Query 018884
Match_columns 349
No_of_seqs 216 out of 1661
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 04:50:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018884.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018884hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1314 DHHC-type Zn-finger pr 100.0 1.3E-45 2.8E-50 340.2 15.5 227 68-348 48-313 (414)
2 KOG1315 Predicted DHHC-type Zn 100.0 1.1E-42 2.4E-47 325.1 15.6 220 67-326 45-268 (307)
3 KOG1311 DHHC-type Zn-finger pr 100.0 8.2E-41 1.8E-45 317.6 18.0 161 156-322 104-273 (299)
4 PF01529 zf-DHHC: DHHC palmito 100.0 5.5E-39 1.2E-43 281.5 10.5 126 160-285 43-174 (174)
5 KOG1313 DHHC-type Zn-finger pr 100.0 3.1E-36 6.7E-41 270.3 13.8 176 166-343 103-306 (309)
6 COG5273 Uncharacterized protei 100.0 2.4E-34 5.1E-39 272.5 17.7 177 66-286 54-234 (309)
7 KOG0509 Ankyrin repeat and DHH 100.0 5.8E-31 1.3E-35 260.4 11.1 163 156-318 410-588 (600)
8 KOG1312 DHHC-type Zn-finger pr 100.0 4.8E-30 1E-34 231.6 10.5 120 166-285 149-291 (341)
9 COG5273 Uncharacterized protei 94.8 0.26 5.6E-06 47.3 10.3 147 163-321 121-285 (309)
10 PF01529 zf-DHHC: DHHC palmito 92.8 0.84 1.8E-05 39.3 9.1 52 163-225 60-111 (174)
11 PF13240 zinc_ribbon_2: zinc-r 83.7 0.62 1.3E-05 26.6 1.1 21 167-187 1-21 (23)
12 KOG1311 DHHC-type Zn-finger pr 82.2 5.9 0.00013 37.5 7.9 27 74-100 59-88 (299)
13 KOG1314 DHHC-type Zn-finger pr 80.8 27 0.00058 33.9 11.4 95 70-220 55-149 (414)
14 PF13248 zf-ribbon_3: zinc-rib 74.3 1.8 3.9E-05 25.4 1.1 22 166-187 3-24 (26)
15 KOG0509 Ankyrin repeat and DHH 73.7 2 4.3E-05 44.3 1.9 52 164-216 324-375 (600)
16 PF14015 DUF4231: Protein of u 71.9 36 0.00079 26.8 8.7 20 273-292 79-98 (112)
17 PRK04136 rpl40e 50S ribosomal 70.3 2.5 5.4E-05 28.7 1.2 22 166-187 15-36 (48)
18 KOG1315 Predicted DHHC-type Zn 66.0 34 0.00073 32.8 8.3 50 163-223 121-170 (307)
19 PF10571 UPF0547: Uncharacteri 57.6 5.8 0.00013 23.4 1.0 21 167-187 2-22 (26)
20 KOG1313 DHHC-type Zn-finger pr 53.3 1.1E+02 0.0024 28.8 9.1 49 165-224 116-164 (309)
21 PTZ00303 phosphatidylinositol 52.2 7.2 0.00016 41.5 1.3 22 166-187 461-489 (1374)
22 PF12773 DZR: Double zinc ribb 50.9 11 0.00024 25.3 1.7 33 166-198 13-48 (50)
23 PF06906 DUF1272: Protein of u 49.5 8.3 0.00018 27.1 0.9 36 167-205 7-50 (57)
24 PF00641 zf-RanBP: Zn-finger i 44.2 12 0.00027 22.4 1.0 22 166-187 5-26 (30)
25 PF12773 DZR: Double zinc ribb 42.8 17 0.00037 24.4 1.6 22 165-186 29-50 (50)
26 PF01020 Ribosomal_L40e: Ribos 41.2 17 0.00038 25.1 1.4 23 166-188 18-42 (52)
27 COG1552 RPL40A Ribosomal prote 38.9 6.2 0.00013 26.9 -1.0 22 166-187 15-36 (50)
28 PRK02935 hypothetical protein; 37.8 2.1E+02 0.0045 23.0 7.1 7 167-173 72-78 (110)
29 PRK13743 conjugal transfer pro 35.0 2.4E+02 0.0052 23.4 7.3 20 208-227 38-57 (141)
30 COG3336 Predicted membrane pro 33.1 1.1E+02 0.0024 29.0 5.9 45 52-96 140-185 (299)
31 smart00064 FYVE Protein presen 30.8 34 0.00074 24.5 1.7 24 166-189 11-36 (68)
32 KOG3183 Predicted Zn-finger pr 30.3 23 0.0005 32.5 0.8 12 189-200 38-49 (250)
33 PF11023 DUF2614: Protein of u 29.5 2.6E+02 0.0057 22.6 6.6 7 168-174 72-78 (114)
34 PF09889 DUF2116: Uncharacteri 29.0 68 0.0015 22.9 2.9 18 166-183 4-21 (59)
35 PF01363 FYVE: FYVE zinc finge 28.7 17 0.00036 26.2 -0.3 24 166-189 10-35 (69)
36 KOG1842 FYVE finger-containing 27.8 16 0.00035 36.4 -0.6 24 166-189 181-206 (505)
37 KOG1398 Uncharacterized conser 26.4 61 0.0013 32.0 3.0 26 175-206 10-35 (460)
38 PF01437 PSI: Plexin repeat; 24.2 20 0.00044 24.3 -0.5 16 183-198 6-21 (51)
39 cd00065 FYVE FYVE domain; Zinc 23.9 47 0.001 22.7 1.3 23 167-189 4-28 (57)
40 PRK14559 putative protein seri 22.9 53 0.0011 34.9 2.0 22 166-187 28-49 (645)
41 PF07010 Endomucin: Endomucin; 22.9 1.2E+02 0.0026 27.7 4.0 23 78-100 204-226 (259)
42 PRK11875 psbT photosystem II r 22.7 1.9E+02 0.0041 17.8 3.5 24 74-97 6-30 (31)
43 COG1852 Uncharacterized conser 22.7 2.9E+02 0.0063 24.7 6.2 22 169-190 101-122 (209)
44 CHL00031 psbT photosystem II p 22.5 1.6E+02 0.0035 18.4 3.2 26 73-98 5-31 (33)
45 TIGR00155 pqiA_fam integral me 22.4 7.8E+02 0.017 24.5 11.8 30 166-195 216-246 (403)
No 1
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.3e-45 Score=340.18 Aligned_cols=227 Identities=26% Similarity=0.493 Sum_probs=172.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhccCCCccCcccccchhhhHhhhccccCCCCCCCCCCCCccccccCCCCCCCCCCCCcc
Q 018884 68 PWYITFYLLLFVATLVQYFITSGSSPGYVLDAMRHANERNALFQKISTTSKQPASSKNGNMVITMEGSRPGRSFSGSNAT 147 (349)
Q Consensus 68 ~~~~~i~~~l~~l~l~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 (349)
