Query 014261
Match_columns 428
No_of_seqs 292 out of 1756
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 03:25:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014261.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014261hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1311 DHHC-type Zn-finger pr 100.0 2E-50 4.3E-55 401.0 21.6 272 6-306 1-278 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 2.4E-41 5.2E-46 333.1 18.3 196 82-295 58-259 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 1.3E-38 2.9E-43 291.1 10.1 171 86-270 3-173 (174)
4 KOG1314 DHHC-type Zn-finger pr 100.0 1.1E-35 2.4E-40 290.0 11.0 179 84-294 62-263 (414)
5 COG5273 Uncharacterized protei 100.0 8.3E-33 1.8E-37 275.2 12.7 161 84-270 70-232 (309)
6 KOG1313 DHHC-type Zn-finger pr 100.0 1.2E-32 2.7E-37 261.4 9.7 153 145-297 103-279 (309)
7 KOG1312 DHHC-type Zn-finger pr 100.0 7.4E-32 1.6E-36 257.3 10.9 162 84-270 112-290 (341)
8 KOG0509 Ankyrin repeat and DHH 99.9 4.6E-28 9.9E-33 252.7 6.1 145 145-291 421-582 (600)
9 KOG1311 DHHC-type Zn-finger pr 92.7 0.57 1.2E-05 46.7 8.9 41 158-198 113-164 (299)
10 COG5273 Uncharacterized protei 92.2 0.39 8.4E-06 48.5 6.9 117 143-270 122-244 (309)
11 PF01529 zf-DHHC: DHHC palmito 91.0 0.84 1.8E-05 41.3 7.3 57 141-208 59-115 (174)
12 KOG0509 Ankyrin repeat and DHH 74.8 1.2 2.6E-05 48.3 0.8 54 144-198 325-379 (600)
13 PRK15103 paraquat-inducible me 71.1 37 0.0008 35.8 10.7 32 144-175 221-252 (419)
14 PRK04136 rpl40e 50S ribosomal 69.7 2.6 5.7E-05 30.6 1.3 24 144-167 14-37 (48)
15 TIGR00155 pqiA_fam integral me 67.5 39 0.00084 35.5 9.9 31 145-175 14-50 (403)
16 TIGR00155 pqiA_fam integral me 66.7 59 0.0013 34.1 11.1 32 144-175 215-247 (403)
17 PF13240 zinc_ribbon_2: zinc-r 57.8 5.8 0.00012 24.4 1.0 21 146-166 1-21 (23)
18 PHA02680 ORF090 IMV phosphoryl 51.3 67 0.0014 26.5 6.4 41 221-269 42-82 (91)
19 PTZ00303 phosphatidylinositol 51.0 8.1 0.00017 43.3 1.5 22 145-166 461-489 (1374)
20 PF06906 DUF1272: Protein of u 46.9 8.5 0.00018 29.0 0.6 35 147-184 8-50 (57)
21 PF13248 zf-ribbon_3: zinc-rib 45.8 11 0.00024 23.6 0.9 22 145-166 3-24 (26)
22 PF01020 Ribosomal_L40e: Ribos 43.4 16 0.00034 27.1 1.6 24 144-167 17-42 (52)
23 PF00641 zf-RanBP: Zn-finger i 41.8 11 0.00025 24.2 0.6 21 146-166 6-26 (30)
24 COG1552 RPL40A Ribosomal prote 40.6 5.5 0.00012 29.1 -1.1 24 144-167 14-37 (50)
25 PF12773 DZR: Double zinc ribb 39.6 21 0.00045 25.5 1.8 34 144-177 12-48 (50)
26 PRK15103 paraquat-inducible me 36.9 1.2E+02 0.0025 32.1 7.5 28 146-173 12-45 (419)
27 KOG1842 FYVE finger-containing 35.2 11 0.00023 39.8 -0.5 24 144-167 180-205 (505)
28 PF10864 DUF2663: Protein of u 33.3 1.6E+02 0.0034 26.2 6.5 17 188-204 22-38 (130)
29 KOG1398 Uncharacterized conser 33.0 38 0.00082 35.3 3.0 38 276-313 165-203 (460)
30 PF08600 Rsm1: Rsm1-like; Int 32.1 25 0.00053 29.0 1.2 13 171-183 54-66 (91)
31 KOG1315 Predicted DHHC-type Zn 31.2 2.7E+02 0.0059 28.2 8.7 32 157-188 108-139 (307)
32 PHA02898 virion envelope prote 30.1 2.4E+02 0.0052 23.3 6.5 26 245-270 57-83 (92)
33 PF10571 UPF0547: Uncharacteri 29.3 31 0.00068 21.8 1.1 22 145-166 1-22 (26)
