAHVEGFDHH 177 (280)
Q Consensus 147 ~~~C~~C~~-~kP~RS~HC~~C~~CV~rfDHH 177 (280)
..-|++|+. .+|....+|..|+.-..|.+++
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 445999997 4555566788888776655544
No 23
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=64.87 E-value=1.5 Score=28.89 Aligned_cols=25 Identities=12% Similarity=0.004 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCCCCCcccccccCc
Q 023587 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 145 ~~~~~C~~C~~~kP~RS~HC~~C~~ 169 (280)
.....|..|..+-|+|+.-|+.|+.
T Consensus 12 ~~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 12 FNKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hhHHHHHHhcCCCCcchhHHhhccC
Confidence 3456899999999999999998865
No 24
>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=64.69 E-value=3.4 Score=28.88 Aligned_cols=26 Identities=15% Similarity=0.083 Sum_probs=12.8
Q ss_pred CCCCCCCCCC--CCCCcccccccCceec
Q 023587 147 GVDPDNENSL--SRKRVRYCKICKAHVE 172 (280)
Q Consensus 147 ~~~C~~C~~~--kP~RS~HC~~C~~CV~ 172 (280)
...|..|... --.|-|||+.||+.|=
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 4568778642 3578999999998663
No 25
>PF12773 DZR: Double zinc ribbon
Probab=62.38 E-value=7.2 Score=25.36 Aligned_cols=24 Identities=13% Similarity=0.207 Sum_probs=21.1
Q ss_pred CCCCCCCCCCCCCCCCcccccccC
Q 023587 145 ELGVDPDNENSLSRKRVRYCKICK 168 (280)
Q Consensus 145 ~~~~~C~~C~~~kP~RS~HC~~C~ 168 (280)
....+|..|....++.+++|..|+
T Consensus 27 ~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 27 QSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCCcCCcCCCcCCcCccCccc
Confidence 345789999999999999999986
No 26
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=59.35 E-value=3.2 Score=39.87 Aligned_cols=29 Identities=10% Similarity=0.116 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCCCC--CCCCcccccccCcee
Q 023587 143 GSELGVDPDNENSL--SRKRVRYCKICKAHV 171 (280)
Q Consensus 143 ~~~~~~~C~~C~~~--kP~RS~HC~~C~~CV 171 (280)
++....+|+.|..+ --.|-|||+.||+-+
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHH
Confidence 34567899999754 456899999999854
No 27
>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 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=57.67 E-value=4.3 Score=27.15 Aligned_cols=25 Identities=12% Similarity=0.078 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCCcccccc--cCce
Q 023587 146 LGVDPDNENSLSRKRVRYCKI--CKAH 170 (280)
Q Consensus 146 ~~~~C~~C~~~kP~RS~HC~~--C~~C 170 (280)
....|..|..+-|+|+..|+. ||.+
T Consensus 16 ~k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 16 DKMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp S-EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred cceecccccCcCCCCccceecccCCCC
Confidence 456799999999999999998 7754
No 29
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=52.86 E-value=6.4 Score=36.33 Aligned_cols=48 Identities=13% Similarity=0.018 Sum_probs=35.5
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccchHHHHHHHHHHHH
Q 023587 144 SELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLA 202 (280)
Q Consensus 144 ~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl~~~~~ 202 (280)
.++.+-|+.|+.=.-..-|||.-=|+||.-.++ +=.-.|+.+.....+
T Consensus 120 PdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~~ 167 (307)
T KOG1315|consen 120 PDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYSI 167 (307)
T ss_pred CCccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHHH
Confidence 345678999987778889999999999986554 556666666654443
No 30
>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=52.16 E-value=27 Score=30.74 Aligned_cols=31 Identities=16% Similarity=0.116 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCcCCCCCCCc
Q 023587 107 LFNIEVAMIIIGLCSIMSKDPGLITNEFPHL 137 (280)
Q Consensus 107 if~~l~~~~~~~~~~~~~~DPG~vp~~~~~~ 137 (280)
+..++.+.++-.|..+...|||......+..