....+.|.+.-.|++++|+.+++++||++|.+|+++..+++.+
T Consensus 48 ~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D~~~------------------------------------- 90 (414)
T KOG1314|consen 48 VPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKDEMF------------------------------------- 90 (414)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChhHHH-------------------------------------
Confidence 3355677777889999999999999999999998653333221
Q ss_pred hhhhhhhhcCCCCCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHH
Q 018884 148 SWTKLVLDLYPPGTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGV 227 (349)
Q Consensus 148 ~~~~~~~~~~~~g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~ 227 (349)
.+||.+|+.+|+||||||+.|||||.+|||||||+|||||..||.+|+.||++..++|+-..+
T Consensus 91 -----------------lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~ti 153 (414)
T KOG1314|consen 91 -----------------LQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTI 153 (414)
T ss_pred -----------------HHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhccccee
Confidence 179999999999999999999999999999999999999999999999999999887765444
Q ss_pred HHHHHHHhhhhhHHH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHh----hccc
Q 018884 228 LYVAYLKANIALAWW----------------KDVIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVR----RRRI 287 (349)
Q Consensus 228 ~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~----~~r~ 287 (349)
+.+..++..+...|. .....++.+.+++...+.+++|++.|+..|.+|+|.+|.+. ..|.
T Consensus 154 I~~~~~~~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr 233 (414)
T KOG1314|consen 154 ILVCAQYRGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRR 233 (414)
T ss_pred eehhHHHHHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHH
Confidence 333222222222221 11122233344556667778999999999999999999876 2233
Q ss_pred ccccCC--CCccCCCCHhHHHHHHHhhccC----CCCcce-------------ecCCChhhhhhccCCceEeeccCcccc
Q 018884 288 PYLRGI--PERVYPFSDGVCRNLYKLCCVK----ASVYNL-------------ERLPTAQEIEEKCRPYTCLDFLTCRCC 348 (349)
Q Consensus 288 ~~~~~~--~~~~npy~~G~~~Nl~~~~~~~----~~~~~~-------------~~lp~~~~~~~~~~~~~~~~~~~~~~~ 348 (349)
++.... .+...|||.||+.|++++++.. ++.-+| +++.+..+++.+.+.|.|....||+||
T Consensus 234 ~~~~~d~~~~f~ypydlgWr~n~r~vf~~~~~~~gdg~~wPv~~gc~qytlt~eql~qk~~kr~rsr~~~~~~~~tG~~~ 313 (414)
T KOG1314|consen 234 EYYFNDDEGEFTYPYDLGWRINLREVFFQNKKEEGDGIEWPVVEGCVQYTLTIEQLTQKLDKRGRSRLFKCIEDVTGDCC 313 (414)
T ss_pred HhhccCCCCceeeeccccccccHHHHhhhccccCCCCccccccCcccccceeHHHHHHHHHhhcCeEEEEeccCCCCCcc
Confidence 343333 4557899999999999987764 444333 344478899999999999999999998
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.1e-42 Score=325.11 Aligned_cols=220 Identities=27% Similarity=0.402 Sum_probs=157.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHhccCCCccCcccccchhhhHhhhccccCCCCCCCCCCCCccccccCCCCCCCCCCCCc
Q 018884 67 EPWYITFYLLLFVATLVQYFITSGSSPGYVLDAMRHANERNALFQKISTTSKQPASSKNGNMVITMEGSRPGRSFSGSNA 146 (349)
Q Consensus 67 ~~~~~~i~~~l~~l~l~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (349)
.....+++++++++.+|+|++++++|||.+|..+.++.+++....+....+
T Consensus 45 ~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~~~~----------------------------- 95 (307)
T KOG1315|consen 45 SVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGSDNE----------------------------- 95 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccCccc-----------------------------
Confidence 344667889999999999999999999999998876554433222111000
Q ss_pred chhhhhhhhcCCCCCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHH
Q 018884 147 TSWTKLVLDLYPPGTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTG 226 (349)
Q Consensus 147 ~~~~~~~~~~~~~g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~ 226 (349)
.....+..+..+..++|.+|+.+||+|||||++|+|||+||||||||+|||||.+|||+|++|++|..+.+++.+
T Consensus 96 -----~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~l 170 (307)
T KOG1315|consen 96 -----RDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVL 170 (307)
T ss_pred -----ccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHH
Confidence 000111122344569999999999999999999999999999999999999999999999999999999998877
Q ss_pred HHHHHHHHhhhhh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhcccccccCCCCccCCCCH
Q 018884 227 VLYVAYLKANIAL----AWWKDVIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRRRIPYLRGIPERVYPFSD 302 (349)
Q Consensus 227 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~r~~~~~~~~~~~npy~~ 302 (349)
+.....+...... .......++++++.++.+++.++.++++|++||++|+||+|.++... ........+.|+.