34 PF07010 Endomucin: Endomucin; 26.3 1.2E+02 0.0027 29.4 4.9 18 83-100 207-224 (259)
35 PF01363 FYVE: FYVE zinc finge 25.7 21 0.00046 27.2 -0.2 24 145-168 10-35 (69)
36 PF07649 C1_3: C1-like domain; 24.3 26 0.00057 22.5 0.1 21 146-166 2-23 (30)
37 KOG3183 Predicted Zn-finger pr 22.7 41 0.00088 32.8 1.0 16 164-179 34-49 (250)
38 cd01995 ExsB ExsB is a transcr 21.8 29 0.00063 31.1 -0.1 23 146-171 142-164 (169)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2e-50 Score=401.04 Aligned_cols=272 Identities=36% Similarity=0.581 Sum_probs=212.2
Q ss_pred eeeeecCCEEEeCcEEeecCCCchhhhhHHhhhhheeeeeeeeecccccccCCCCchhHHHHHHHHHHHhhchhhHHHHH
Q 014261 6 YEVWKGSNKFIIGGRLIFGPDARSLLVTLLLIIVPVVIFCVFVARHLRHEFSPYNAGYAILVVAIVFTIYVSPLNRWVLG 85 (428)
Q Consensus 6 ~~~~~g~n~f~~~Gr~i~Gpd~~~l~lt~lLi~~~~~lf~v~~~~~l~~~~~~~~~g~~il~v~ivf~i~~~~~~~~~l~ 85 (428)
++.|+|++.+-+.|+.+++|....+++++++++++.. |+++....+.. ...+..+.++.++|.++. ++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~l~~----~~~~~~~~~~~~if~~~~-------~~ 68 (299)
T KOG1311|consen 1 FADFLGNRIPRRGGRILDPPVALPVLVTYVLLVGSET-FFVFLPPLLPR----GGVSPAVLVLGAIFFLLN-------IL 68 (299)
T ss_pred CCcCccccccCCCceeeccccchhHHHHHHHHhhheE-EEEEEeeecCC----cccchHHHHHHHHHHHHH-------HH
Confidence 4678999999999999999999999999999888776 66665555543 123345555556666655 34
Q ss_pred Hhhhhhc---cCCCcCCCCCCCChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCCc
Q 014261 86 LLFLTSA---RDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCS 162 (428)
Q Consensus 86 ~l~lt~~---~DPGiiP~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HCs 162 (428)
.++.+.. +|||++|++.... .+ +. .+.++.+++.+||+.++++||.+|+.+||||||||+
T Consensus 69 ~~~~~~~~~~sdpg~~p~~~~~~-----~~----------~~--~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCs 131 (299)
T KOG1311|consen 69 NLMLACFRMLSDPGIVPRADDEQ-----IE----------DP--ERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCS 131 (299)
T ss_pred HHHHHHhcccCCCceecCcccCC-----CC----------Cc--cccccCCCcccCCcccceEEcCcCcccCCCCcccch
Confidence 4444444 4999999974110 00 00 134567788899999999999999999999999999
Q ss_pred cCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchh--hhhccchhHHHHHHHH
Q 014261 163 ICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVW--RAMKASPASVLLMAYC 240 (428)
Q Consensus 163 ~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~~~~~~~~~~~w--~~~~~~~~~i~l~i~~ 240 (428)
+||+||+||||||||+|||||+||||||++|++++++++++.++++.+++...........+ .........+++.+++
T Consensus 132 vC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 211 (299)
T KOG1311|consen 132 VCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLS 211 (299)
T ss_pred hhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998888776654444333333 2222333455666778
Q ss_pred HHHHHHHHHHHHHHHHHHhhCceeeEeeee-ccCCCCCCCchhHHHhHHHhcCCCCCCCcccccccc
Q 014261 241 FISLWFVGGLTGFHLYLIGTNQTTYENFRY-RADNRLNVYDRGCVNNFLEVFCTKVKTSRNNFRAFV 306 (428)
Q Consensus 241 ~~~~~~v~~L~~~h~ylI~~N~TT~E~~k~-~~~~~~npy~~G~~~N~~evf~~~~~ps~~~~~~~~ 306 (428)
++++++++.|+.||+|+|.+|+||+|+++. +.+.+.++|++|.++|++++||.+.+++....+...