T Consensus 199 Vitl~vf~LvgLyr~C~k~dPg~p~~g~~qp 229 (259)
T PF07010_consen 199 VITLSVFTLVGLYRMCWKTDPGTPENGPDQP 229 (259)
T ss_pred HHHHHHHHHHHHHHHhhcCCCCCcccCCCCC
Confidence 4445555666678888899999776554443
No 31
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=49.92 E-value=7.3 Score=34.42 Aligned_cols=14 Identities=36% Similarity=0.427 Sum_probs=10.6
Q ss_pred ceeccccccccccc
Q 023587 169 AHVEGFDHHCPAFG 182 (280)
Q Consensus 169 ~CV~rfDHHCpWl~ 182 (280)
.=..+.+|||||..
T Consensus 36 eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 36 EHRSYESHHCPKGL 49 (250)
T ss_pred ccchHhhcCCCccc
Confidence 34577899999875
No 32
>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=46.63 E-value=6.4 Score=22.88 Aligned_cols=21 Identities=14% Similarity=0.192 Sum_probs=14.4
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 023587 149 DPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 149 ~C~~C~~~kP~RS~HC~~C~~ 169 (280)
.|..|...-++++.+|..|+.
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 478888888888888888864
No 33
>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=42.54 E-value=14 Score=27.74 Aligned_cols=14 Identities=14% Similarity=0.278 Sum_probs=10.2
Q ss_pred cccccccccccccc
Q 023587 174 FDHHCPAFGNCIGQ 187 (280)
Q Consensus 174 fDHHCpWl~nCIG~ 187 (280)
+-.||||++.-...
T Consensus 54 Hr~~CPwv~~~~q~ 67 (91)
T PF08600_consen 54 HREYCPWVNPSTQS 67 (91)
T ss_pred ccccCCccCCcccc
Confidence 44689999986543
No 34
>COG3336 Predicted membrane protein [Function unknown]
Probab=38.48 E-value=61 Score=29.69 Aligned_cols=54 Identities=19% Similarity=0.227 Sum_probs=36.0
Q ss_pred chhH-HHHHHHhhhhhhhhhccc--chhhHHHHHHHHHHHHHHHHHHHHhhc-CCCcC
Q 023587 77 APAF-VFFNILFIWGFYIAVVRQ--AVSSLIGGLFNIEVAMIIIGLCSIMSK-DPGLI 130 (280)
Q Consensus 77 ~P~~-v~~~~~~~w~~~~~~~~~--~~~~~~~iif~~l~~~~~~~~~~~~~~-DPG~v 130 (280)
+|.. .+.....+|.+|+...-. ..++..+.+.+..++...|.++..+.. |||.-
T Consensus 128 ~P~vA~ilfig~~~~~hvpplfda~v~~p~~H~lm~~~~f~~aylfww~mI~~dpg~r 185 (299)
T COG3336 128 HPIVALILFIGAFWAWHVPPLFDAAVTSPTLHLLMNLLFFLSAYLFWWAMIGPDPGPR 185 (299)
T ss_pred hHHHHHHHHHHHHHHhccchhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHccCCCCc
Confidence 5655 344456677777644332 246777888888888888888777666 99743
No 35
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=36.25 E-value=33 Score=23.66 Aligned_cols=23 Identities=9% Similarity=0.141 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCCccccc-ccCc
Q 023587 147 GVDPDNENSLSRKRVRYCK-ICKA 169 (280)
Q Consensus 147 ~~~C~~C~~~kP~RS~HC~-~C~~ 169 (280)
.+-|..|...-|+--+.|| .|+.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 4668888888888888886 5554
No 36
>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=34.45 E-value=31 Score=22.78 Aligned_cols=23 Identities=13% Similarity=0.170 Sum_probs=15.1
Q ss_pred CCCCCCC--CCCCCcccccccCcee
Q 023587 149 DPDNENS--LSRKRVRYCKICKAHV 171 (280)
Q Consensus 149 ~C~~C~~--~kP~RS~HC~~C~~CV 171 (280)
.|..|.. ..-.|.|||+.|++-+
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred cCcccCccccCCccccccCcCcCCc
Confidence 4666653 2356788999887754
No 37
>COG0805 TatC Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]
Probab=33.38 E-value=3.6e+02 Score=24.24 Aligned_cols=22 Identities=9% Similarity=0.080 Sum_probs=17.0
Q ss_pred HHHHHHHhcCchhhhcccccch
Q 023587 254 MWHIYCVCFNVRTDEWVSPQVK 275 (280)
Q Consensus 254 ~~h~~lI~~n~TT~E~~~~~~~ 275 (280)
.....+...|.+|.|.++++|+
T Consensus 177 vv~~~L~~~Giv~~~~L~~~rr 198 (255)
T COG0805 177 VVIVLLTRLGIVTPETLKKKRR 198 (255)
T ss_pred HHHHHHHHcCCccHHHHHHcCC
Confidence 4446677899999999986665
No 38
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=33.23 E-value=16 Score=33.40 Aligned_cols=27 Identities=15% Similarity=0.123 Sum_probs=18.4
Q ss_pred CCCCCCCCC-C--CCCCcccccccCceecc
Q 023587 147 GVDPDNENS-L--SRKRVRYCKICKAHVEG 173 (280)
Q Consensus 147 ~~~C~~C~~-~--kP~RS~HC~~C~~CV~r 173 (280)
...|..|.. . --.|-|||+.||+-|-.