T Consensus 171 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~---~~~~~~~~~~~~~ 247 (307)
T KOG1315|consen 171 VTTLIGFTKYFQGGAGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPV---FRSGLHNKNGFNL 247 (307)
T ss_pred HHHHHHHHHHHhccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhcccc---ccccccccCCcce
Confidence 7554443322211 11112333444555566666677799999999999999999988652 2222234567776
Q ss_pred hHHHHHHHhhccCCCCcceecCCC
Q 018884 303 GVCRNLYKLCCVKASVYNLERLPT 326 (349)
Q Consensus 303 G~~~Nl~~~~~~~~~~~~~~~lp~ 326 (349)
..|+.|+++. +..+|+.+.++
T Consensus 248 --~~n~~~vfg~-~~~~wl~P~~~ 268 (307)
T KOG1315|consen 248 --YVNFREVFGS-NLLYWLLPIDS 268 (307)
T ss_pred --eecHHHHhCC-CceEEeccccC
Confidence 7899997665 45666655553
No 3
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=8.2e-41 Score=317.62 Aligned_cols=161 Identities=29% Similarity=0.507 Sum_probs=125.8
Q ss_pred cCCCCCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018884 156 LYPPGTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAYLKA 235 (349)
Q Consensus 156 ~~~~g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~~~~ 235 (349)
..++|...+.+||.+|+.+||+|||||++||+||+||||||||+|||||+||||+|++|++++++++++.++.....+..
T Consensus 104 ~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~ 183 (299)
T KOG1311|consen 104 VDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQ 183 (299)
T ss_pred cccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677889999999999999999999999999999999999999999999999999999999888887766555432
Q ss_pred h---hhhHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhcccccccCCCCccCCCCHhHHH
Q 018884 236 N---IALAWW------KDVIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRRRIPYLRGIPERVYPFSDGVCR 306 (349)
Q Consensus 236 ~---~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~r~~~~~~~~~~~npy~~G~~~ 306 (349)
. ....+. .....+++.+.+++.+++++.|+.+|++++.+|+||+|.++..+ ...+.+|||+|.++
T Consensus 184 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~------~~~~~~~~~~g~~~ 257 (299)
T KOG1311|consen 184 RADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKSLD------FVSRSNPYDLGLLK 257 (299)
T ss_pred hcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhccc------cccccCCCchhHHH
Confidence 1 111111 12223334455667777788999999999999999999988511 11125899999999
Q ss_pred HHHHhhccCCCCccee
Q 018884 307 NLYKLCCVKASVYNLE 322 (349)
Q Consensus 307 Nl~~~~~~~~~~~~~~ 322 (349)
|++++++++...-|..
T Consensus 258 n~~~~~~~~~~~~~~~ 273 (299)
T KOG1311|consen 258 NLQEVFGGPLPLSWLS 273 (299)
T ss_pred HHHHHhCCCCCccccc
Confidence 9999999876665543
No 4
>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=5.5e-39 Score=281.46 Aligned_cols=126 Identities=43% Similarity=0.792 Sum_probs=102.5
Q ss_pred CCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 018884 160 GTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAYLKANIAL 239 (349)
Q Consensus 160 g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~ 239 (349)
+.....++|.+|+..||+|||||+.||+||+|+||||+|+|||||++|||+|++|+++..+++++.++..+..+......
T Consensus 43 ~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~ 122 (174)
T PF01529_consen 43 DENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPS 122 (174)
T ss_pred ccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34556699999999999999999999999999999999999999999999999999999999888887666555443221
Q ss_pred HH----HHH-H-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhc
Q 018884 240 AW----WKD-V-IMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRR 285 (349)
Q Consensus 240 ~~----~~~-~-~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~ 285 (349)
.. +.. . ..+++++.+++.+++++.++++|++++++|+||+|.++++
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 123 ISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKRK 174 (174)
T ss_pred ccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHcC
Confidence 11 111 1 1145555667777888999999999999999999999864
No 5
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.1e-36 Score=270.32 Aligned_cols=176 Identities=26% Similarity=0.401 Sum_probs=133.8
Q ss_pred eecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh------
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAYLKANIAL------ 239 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~------ 239 (349)
.+|.+|..+||+|+|||+.|||||+||||||||+|||||..|||||++|++|+++++.+..++..+.+......
T Consensus 103 SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~ta 182 (309)
T KOG1313|consen 103 SFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEITA 182 (309)
T ss_pred cHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhccc
Confidence 68999999999999999999999999999999999999999999999999999999999877655433321110
Q ss_pred ------------HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhc--ccccccCCCCccCC
Q 018884 240 ------------AWW------KDVIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRR--RIPYLRGIPERVYP 299 (349)
Q Consensus 240 ------------~~~------~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~--r~~~~~~~~~~~np 299 (349)
... .......+.+.++..++.++.+..+|..+|..|.|++|..... |.++++ ..+.||
T Consensus 183 y~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a--~~R~~~ 260 (309)
T KOG1313|consen 183 YASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLA--HLRSNP 260 (309)
T ss_pred ccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHH--hccCCC
Confidence 000 0011122334455566778889999999999999999987643 223333 234799
Q ss_pred CCHhHHHHHHHhhccCCCC-ccee-cCCChhhhhhccCCceEeecc
Q 018884 300 FSDGVCRNLYKLCCVKASV-YNLE-RLPTAQEIEEKCRPYTCLDFL 343 (349)
Q Consensus 300 y~~G~~~Nl~~~~~~~~~~-~~~~-~lp~~~~~~~~~~~~~~~~~~ 343 (349)
++.|.++||+.|++-.+.. .|.. .+|+.+..+.....++-.||.