T Consensus 212 ~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~ 278 (299)
T KOG1311|consen 212 ALFLAFTSALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARS 278 (299)
T ss_pred HHHHHHHHHHHHhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCCCCcccccccccC
Confidence 888899999999999999999999999874 433445999999999999999999999988876554
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.4e-41 Score=333.06 Aligned_cols=196 Identities=32% Similarity=0.578 Sum_probs=141.8
Q ss_pred HHHHHhhhhhccCCCcCCCCCCCChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCC
Q 014261 82 WVLGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHC 161 (428)
Q Consensus 82 ~~l~~l~lt~~~DPGiiP~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HC 161 (428)
+++.+++.++++|||.+|..+.++.++.+.... + ...++.+.+...+...+.|+|++|+.+||+|||||
T Consensus 58 m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~------~-----~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHC 126 (307)
T KOG1315|consen 58 MFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLEN------G-----SDNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHC 126 (307)
T ss_pred HHHHHHHheeEecCCCCccccCCCcCccccccc------c-----CcccccceeeEecCCCCceeecccccccCCccccc
Confidence 347788999999999999988765433221111 0 11113334445566678999999999999999999
Q ss_pred ccCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-c-cchhhhhccchhHHHHHHH
Q 014261 162 SICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDH-H-GTVWRAMKASPASVLLMAY 239 (428)
Q Consensus 162 s~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~~~~~~~-~-~~~w~~~~~~~~~i~l~i~ 239 (428)
|+|++||+||||||||+|||||.+|||||++|++|+.+.++++++....++....... . ...+ ....+++++.
T Consensus 127 svC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~ 201 (307)
T KOG1315|consen 127 SVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYFQGGAGPSSLL-----LFFIVFLFLV 201 (307)
T ss_pred hhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCchhH-----HHHHHHHHHH
Confidence 9999999999999999999999999999999999999999988766655554433111 0 0001 0112223333
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCceeeEeeeec----cCCCCCCCchhHHHhHHHhcCCCC
Q 014261 240 CFISLWFVGGLTGFHLYLIGTNQTTYENFRYR----ADNRLNVYDRGCVNNFLEVFCTKV 295 (428)
Q Consensus 240 ~~~~~~~v~~L~~~h~ylI~~N~TT~E~~k~~----~~~~~npy~~G~~~N~~evf~~~~ 295 (428)
+..+.+.+.+|+++|+|||++|+||+|.++.. .....|.|+. ..|+.|+|++++
T Consensus 202 ~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~~n~~~vfg~~~ 259 (307)
T KOG1315|consen 202 AIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--YVNFREVFGSNL 259 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--eecHHHHhCCCc
Confidence 44445556679999999999999999988654 1234566666 789999999974
No 3
>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=1.3e-38 Score=291.09 Aligned_cols=171 Identities=37% Similarity=0.724 Sum_probs=121.7
Q ss_pred HhhhhhccCCCcCCCCCCCChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCCccCC
Q 014261 86 LLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICN 165 (428)
Q Consensus 86 ~l~lt~~~DPGiiP~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HCs~C~ 165 (428)
+|++++++|||++|+.... +++...+. . .......+...++...+.++|.+|++.||+|||||+.||
T Consensus 3 ~~~~~~~~dPG~~~~~~~~-~~~~~~~~-------~-----~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~ 69 (174)