T Consensus 168 a~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 168 ATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred ceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 355777765 2 24588899998886654
No 39
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=32.46 E-value=16 Score=35.77 Aligned_cols=22 Identities=14% Similarity=0.163 Sum_probs=15.1
Q ss_pred CCCCCCCCC--CCCCcccccccCc
Q 023587 148 VDPDNENSL--SRKRVRYCKICKA 169 (280)
Q Consensus 148 ~~C~~C~~~--kP~RS~HC~~C~~ 169 (280)
..|..|+.+ --.|-|||+.||.
T Consensus 902 ~~cmacq~pf~afrrrhhcrncgg 925 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGG 925 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCc
Confidence 457777654 2457899998876
No 40
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.84 E-value=18 Score=34.37 Aligned_cols=30 Identities=33% Similarity=0.454 Sum_probs=21.0
Q ss_pred CCCCcccccccCceecccccccccccccccccchHH
Q 023587 157 SRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFL 192 (280)
Q Consensus 157 kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~ 192 (280)
+-.|-.||..|+ .+|| +|+.||||.-=.-.
T Consensus 10 sl~~p~l~~tC~----e~~h--~w~~~c~ga~~~~l 39 (460)
T KOG1398|consen 10 SLARPSLAETCD----EADH--SWVANCIGALCQSL 39 (460)
T ss_pred hhcCchHhhhhh----hccC--CcccchhHHHHHHH
Confidence 445566777776 4788 69999999744433
No 41
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=30.42 E-value=27 Score=20.56 Aligned_cols=23 Identities=13% Similarity=0.060 Sum_probs=12.0
Q ss_pred CCCCCCCCCC----CCCCcccccccCc
Q 023587 147 GVDPDNENSL----SRKRVRYCKICKA 169 (280)
Q Consensus 147 ~~~C~~C~~~----kP~RS~HC~~C~~ 169 (280)
.+||..|... .-.+++.|..|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 4788888643 3446777777764
No 42
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=29.25 E-value=39 Score=21.88 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCC------cccccccCc
Q 023587 148 VDPDNENSLSRKR------VRYCKICKA 169 (280)
Q Consensus 148 ~~C~~C~~~kP~R------S~HC~~C~~ 169 (280)
+||+.|.....++ -..|+.|+.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~ 28 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGY 28 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCC
Confidence 3677775433222 234776663
No 43
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=28.50 E-value=46 Score=19.81 Aligned_cols=19 Identities=26% Similarity=0.620 Sum_probs=10.4
Q ss_pred CCCCCCCCCCC-ccc-ccccC
Q 023587 150 PDNENSLSRKR-VRY-CKICK 168 (280)
Q Consensus 150 C~~C~~~kP~R-S~H-C~~C~ 168 (280)
|..|...+..+ |++ |+.|+
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CeECCcCCccceeEEEccCCC
Confidence 55565555544 433 66665
No 44
>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=28.37 E-value=18 Score=29.67 Aligned_cols=22 Identities=9% Similarity=-0.002 Sum_probs=15.6
Q ss_pred CCCCCCCCCCCcccccccCceeccc
Q 023587 150 PDNENSLSRKRVRYCKICKAHVEGF 174 (280)
Q Consensus 150 C~~C~~~kP~RS~HC~~C~~CV~rf 174 (280)
..+|... +.+||..|..|+.|+
T Consensus 143 s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 143 TWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred eeeccCC---CCCCCCCCHHHHHHH
Confidence 4445443 338999999999874
No 45
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.13 E-value=36 Score=34.77 Aligned_cols=40 Identities=20% Similarity=0.271 Sum_probs=21.2
Q ss_pred CCCCCCCCCCCCCCCcccccccCceecccccccccccccccc
Q 023587 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQ 187 (280)
Q Consensus 146 ~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~ 187 (280)
..+||..|...-+ .+.|..||.=+..-..+||=-|.-.|.