T Consensus 261 ~n~g~k~nWr~fLg~~~~r~~wk~v~lPt~~~p~~~~~~~~~~da~ 306 (309)
T KOG1313|consen 261 TNFGGKANWRNFLGLFRGRHFWKTVLLPTIRKPVKYGDSKEKSDAY 306 (309)
T ss_pred cccchHHHHHHhhccccCCceeEEEeccccccccccCCcccccchh
Confidence 9999999999998865444 6654 788888888777777766654
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=2.4e-34 Score=272.46 Aligned_cols=177 Identities=30% Similarity=0.552 Sum_probs=127.9
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHhccCCCccCcccccchhhhHhhhccccCCCCCCCCCCCCccccccCCCCCCCCCCCC
Q 018884 66 HEPWYITFYLLLFVATLVQYFITSGSSPGYVLDAMRHANERNALFQKISTTSKQPASSKNGNMVITMEGSRPGRSFSGSN 145 (349)
Q Consensus 66 ~~~~~~~i~~~l~~l~l~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (349)
......+.+.++..++.++|+..+++|||+++++....+..
T Consensus 54 ~~~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~--------------------------------------- 94 (309)
T COG5273 54 LVVLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYR--------------------------------------- 94 (309)
T ss_pred chhhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchh---------------------------------------
Confidence 34446667777788899999999999999998664322111
Q ss_pred cchhhhhhhhcCCCCCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHH
Q 018884 146 ATSWTKLVLDLYPPGTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWT 225 (349)
Q Consensus 146 ~~~~~~~~~~~~~~g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~ 225 (349)
+.+..++..|..+++++|.+|+.+||+|||||+.||+||+||||||||+|||||.+|||+|++|+++.....+..
T Consensus 95 -----~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~ 169 (309)
T COG5273 95 -----ETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVV 169 (309)
T ss_pred -----hhhhhhhhcCccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHH
Confidence 112233445566777999999999999999999999999999999999999999999999999999997777666
Q ss_pred HHHHHHHHHhhh--h--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhcc
Q 018884 226 GVLYVAYLKANI--A--LAWWKDVIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRRR 286 (349)
Q Consensus 226 ~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~r 286 (349)
++....++.... . ...+...........+...++++..++.++.+++..|+|++|.....|
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~ 234 (309)
T COG5273 170 LLSTAYYIAGIFSIRHDTSLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISR 234 (309)
T ss_pred HHHHHHHHHhhccccCChHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcc
Confidence 655444433221 1 111111111111223344455667888999999999999999887554
No 7
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.97 E-value=5.8e-31 Score=260.45 Aligned_cols=163 Identities=27% Similarity=0.374 Sum_probs=117.1
Q ss_pred cCCCCCcccc-eecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018884 156 LYPPGTSIRS-LTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAYLK 234 (349)
Q Consensus 156 ~~~~g~~~~~-~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~~~ 234 (349)
+.+-|..+.. +||.+|.+.||.|||||++|||||.||||||||++||||.+|||+|+.|++.+...+.+.+..+..++.
T Consensus 410 l~d~gkf~~en~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~ 489 (600)
T KOG0509|consen 410 LIDFGKFDLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIM 489 (600)
T ss_pred hhccccccccccceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344455555 699999999999999999999999999999999999999999999999999999988888888877776
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH--HH-----------HHH-HHHHHHHHHHHHhCcchHHHHhhcccccccCCC-CccCC
Q 018884 235 ANIALAWWKDVIMIVLLIILAI--SL-----------IFL-LLLLLFHSYLILTNQTTYELVRRRRIPYLRGIP-ERVYP 299 (349)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~~~--~~-----------~~~-~~l~~~h~~li~~n~TT~E~~~~~r~~~~~~~~-~~~np 299 (349)
............++.+.+.... +. .+. +...+.|...++.++||+|.++.+|++++.... ...+|
T Consensus 490 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~ 569 (600)
T KOG0509|consen 490 NLENASTIYVGFLIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSP 569 (600)
T ss_pred hcchhHHHHHHHHHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhccccccCcCCCC
Confidence 5544321111122222111110 00 011 112233444578899999999999887765432 24689
Q ss_pred CCHhHHHHHHHhhccCCCC
Q 018884 300 FSDGVCRNLYKLCCVKASV 318 (349)
Q Consensus 300 y~~G~~~Nl~~~~~~~~~~ 318 (349)
++.|+.+|+.+|+-.+.-+
T Consensus 570 ~s~g~~~Nl~df~~~~~~~ 588 (600)
T KOG0509|consen 570 FSPGPIRNLVDFFLCSDCN 588 (600)
T ss_pred CCchhhhcchheeecccCc
Confidence 9999999999997665433
No 8
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.96 E-value=4.8e-30 Score=231.58 Aligned_cols=120 Identities=37% Similarity=0.675 Sum_probs=82.2
Q ss_pred eecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHH-HH--hhhhh---
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAY-LK--ANIAL--- 239 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~-~~--~~~~~--- 239 (349)
.-|+||+..||.|||||+.|||||+|+||||.|+|||||++|.|||++|+++...++.+.++-.... +- .+...
T Consensus 149 ~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ 228 (341)
T KOG1312|consen 149 VKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVY 228 (341)
T ss_pred CccccccCCCccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchhee
Confidence 5699999999999999999999999999999999999999999999999999877777665432211 10 00000
Q ss_pred ---HHH---H-HHHH--HHHHH-------H-HHHHHHHHHHHHHHHHHHHHhCcchHHHHhhc
Q 018884 240 ---AWW---K-DVIM--IVLLI-------I-LAISLIFLLLLLLFHSYLILTNQTTYELVRRR 285 (349)
Q Consensus 240 ---~~~---~-~~~~--~~~~~-------~-~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~ 285 (349)
.++ + ...+ .+++. . ....+.+++..+.+-.++-++|+||.|+.+++
T Consensus 229 ilt~~~g~~ks~~~L~~yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~d 291 (341)
T KOG1312|consen 229 ILTLGHGHVKSTVFLIQYLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRGD 291 (341)
T ss_pred eeeeeecchhhHHHHHHHHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhccc
Confidence 000 0 0000 01110 0 01112335556667788899999999988764
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=94.78 E-value=0.26 Score=47.25 Aligned_cols=147 Identities=21% Similarity=0.213 Sum_probs=88.8
Q ss_pred ccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Q 018884 163 IRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWTGVLYVAYLK-------- 234 (349)
Q Consensus 163 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~~~~~~~~~~-------- 234 (349)
.|.+.|+.|+.--...-|||..=|+||-+.-| |=.-.|++++...++..++.....+....