T PF01529_consen 3 SYFLTIFIDPGYVPRSNPD-EDQRQEEK-------E-----EEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCN 69 (174)
T ss_pred EehhhheECCcccCCcccc-cccccccc-------c-----cccchhhhhhccccCCCCEECcccCCcCCCcceeccccc
Confidence 5778899999999987211 11100000 0 000111122234455668999999999999999999999
Q ss_pred ceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhhhhccchhHHHHHHHHHHHHH
Q 014261 166 NCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVWRAMKASPASVLLMAYCFISLW 245 (428)
Q Consensus 166 ~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~~~~~~~~~~~w~~~~~~~~~i~l~i~~~~~~~ 245 (428)
+||+||||||||+|||||++|||+|++|+++..+.+++.+..++.++...........+... .....+++++++++.++
T Consensus 70 ~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 148 (174)
T PF01529_consen 70 RCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIF-SNFSSIFLLIISIFFFI 148 (174)
T ss_pred cccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccc-hhhhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999988877666655443332222111111 01112455566677778
Q ss_pred HHHHHHHHHHHHHhhCceeeEeeee
Q 014261 246 FVGGLTGFHLYLIGTNQTTYENFRY 270 (428)
Q Consensus 246 ~v~~L~~~h~ylI~~N~TT~E~~k~ 270 (428)
+++.|+++|+++|++|+||+|.+|+
T Consensus 149 ~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 149 FVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 8999999999999999999998864
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.1e-35 Score=290.00 Aligned_cols=179 Identities=27% Similarity=0.480 Sum_probs=126.0
Q ss_pred HHHhhhhhccCCCcCCCCCCCChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCCcc
Q 014261 84 LGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSI 163 (428)
Q Consensus 84 l~~l~lt~~~DPGiiP~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HCs~ 163 (428)
+..|+.++++.||++|++++|+.+... ...+||..|+-||+||||||+.
T Consensus 62 ~~ny~~A~~~gPG~vp~~wkPe~~~D~-------------------------------~~lqfCk~CqgYKapRSHHCrk 110 (414)
T KOG1314|consen 62 LYNYFNAIFTGPGFVPLGWKPENPKDE-------------------------------MFLQFCKKCQGYKAPRSHHCRK 110 (414)
T ss_pred HHHHHHHHhcCCCCCCCCCCCCCChhH-------------------------------HHHHHHhhccCcCCCccccchH
Confidence 778999999999999999987432110 1246999999999999999999
Q ss_pred CCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHH--HHHHHHHHHH----HhccccchhhhhccchhHHH--
Q 014261 164 CNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVF--SMSALYIKIL----MEDHHGTVWRAMKASPASVL-- 235 (428)
Q Consensus 164 C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~--~~~~~~i~~~----~~~~~~~~w~~~~~~~~~i~-- 235 (428)
|||||.+|||||||+|||||..||-||+.||++..+.|+-.. ..+++|-.+. .+.....+ ..+.-.+.+++
T Consensus 111 CnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~~g~~hl-p~v~ft~~~li~~ 189 (414)
T KOG1314|consen 111 CNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIKYGLRHL-PIVFFTLSSLIAL 189 (414)
T ss_pred HHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhhcccccC-ceeeccHHHHHHH
Confidence 999999999999999999999999999999999988776532 1223322211 11111100 00111122222
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHhhCceeeEeee---------ec--c--CCCCCCCchhHHHhHHHhcCCC
Q 014261 236 --LMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFR---------YR--A--DNRLNVYDRGCVNNFLEVFCTK 294 (428)
Q Consensus 236 --l~i~~~~~~~~v~~L~~~h~ylI~~N~TT~E~~k---------~~--~--~~~~npy~~G~~~N~~evf~~~ 294 (428)
.+.++...++.++.|+..|+..|.+|+|.+|.+- +. . +.-.-|||+|...|++++|...