T Consensus 14 ~akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 14 NNRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CCccccccCCCCC--CCcCCCCCCCCCcccccccccCCcccc
Confidence 3456666654332 245666666666656666544444443
No 46
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=26.82 E-value=35 Score=23.82 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 023587 148 VDPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 148 ~~C~~C~~~kP~RS~HC~~C~~ 169 (280)
+-|..|+...|+.++-|+.|+.
T Consensus 5 kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 5 KACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred HHHhhccccCCCCCccCCCCCC
Confidence 4588899999999999999876
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=26.64 E-value=15 Score=24.12 Aligned_cols=18 Identities=17% Similarity=0.302 Sum_probs=12.8
Q ss_pred cccCceeccccccccccc
Q 023587 165 KICKAHVEGFDHHCPAFG 182 (280)
Q Consensus 165 ~~C~~CV~rfDHHCpWl~ 182 (280)
..|+.|+.-.|-+|.|-.
T Consensus 6 ~sC~~Cl~~~dp~CgWc~ 23 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWCS 23 (51)
T ss_dssp SSHHHHHHSTCTTEEEET
T ss_pred CcHHHHHcCCCcCccccC
Confidence 567777777777777754
No 48
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=26.27 E-value=40 Score=18.53 Aligned_cols=21 Identities=19% Similarity=0.165 Sum_probs=16.5
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 023587 149 DPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 149 ~C~~C~~~kP~RS~HC~~C~~ 169 (280)
.|..|.....+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 488888888888888888764
No 49
>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=24.04 E-value=36 Score=28.84 Aligned_cols=21 Identities=10% Similarity=-0.007 Sum_probs=14.5
Q ss_pred CCCCCCCCCCCcccccccCceecc
Q 023587 150 PDNENSLSRKRVRYCKICKAHVEG 173 (280)
Q Consensus 150 C~~C~~~kP~RS~HC~~C~~CV~r 173 (280)
=..|... ..+||..|..|+.|
T Consensus 181 t~sC~~~---~~~~CG~C~~C~~r 201 (201)
T TIGR00364 181 TYSCYAG---GGEGCGKCPSCMLR 201 (201)
T ss_pred CCcCCCc---CCCCCCCChhhhcc
Confidence 3445543 24699999999875
No 50
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=23.35 E-value=69 Score=32.77 Aligned_cols=25 Identities=12% Similarity=0.036 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCcccccccCceec
Q 023587 148 VDPDNENSLSRKRVRYCKICKAHVE 172 (280)
Q Consensus 148 ~~C~~C~~~kP~RS~HC~~C~~CV~ 172 (280)
+.|..|....|+.+++|..||.=..