T Consensus 121 ~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 189 (309)
T COG5273 121 PRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSL 189 (309)
T ss_pred CCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHH
Confidence 45589999999999999999999999998665 55678998887766655554443322111
Q ss_pred --h-hhhhHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHhhcccc-----cccCCCCccCCCCHhH
Q 018884 235 --A-NIALAWWKD--VIMIVLLIILAISLIFLLLLLLFHSYLILTNQTTYELVRRRRIP-----YLRGIPERVYPFSDGV 304 (349)
Q Consensus 235 --~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~r~~-----~~~~~~~~~npy~~G~ 304 (349)
. ....-.+.. .+.+..+.+......++......+.+.+.++.++.|...-.|.. .....++...|++.|.
T Consensus 190 ~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~ 269 (309)
T COG5273 190 AICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDLGI 269 (309)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCccccccccCc
Confidence 0 111101111 11112222223333344566777888889999998876544333 1112233457888888
Q ss_pred HHHHHHhhccCCCCcce
Q 018884 305 CRNLYKLCCVKASVYNL 321 (349)
Q Consensus 305 ~~Nl~~~~~~~~~~~~~ 321 (349)
-+|+..+... ...+|.
T Consensus 270 ~~~~~~i~~~-~~~~~~ 285 (309)
T COG5273 270 GQNLSTIKGS-NALYWL 285 (309)
T ss_pred cccceeecCC-Cceeec
Confidence 8888875443 334443
No 10
>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=92.81 E-value=0.84 Score=39.33 Aligned_cols=52 Identities=21% Similarity=0.325 Sum_probs=39.4
Q ss_pred ccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHHH
Q 018884 163 IRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLWT 225 (349)
Q Consensus 163 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~~ 225 (349)
.|.++|..|+.-...+-|||..-|.||-+.-| +.+-.|+++.....+..++.
T Consensus 60 ~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~ 111 (174)
T PF01529_consen 60 PRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFIL 111 (174)
T ss_pred CcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHH
Confidence 35589999999999999999999999998766 34557777666555444443
No 11
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=83.67 E-value=0.62 Score=26.65 Aligned_cols=21 Identities=33% Similarity=0.798 Sum_probs=18.5
Q ss_pred ecccCccccCCCCcccccccc
Q 018884 167 TCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 167 ~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
||+.|...-++.++.|..||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 589999999999999999885
No 12
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=82.18 E-value=5.9 Score=37.53 Aligned_cols=27 Identities=19% Similarity=0.333 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHhcc---CCCccCccc
Q 018884 74 YLLLFVATLVQYFITSGS---SPGYVLDAM 100 (349)
Q Consensus 74 ~~~l~~l~l~~y~~~~~~---dPG~vp~~~ 100 (349)
..++++..+...+.+..+ |||.+|++.
T Consensus 59 ~~if~~~~~~~~~~~~~~~~sdpg~~p~~~ 88 (299)
T KOG1311|consen 59 GAIFFLLNILNLMLACFRMLSDPGIVPRAD 88 (299)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCceecCcc
Confidence 344444444444444444 999999864
No 13
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=80.75 E-value=27 Score=33.93 Aligned_cols=95 Identities=18% Similarity=0.149 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCccCcccccchhhhHhhhccccCCCCCCCCCCCCccccccCCCCCCCCCCCCcchh
Q 018884 70 YITFYLLLFVATLVQYFITSGSSPGYVLDAMRHANERNALFQKISTTSKQPASSKNGNMVITMEGSRPGRSFSGSNATSW 149 (349)
Q Consensus 70 ~~~i~~~l~~l~l~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (349)
.+..+.+++-.....+.--=+..||+-|...+.+.-. .+-+.=+.-
T Consensus 55 ~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D~~~l--qfCk~CqgY-------------------------------- 100 (414)
T KOG1314|consen 55 LLWTSMILYNYFNAIFTGPGFVPLGWKPENPKDEMFL--QFCKKCQGY-------------------------------- 100 (414)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChhHHHH--HHHhhccCc--------------------------------
Confidence 3334445555555556666789999999776654333 232211110
Q ss_pred hhhhhhcCCCCCcccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHH
Q 018884 150 TKLVLDLYPPGTSIRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETA 220 (349)
Q Consensus 150 ~~~~~~~~~~g~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~ 220 (349)
...|...|.+|+.---.--|||..-+.||--..|- -.-+|++|.....+
T Consensus 101 -----------KapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~-----------~F~~FLlf~ivG~i 149 (414)
T KOG1314|consen 101 -----------KAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHA-----------YFLRFLLFSIVGCI 149 (414)
T ss_pred -----------CCCccccchHHHHHHHhhccCCcchhhcccccccH-----------HHHHHHHHHHHhcc
Confidence 11233789999998888899999999999765553 35789999887433
No 14
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=74.30 E-value=1.8 Score=25.40 Aligned_cols=22 Identities=36% Similarity=0.916 Sum_probs=19.0
Q ss_pred eecccCccccCCCCcccccccc
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
++|+.|...-++.++.|..||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5799999988899999998875
No 15
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=73.67 E-value=2 Score=44.30 Aligned_cols=52 Identities=8% Similarity=-0.024 Sum_probs=45.6
Q ss_pred cceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHH
Q 018884 164 RSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFIC 216 (349)
Q Consensus 164 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~ 216 (349)
-...|.+|+...+.+..++..+-.++..+++||+|+. +|+.+|...|-...+
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i 375 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFI 375 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHH
Confidence 3467999999999999999999999999999999999 999999876544433
No 16
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=71.93 E-value=36 Score=26.77 Aligned_cols=20 Identities=30% Similarity=0.519 Sum_probs=15.5
Q ss_pred HhCcchHHHHhhcccccccC
Q 018884 273 LTNQTTYELVRRRRIPYLRG 292 (349)
Q Consensus 273 ~~n~TT~E~~~~~r~~~~~~ 292 (349)
..+++|-|.++..++.|..+
T Consensus 79 ~~~r~tae~lk~e~~~~~~~ 98 (112)
T PF14015_consen 79 IRYRATAESLKREKWLYLAG 98 (112)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 47889999999887766544
No 17
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=70.34 E-value=2.5 Score=28.71 Aligned_cols=22 Identities=36% Similarity=0.831 Sum_probs=20.6
Q ss_pred eecccCccccCCCCcccccccc
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
..|.+|...-|+|+..|+.||.