T Consensus 190 vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypydlgWr~n~r~vf~~~ 263 (414)
T KOG1314|consen 190 VFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYDLGWRINLREVFFQN 263 (414)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeeccccccccHHHHhhhc
Confidence 2222333445566888899999999999999652 11 1 1125799999777999999765
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=8.3e-33 Score=275.24 Aligned_cols=161 Identities=32% Similarity=0.603 Sum_probs=114.3
Q ss_pred HHHhhhhhccCCCcCCCCCCCChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCCcc
Q 014261 84 LGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSI 163 (428)
Q Consensus 84 l~~l~lt~~~DPGiiP~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HCs~ 163 (428)
..+++.....|||+.+++......++. .+ .....|...+.++|.+|+.+||+|||||+.
T Consensus 70 ~~~~~~~~~~~p~~~~~~~~~~~~~~~---------~~------------~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~ 128 (309)
T COG5273 70 SFSYLLLLVSDPGYLGENITLSGYRET---------IS------------RLLDDGKFGTENFCSTCNIYKPPRSHHCSI 128 (309)
T ss_pred HHhhHHHhhcCCCccCccccccchhhh---------hh------------hhhhcCccccceeccccccccCCCCccchh
Confidence 456778889999999976432211100 00 011123334578999999999999999999
Q ss_pred CCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-chhhhhccchhHHH-HHHHHH
Q 014261 164 CNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHG-TVWRAMKASPASVL-LMAYCF 241 (428)
Q Consensus 164 C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~~~~~~~~~-~~w~~~~~~~~~i~-l~i~~~ 241 (428)
||+||+||||||||+|||||.+|||+|++|+++.....++++..++.++....+.... ..+.. ..+. ...++.
T Consensus 129 Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~li~~~~~~~~ 203 (309)
T COG5273 129 CNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAIC-----FLIFGCSLLGV 203 (309)
T ss_pred hcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHH-----HHHHhhhHHHH
Confidence 9999999999999999999999999999999999888888777777666554332211 11100 0011 112333
Q ss_pred HHHHHHHHHHHHHHHHHhhCceeeEeeee
Q 014261 242 ISLWFVGGLTGFHLYLIGTNQTTYENFRY 270 (428)
Q Consensus 242 ~~~~~v~~L~~~h~ylI~~N~TT~E~~k~ 270 (428)
..++++..++.+|.+++..|+||+|.++.
T Consensus 204 ~~f~~~~~~~~~~~~~~~~~~t~~e~~~~ 232 (309)
T COG5273 204 VFFIITTLLLLFLIYLILNNLTTIEFIQI 232 (309)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 44566778999999999999999997643
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=1.2e-32 Score=261.42 Aligned_cols=153 Identities=32% Similarity=0.535 Sum_probs=113.8
Q ss_pred eecccCCcccCCCCCCCccCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHH-HHHHH--hc---
Q 014261 145 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALY-IKILM--ED--- 218 (428)
Q Consensus 145 k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~-i~~~~--~~--- 218 (428)
.+|.+|..+||||+|||++||+||++|||||||+|||||..||||||+|++|+++.+.|...++... +..+- .+
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 4899999999999999999999999999999999999999999999999999999999977664322 22111 11