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCCCCcccccccccCCccc
Confidence 4577777777777777777766443
No 51
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=22.64 E-value=43 Score=19.30 Aligned_cols=21 Identities=14% Similarity=0.105 Sum_probs=8.1
Q ss_pred CCCCCCCCCCC-CcccccccCc
Q 023587 149 DPDNENSLSRK-RVRYCKICKA 169 (280)
Q Consensus 149 ~C~~C~~~kP~-RS~HC~~C~~ 169 (280)
.|..|+..... ..-+|+.||-
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf 23 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDF 23 (30)
T ss_dssp --TTTS----S--EEE-TTT--
T ss_pred cCCcCCCcCCCCceEECccCCC
Confidence 46777766655 6777887764
No 52
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=22.56 E-value=29 Score=22.12 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=10.0
Q ss_pred cccCceecccccccccc
Q 023587 165 KICKAHVEGFDHHCPAF 181 (280)
Q Consensus 165 ~~C~~CV~rfDHHCpWl 181 (280)
+.|..|+...|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 34566666666666664
No 53
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=22.38 E-value=21 Score=33.48 Aligned_cols=25 Identities=20% Similarity=0.175 Sum_probs=19.3
Q ss_pred CCCCCCCCC-------------CCCCcccccccCceec
Q 023587 148 VDPDNENSL-------------SRKRVRYCKICKAHVE 172 (280)
Q Consensus 148 ~~C~~C~~~-------------kP~RS~HC~~C~~CV~ 172 (280)
.-|.+|+.+ -+.|-|||+.|++-|-
T Consensus 283 ~~cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc 320 (404)
T KOG1409|consen 283 DSCQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVC 320 (404)
T ss_pred chhhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcC
Confidence 458899753 5899999999887553
No 54
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=22.21 E-value=2.3e+02 Score=25.88 Aligned_cols=79 Identities=16% Similarity=0.040 Sum_probs=50.5
Q ss_pred HHHHHHHHHhhcCCCcCCCCCCCc---hhhhcCCCCCCCCCCCCCCCCCCcccccccCceecccccccccccccccccch
Q 023587 114 MIIIGLCSIMSKDPGLITNEFPHL---DKLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNY 190 (280)
Q Consensus 114 ~~~~~~~~~~~~DPG~vp~~~~~~---~~~~~~~~~~~~C~~C~~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~ 190 (280)
-+.+.|+|+....|--.|....+. +-...+.+..+-|+.|+.=.-.--|||..=|+||.-..| |-.
T Consensus 80 nvi~hy~ka~t~pPvgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryF 148 (309)
T KOG1313|consen 80 NVIFHYYKARTKPPVGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYF 148 (309)
T ss_pred HHHHhheeecccCCcCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccc-----------hhH
Confidence 344566777666652222111111 111233456778999998777888999999999998776 667
Q ss_pred HHHHHHHHHHHHH
Q 023587 191 FLFIVLLVGFLAT 203 (280)
Q Consensus 191 r~Fi~Fl~~~~~~ 203 (280)
-.|+.++......
T Consensus 149 FlFl~~ltlat~~ 161 (309)
T KOG1313|consen 149 FLFLFYLTLATSY 161 (309)
T ss_pred HHHHHHHHHHHHH
Confidence 7888888644433
No 55
>PF03503 Chlam_OMP3: Chlamydia cysteine-rich outer membrane protein 3; InterPro: IPR003517 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP2 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP3 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae, and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=21.64 E-value=86 Score=20.65 Aligned_cols=21 Identities=10% Similarity=0.127 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 023587 149 DPDNENSLSRKRVRYCKICKA 169 (280)
Q Consensus 149 ~C~~C~~~kP~RS~HC~~C~~ 169 (280)
-|..|+.+|-.++--|..||.