T Consensus 15 ~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 15 KICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cchhcccCCCCccccccccCCC
Confidence 7899999999999999998875
No 18
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=66.04 E-value=34 Score=32.81 Aligned_cols=50 Identities=22% Similarity=0.251 Sum_probs=35.5
Q ss_pred ccceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHH
Q 018884 163 IRSLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCL 223 (349)
Q Consensus 163 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~ 223 (349)
+|-..|+.|+.---..-|||..=++||.-.++ +=.-.|+.+....++..+
T Consensus 121 dRaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~~~~l 170 (307)
T KOG1315|consen 121 DRAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYSIYVL 170 (307)
T ss_pred CccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHHHHHH
Confidence 45578888888888888999999999976554 445567776665554433
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=57.64 E-value=5.8 Score=23.39 Aligned_cols=21 Identities=43% Similarity=0.933 Sum_probs=17.8
Q ss_pred ecccCccccCCCCcccccccc
Q 018884 167 TCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 167 ~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
.|+.|...-|.-++-|..||.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCC
Confidence 589999999999999988874
No 20
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=53.33 E-value=1.1e+02 Score=28.78 Aligned_cols=49 Identities=22% Similarity=0.390 Sum_probs=38.9
Q ss_pred ceecccCccccCCCCcccccccccccccccccccccccccccchHHHHHHHHHHHHHHHH
Q 018884 165 SLTCSYCNVEQPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLVNHCRFWWFICEETALCLW 224 (349)
Q Consensus 165 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~N~r~F~~fl~~~~~~~~~ 224 (349)
-..|+.|+.-.-.--|||..=|.||--..| |-.-.|+.++.-.+.++.+
T Consensus 116 THHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryFFlFl~~ltlat~~~~i 164 (309)
T KOG1313|consen 116 THHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYFFLFLFYLTLATSYAAI 164 (309)
T ss_pred cchhhHHhhHhhccccCCchhhcccccccc-----------hhHHHHHHHHHHHHHHHHH
Confidence 367999998888889999999999988777 5567888888665554443
No 21
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=52.19 E-value=7.2 Score=41.49 Aligned_cols=22 Identities=32% Similarity=0.724 Sum_probs=18.3
Q ss_pred eecccCccccC-------CCCcccccccc
Q 018884 166 LTCSYCNVEQP-------PRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP-------~Rs~HC~~C~~ 187 (349)
..|..|+..-. .|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 56999988764 39999999987
No 22
>PF12773 DZR: Double zinc ribbon
Probab=50.87 E-value=11 Score=25.32 Aligned_cols=33 Identities=21% Similarity=0.426 Sum_probs=23.6
Q ss_pred eecccCccccC---CCCccccccccccccccccccc
Q 018884 166 LTCSYCNVEQP---PRAKHCHDCDRCVLQFDHHCVW 198 (349)
Q Consensus 166 ~~C~~C~~~kP---~Rs~HC~~C~~CV~r~DHHC~W 198 (349)
+||..|...-+ .....|..|+.=+...+.+|+.
T Consensus 13 ~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 13 KFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred cCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 67888877655 4466788888877777777763
No 23
>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=49.45 E-value=8.3 Score=27.11 Aligned_cols=36 Identities=28% Similarity=0.804 Sum_probs=28.0
Q ss_pred ecccCccccCCCC-------ccccccccccccc-ccccccccccccc
Q 018884 167 TCSYCNVEQPPRA-------KHCHDCDRCVLQF-DHHCVWLGTCVGL 205 (349)
Q Consensus 167 ~C~~C~~~kP~Rs-------~HC~~C~~CV~r~-DHHC~Wv~nCIG~ 205 (349)
-|..|..--|+-| +-|..|..|+... +++|| ||=|.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 3777777766655 6788999999998 99999 66554
No 24
>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=44.20 E-value=12 Score=22.41 Aligned_cols=22 Identities=23% Similarity=0.730 Sum_probs=17.5
Q ss_pred eecccCccccCCCCcccccccc
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
+.|..|...-+++..+|..|+.
T Consensus 5 W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 5 WKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EEETTTTEEEESSSSB-TTT--
T ss_pred ccCCCCcCCchHHhhhhhCcCC
Confidence 7799999999999999999874
No 25
>PF12773 DZR: Double zinc ribbon
Probab=42.84 E-value=17 Score=24.42 Aligned_cols=22 Identities=41% Similarity=1.050 Sum_probs=20.0
Q ss_pred ceecccCccccCCCCccccccc
Q 018884 165 SLTCSYCNVEQPPRAKHCHDCD 186 (349)
Q Consensus 165 ~~~C~~C~~~kP~Rs~HC~~C~ 186 (349)
..+|+.|....++.+.+|..||
T Consensus 29 ~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 29 KKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCcCCcCCCcCCcCccCccc
Confidence 3789999999999999999986
No 26
>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=41.18 E-value=17 Score=25.09 Aligned_cols=23 Identities=35% Similarity=0.998 Sum_probs=16.5
Q ss_pred eecccCccccCCCCccccc--cccc
Q 018884 166 LTCSYCNVEQPPRAKHCHD--CDRC 188 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~--C~~C 188 (349)
..|.+|...-|+|+..|+. ||.+
T Consensus 18 ~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 18 MICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred eecccccCcCCCCccceecccCCCC
Confidence 6899999999999999998 8764
No 27
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=38.89 E-value=6.2 Score=26.88 Aligned_cols=22 Identities=36% Similarity=0.961 Sum_probs=20.1
Q ss_pred eecccCccccCCCCcccccccc
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
+.|..|...-|+|+.-|+.|+.