Q ss_pred cccc---hhh--hhccc--h----hHHHHHHHHHHHHHHHHHHHHHHHHHHhhCceeeEeeeec-------cCCCCCCCc
Q 014261 219 HHGT---VWR--AMKAS--P----ASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRYR-------ADNRLNVYD 280 (428)
Q Consensus 219 ~~~~---~w~--~~~~~--~----~~i~l~i~~~~~~~~v~~L~~~h~ylI~~N~TT~E~~k~~-------~~~~~npy~ 280 (428)
...+ .|. .+... . -...+.++++.+++.++.|+.+|.++|+.+.|.+|...+. ...+.||++
T Consensus 183 y~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~~n 262 (309)
T KOG1313|consen 183 YASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLRSNPTN 262 (309)
T ss_pred ccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhccCCCcc
Confidence 0001 111 00000 0 0112344455567778899999999999999999966432 234589999
Q ss_pred hhHHHhHHHhcCCCCCC
Q 014261 281 RGCVNNFLEVFCTKVKT 297 (428)
Q Consensus 281 ~G~~~N~~evf~~~~~p 297 (428)
.|...||+.+++-...|
T Consensus 263 ~g~k~nWr~fLg~~~~r 279 (309)
T KOG1313|consen 263 FGGKANWRNFLGLFRGR 279 (309)
T ss_pred cchHHHHHHhhccccCC
Confidence 99999999999776554
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=7.4e-32 Score=257.27 Aligned_cols=162 Identities=35% Similarity=0.677 Sum_probs=106.5
Q ss_pred HHHhhhhhccCCCcCCCCCCC-ChhhhhhccccccCCCCCCCCCCCCCCcceeEEcCcccceeecccCCcccCCCCCCCc
Q 014261 84 LGLLFLTSARDPGIIPRNSHP-PEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCS 162 (428)
Q Consensus 84 l~~l~lt~~~DPGiiP~~~~~-~~~e~~~~~~~~~~~~~~~~~~l~~p~~k~v~vng~~~~~k~C~tC~i~rPpRs~HCs 162 (428)
++++.+++.+|||++.++... ..++++||..+ ++ +.+-|+||++.||+||||||
T Consensus 112 ~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~i-------------f~------------k~~kCSTCki~KPARSKHCs 166 (341)
T KOG1312|consen 112 LIFFTLTCGSNPGIITKANESLFLHVYPYDYVI-------------FP------------KNVKCSTCKIRKPARSKHCS 166 (341)
T ss_pred HHHHhhhhcCCCCccchhhhccceeccCcccee-------------ec------------CCCccccccCCCccccccch
Confidence 667889999999999864211 11333333221 11 12469999999999999999
Q ss_pred cCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHH-HHHHHhccc----cchh-hhhccchhHHHH
Q 014261 163 ICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALY-IKILMEDHH----GTVW-RAMKASPASVLL 236 (428)
Q Consensus 163 ~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~-i~~~~~~~~----~~~w-~~~~~~~~~i~l 236 (428)
+||+||+||||||.|+|||||++|+|||++|+++...++.|.+.-..+. +....+..+ .++| ...+.....+-.
T Consensus 167 iCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ilt~~~g~~ks~~~L~~y 246 (341)
T KOG1312|consen 167 ICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVYILTLGHGHVKSTVFLIQY 246 (341)
T ss_pred HHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchheeeeeeeecchhhHHHHHHH
Confidence 9999999999999999999999999999999999988887765332221 111111111 1122 121111111111
Q ss_pred HHH---------HHH-HHHHHHHHHHHHHHHHhhCceeeEeeee
Q 014261 237 MAY---------CFI-SLWFVGGLTGFHLYLIGTNQTTYENFRY 270 (428)
Q Consensus 237 ~i~---------~~~-~~~~v~~L~~~h~ylI~~N~TT~E~~k~ 270 (428)
++. ++. ...++++...+-.|+-++|+||.|+++.