T Consensus 25 sc~pc~~~kkd~~~g~n~cg~ 45 (55)
T PF03503_consen 25 SCNPCEVNKKDVSCGCNPCGS 45 (55)
T ss_pred cccccccccccccCCcccccc
Confidence 355555555555545554443
No 56
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=20.74 E-value=43 Score=36.13 Aligned_cols=37 Identities=19% Similarity=0.085 Sum_probs=23.3
Q ss_pred CCCCCC--CCCCCCcccccccCceecccccccccccccccccchHHHHHHH
Q 023587 149 DPDNEN--SLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLL 197 (280)
Q Consensus 149 ~C~~C~--~~kP~RS~HC~~C~~CV~rfDHHCpWl~nCIG~~N~r~Fi~Fl 197 (280)
-|..|. -.--.|-||||.||+--- +- .-|.|.++-|+
T Consensus 559 ncm~clqkft~ikrrhhcRacgkVlc---------gv---ccnek~~leyl 597 (1287)
T KOG1841|consen 559 NCMDCLQKFTPIKRRHHCRACGKVLC---------GV---CCNEKSALEYL 597 (1287)
T ss_pred hHHHHHhhcccccccccchhccceee---------hh---hcchhhhhhhc
Confidence 355554 345678999999998321 22 34667776666
No 57
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=20.64 E-value=73 Score=21.04 Aligned_cols=24 Identities=13% Similarity=-0.007 Sum_probs=14.4
Q ss_pred CCCCCCCCCC-C--CCCCcccccccCc
Q 023587 146 LGVDPDNENS-L--SRKRVRYCKICKA 169 (280)
Q Consensus 146 ~~~~C~~C~~-~--kP~RS~HC~~C~~ 169 (280)
..++|+.|.. . .-....+|+.|+.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 4568999965 1 1223556777653
No 58
>PF03606 DcuC: C4-dicarboxylate anaerobic carrier; InterPro: IPR018385 Escherichia coli contains four different secondary carriers (DcuA, DcuB, DcuC, and DctA) for C4-dicarboxylates [, , , ] DcuA is used for aerobic growth on C4-dicarboxylates [, ], whereas the Dcu carriers (encoded by the dcuA, dcuB, and dcuC genes) are used under anaerobic conditions and form a distinct family of carriers [, , , , , ]. Each of the Dcu carriers is able to catalyze the uptake, antiport, and possibly also efflux of C4-dicarboxylates. DcuB is the major C4-dicarboxylate carrier for fumarate respiration with high fumarate-succinate exchange activity. It is synthesized only in the absence of oxygen and nitrate and in the presence of C4-dicarboxylates [, , , ]. DcuA is expressed constitutively in aerobic and anaerobic growth and can substitute for DcuB [, ]. These proteins are members of the C4-dicarboxylate Uptake C (DcuC) family. DcuC has 12 GES predicted transmembrane regions, is induced only under anaerobic conditions, and is not repressed by glucose. DcuC may therefore function as a succinate efflux system during anaerobic glucose fermentation. However, when overexpressed, it can replace either DcuA or DcuB in catalyzing fumarate-succinate exchange and fumarate uptake [, ]. DcuC shows the same transport modes as DcuA and DcuB (exchange, uptake, and presumably efflux of C4-dicarboxylates) [].; GO: 0016021 integral to membrane
Probab=20.43 E-value=5.9e+02 Score=24.76 Aligned_cols=41 Identities=10% Similarity=0.167 Sum_probs=23.2
Q ss_pred hhhhcchhhhhHHHHHHHHHH-HHHHHHhhhhhhhchhhHHH
Q 023587 8 RKLSASLPLICRCIISCILVL-LTQLTLSLVPRFFAASPFIV 48 (280)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 48 (280)
+|+...+|...--+...++++ ..|.++.+.|.+.+..--..
T Consensus 113 ~~~~~~I~i~~~~f~~~~~~~g~~~~~i~~~~il~pi~~alG 154 (465)
T PF03606_consen 113 GKKNPLIPILMFFFSGGGLTIGIPEEAIAFMPILIPILIALG 154 (465)
T ss_pred CCcchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHcC
Confidence 344555666554444444433 36677888887776554433
No 59
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=20.43 E-value=36 Score=35.32 Aligned_cols=37 Identities=22% Similarity=0.301 Sum_probs=27.1
Q ss_pred ccccc---ccCceeccccccccccc---ccc--cccchHHHHHHH
Q 023587 161 VRYCK---ICKAHVEGFDHHCPAFG---NCI--GQNNYFLFIVLL 197 (280)
Q Consensus 161 S~HC~---~C~~CV~rfDHHCpWl~---nCI--G~~N~r~Fi~Fl 197 (280)
-|+|. .|..|++..|-||.|-+ .|+ +..|.|.+..=+
T Consensus 491 l~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~~Qd~ 535 (737)
T KOG3611|consen 491 LARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSVIQDV 535 (737)
T ss_pred hhHhhcccchhhhhhccCCCccccCCCCcceECCCCcccchhhhh
Confidence 46787 79888888999999998 686 444556554443
Done!