T Consensus 15 kIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 15 KICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred HHHHHhcCCCCcchhHHhhccC
Confidence 6799999999999999998864
No 28
>PRK02935 hypothetical protein; Provisional
Probab=37.78 E-value=2.1e+02 Score=22.96 Aligned_cols=7 Identities=29% Similarity=0.956 Sum_probs=3.6
Q ss_pred ecccCcc
Q 018884 167 TCSYCNV 173 (349)
Q Consensus 167 ~C~~C~~ 173 (349)
.|+.|+.
T Consensus 72 ~CP~C~K 78 (110)
T PRK02935 72 ICPSCEK 78 (110)
T ss_pred ECCCCCc
Confidence 3555554
No 29
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=35.05 E-value=2.4e+02 Score=23.43 Aligned_cols=20 Identities=25% Similarity=-0.002 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 018884 208 HCRFWWFICEETALCLWTGV 227 (349)
Q Consensus 208 ~r~F~~fl~~~~~~~~~~~~ 227 (349)
-+||-+|+++++++.+...+
T Consensus 38 ~~Y~~LfiVFl~AG~vLw~v 57 (141)
T PRK13743 38 DIYFDLFIVFLTAGIVLWVI 57 (141)
T ss_pred HHHHHHHHHHHHhhHHHHHH
Confidence 46888999888877654443
No 30
>COG3336 Predicted membrane protein [Function unknown]
Probab=33.12 E-value=1.1e+02 Score=28.99 Aligned_cols=45 Identities=18% Similarity=0.238 Sum_probs=26.5
Q ss_pred hhhhcchhhhhhccCccHHHHHHHHHHHHHHHHHHHHh-ccCCCcc
Q 018884 52 VIFLFDSELIEKTKHEPWYITFYLLLFVATLVQYFITS-GSSPGYV 96 (349)
Q Consensus 52 ~~~~~~~~l~~~~~~~~~~~~i~~~l~~l~l~~y~~~~-~~dPG~v 96 (349)
.+++..+.++.....+++...+..+++++.-+.++..+ -.|||--
T Consensus 140 ~~~~hvpplfda~v~~p~~H~lm~~~~f~~aylfww~mI~~dpg~r 185 (299)
T COG3336 140 FWAWHVPPLFDAAVTSPTLHLLMNLLFFLSAYLFWWAMIGPDPGPR 185 (299)
T ss_pred HHHhccchhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHccCCCCc
Confidence 34444555555556677766666666655555555554 4599763
No 31
>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 KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=30.29 E-value=23 Score=32.47 Aligned_cols=12 Identities=25% Similarity=0.008 Sum_probs=9.0
Q ss_pred cccccccccccc
Q 018884 189 VLQFDHHCVWLG 200 (349)
Q Consensus 189 V~r~DHHC~Wv~ 200 (349)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 456789999864
No 33
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=29.49 E-value=2.6e+02 Score=22.65 Aligned_cols=7 Identities=29% Similarity=1.066 Sum_probs=3.8
Q ss_pred cccCccc
Q 018884 168 CSYCNVE 174 (349)
Q Consensus 168 C~~C~~~ 174 (349)
|+.|+..
T Consensus 72 CP~C~K~ 78 (114)
T PF11023_consen 72 CPNCGKQ 78 (114)
T ss_pred CCCCCCh
Confidence 6666543
No 34
>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=29.00 E-value=68 Score=22.87 Aligned_cols=18 Identities=28% Similarity=0.785 Sum_probs=12.8
Q ss_pred eecccCccccCCCCcccc
Q 018884 166 LTCSYCNVEQPPRAKHCH 183 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~ 183 (349)
+.|..|...-|+--..||
T Consensus 4 kHC~~CG~~Ip~~~~fCS 21 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCS 21 (59)
T ss_pred CcCCcCCCcCCcchhhhC
Confidence 567777777777777775
No 35
>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=28.67 E-value=17 Score=26.24 Aligned_cols=24 Identities=33% Similarity=0.800 Sum_probs=12.5
Q ss_pred eecccCccc--cCCCCcccccccccc
Q 018884 166 LTCSYCNVE--QPPRAKHCHDCDRCV 189 (349)
Q Consensus 166 ~~C~~C~~~--kP~Rs~HC~~C~~CV 189 (349)
..|..|... --.|-|||+.||+.|
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEE
Confidence 468878654 347999999999865
No 36
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=27.80 E-value=16 Score=36.45 Aligned_cols=24 Identities=29% Similarity=0.679 Sum_probs=19.9
Q ss_pred eecccCccc--cCCCCcccccccccc
Q 018884 166 LTCSYCNVE--QPPRAKHCHDCDRCV 189 (349)
Q Consensus 166 ~~C~~C~~~--kP~Rs~HC~~C~~CV 189 (349)
.+|+.|... -..|-|||+-||+-+
T Consensus 181 ~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 181 QFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred cccccccchhhhHHHhhhhhhcchHH
Confidence 789999865 457999999999855
No 37
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.36 E-value=61 Score=32.01 Aligned_cols=26 Identities=31% Similarity=0.834 Sum_probs=19.0
Q ss_pred cCCCCccccccccccccccccccccccccccc
Q 018884 175 QPPRAKHCHDCDRCVLQFDHHCVWLGTCVGLV 206 (349)
Q Consensus 175 kP~Rs~HC~~C~~CV~r~DHHC~Wv~nCIG~~ 206 (349)
+-.|-.||..|+. .|| +|+.||||.-
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga~ 35 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGAL 35 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHHH
Confidence 4556667777764 677 6999999973
No 38
>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=24.22 E-value=20 Score=24.31 Aligned_cols=16 Identities=31% Similarity=0.916 Sum_probs=10.9
Q ss_pred cccccccccccccccc
Q 018884 183 HDCDRCVLQFDHHCVW 198 (349)
Q Consensus 183 ~~C~~CV~r~DHHC~W 198 (349)
..|+.|+.-.|-+|.|
T Consensus 6 ~sC~~Cl~~~dp~CgW 21 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGW 21 (51)
T ss_dssp SSHHHHHHSTCTTEEE
T ss_pred CcHHHHHcCCCcCccc
Confidence 5566677777767776
No 39
>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=23.87 E-value=47 Score=22.70 Aligned_cols=23 Identities=30% Similarity=0.800 Sum_probs=15.3
Q ss_pred ecccCccc--cCCCCcccccccccc
Q 018884 167 TCSYCNVE--QPPRAKHCHDCDRCV 189 (349)
Q Consensus 167 ~C~~C~~~--kP~Rs~HC~~C~~CV 189 (349)
.|..|... .-.|.|||+.||+-+
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred cCcccCccccCCccccccCcCcCCc
Confidence 46666532 356889999888754
No 40
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=22.95 E-value=53 Score=34.88 Aligned_cols=22 Identities=32% Similarity=0.862 Sum_probs=11.7
Q ss_pred eecccCccccCCCCcccccccc
Q 018884 166 LTCSYCNVEQPPRAKHCHDCDR 187 (349)
Q Consensus 166 ~~C~~C~~~kP~Rs~HC~~C~~ 187 (349)
+.|+.|...-|+.+++|..||.
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~ 49 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGA 49 (645)
T ss_pred CcCCCCCCCCCcccccccccCC
Confidence 3455555555555555555554
No 41
>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=22.92 E-value=1.2e+02 Score=27.70 Aligned_cols=23 Identities=13% Similarity=0.127 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHhccCCCccCccc
Q 018884 78 FVATLVQYFITSGSSPGYVLDAM 100 (349)
Q Consensus 78 ~~l~l~~y~~~~~~dPG~vp~~~ 100 (349)
.++.+..|.++--+|||.+....
T Consensus 204 vf~LvgLyr~C~k~dPg~p~~g~ 226 (259)
T PF07010_consen 204 VFTLVGLYRMCWKTDPGTPENGP 226 (259)
T ss_pred HHHHHHHHHHhhcCCCCCcccCC
Confidence 34445567777789999765443
No 42
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=22.72 E-value=1.9e+02 Score=17.77 Aligned_cols=24 Identities=17% Similarity=0.402 Sum_probs=13.4
Q ss_pred HHHHHHHH-HHHHHHHhccCCCccC
Q 018884 74 YLLLFVAT-LVQYFITSGSSPGYVL 97 (349)
Q Consensus 74 ~~~l~~l~-l~~y~~~~~~dPG~vp 97 (349)
|.++.+.+ ...++...+.||-.++
T Consensus 6 Ytfll~~tlgiiFFAIfFRepPri~ 30 (31)
T PRK11875 6 YILILTLALVTLFFAIAFRDPPKID 30 (31)
T ss_pred HHHHHHHHHHHHHHhhhccCCCCCC
Confidence 44444443 3456677788885544
No 43
>COG1852 Uncharacterized conserved protein [Function unknown]
Probab=22.71 E-value=2.9e+02 Score=24.73 Aligned_cols=22 Identities=27% Similarity=0.928 Sum_probs=17.8
Q ss_pred ccCccccCCCCccccccccccc
Q 018884 169 SYCNVEQPPRAKHCHDCDRCVL 190 (349)
Q Consensus 169 ~~C~~~kP~Rs~HC~~C~~CV~ 190 (349)
++|...-.+--.-|+.||+||.
T Consensus 101 ~~CeA~~t~~G~~Ck~CgkCvi 122 (209)
T COG1852 101 PKCEAKLTPTGYECKKCGKCVI 122 (209)
T ss_pred CCCccccccccceecccCCeeh
Confidence 4577777777889999999984
No 44
>CHL00031 psbT photosystem II protein T
Probab=22.46 E-value=1.6e+02 Score=18.36 Aligned_cols=26 Identities=31% Similarity=0.443 Sum_probs=15.3
Q ss_pred HHHHHHHHHH-HHHHHHhccCCCccCc
Q 018884 73 FYLLLFVATL-VQYFITSGSSPGYVLD 98 (349)
Q Consensus 73 i~~~l~~l~l-~~y~~~~~~dPG~vp~ 98 (349)
+|.++.+.++ ..++...+.||-.+++
T Consensus 5 vYtfll~~tlgilFFAI~FRePPri~k 31 (33)
T CHL00031 5 VYTFLLVSTLGIIFFAIFFREPPKVPT 31 (33)
T ss_pred HHHHHHHHHHHHHHHhheecCCCCCCC
Confidence 3444444443 4566777899966654
No 45
>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=22.39 E-value=7.8e+02 Score=24.49 Aligned_cols=30 Identities=20% Similarity=0.483 Sum_probs=23.2
Q ss_pred eecccCcc-ccCCCCcccccccccccccccc
Q 018884 166 LTCSYCNV-EQPPRAKHCHDCDRCVLQFDHH 195 (349)
Q Consensus 166 ~~C~~C~~-~kP~Rs~HC~~C~~CV~r~DHH 195 (349)
.-|..|+. ..|....+|..|+.-..+..++
T Consensus 216 ~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 216 RSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 45999997 5666677899998888776665
Done!