T Consensus 247 l~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~ 290 (341)
T KOG1312|consen 247 LFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRG 290 (341)
T ss_pred HHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhcc
Confidence 111 111 1335667778889999999999998764
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.94 E-value=4.6e-28 Score=252.70 Aligned_cols=145 Identities=28% Similarity=0.639 Sum_probs=99.9
Q ss_pred eecccCCcccCCCCCCCccCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchh
Q 014261 145 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVW 224 (428)
Q Consensus 145 k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~~~~~~~~~~~w 224 (428)
+||.+|.+.||.|||||++||+||.||||||||++||||.+|||+|+.|+++....+.+++..+..|+....+.. +.|
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~--~~~ 498 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS--TIY 498 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH--HHH
Confidence 599999999999999999999999999999999999999999999999999999888888777777765433221 122
Q ss_pred hh----hc----cchhHHHHHHHHHHHHHHHHH-HHHHHHHHHhhCceeeEeeeecc--------CCCCCCCchhHHHhH
Q 014261 225 RA----MK----ASPASVLLMAYCFISLWFVGG-LTGFHLYLIGTNQTTYENFRYRA--------DNRLNVYDRGCVNNF 287 (428)
Q Consensus 225 ~~----~~----~~~~~i~l~i~~~~~~~~v~~-L~~~h~ylI~~N~TT~E~~k~~~--------~~~~npy~~G~~~N~ 287 (428)
.. +. ..+....++...-+...+... ..+.|...++.+.||+|.++.+. ....+|++.|..+|+
T Consensus 499 ~~~l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~~s~g~~~Nl 578 (600)
T KOG0509|consen 499 VGFLIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSPFSPGPIRNL 578 (600)
T ss_pred HHHHHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhccccccCcCCCCCCchhhhcc
Confidence 11 00 000000000000000011111 22334445788999999775422 234789999999999
Q ss_pred HHhc
Q 014261 288 LEVF 291 (428)
Q Consensus 288 ~evf 291 (428)
.+||
T Consensus 579 ~df~ 582 (600)
T KOG0509|consen 579 VDFF 582 (600)
T ss_pred hhee
Confidence 9998
No 9
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=92.67 E-value=0.57 Score=46.70 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=35.0
Q ss_pred CCCCccCCceeccCCccCCCCCceeeccch-----------hhHHHHHHHHH
Q 014261 158 CSHCSICNNCVERFDHHCPWVGQCIGLRNY-----------RFFFMFVSSST 198 (428)
Q Consensus 158 s~HCs~C~~CV~rfDHHCpWv~nCIG~~Ny-----------r~F~~Fl~~~~ 198 (428)
-++|..|+..+.++-|||..-|+||-+.=| |-+-.|+.++.
T Consensus 113 ~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~ 164 (299)
T KOG1311|consen 113 WKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLF 164 (299)
T ss_pred eEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHH
Confidence 789999999999999999999999988866 45557885544
No 10
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=92.17 E-value=0.39 Score=48.52 Aligned_cols=117 Identities=18% Similarity=0.223 Sum_probs=65.4
Q ss_pred ceeecccCCcccCCCCCCCccCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHhcc--
Q 014261 143 RVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIK-ILMEDH-- 219 (428)
Q Consensus 143 ~~k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~~~~i~-~~~~~~-- 219 (428)
+.++|++|+.=-.-.=|||.-=|+||-+..| |=.-.|++++...+++.++.....+..+. ...+..
T Consensus 122 RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (309)
T COG5273 122 RSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLA 190 (309)
T ss_pred CCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHH
Confidence 4578999998888889999999999999877 66778888876655544443222211111 000000
Q ss_pred -ccchhh--hhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhCceeeEeeee
Q 014261 220 -HGTVWR--AMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY 270 (428)
Q Consensus 220 -~~~~w~--~~~~~~~~i~l~i~~~~~~~~v~~L~~~h~ylI~~N~TT~E~~k~ 270 (428)
...++. .+......+..+++.+.....+..++..+.+.+.++.++-|....
T Consensus 191 ~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~ 244 (309)
T COG5273 191 ICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPL 244 (309)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccch
Confidence 000110 000000111112222222334446677788888899988886543
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=91.03 E-value=0.84 Score=41.26 Aligned_cols=57 Identities=23% Similarity=0.451 Sum_probs=41.3
Q ss_pred ccceeecccCCcccCCCCCCCccCCceeccCCccCCCCCceeeccchhhHHHHHHHHHHHHHHHHHHH
Q 014261 141 PVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMS 208 (428)
Q Consensus 141 ~~~~k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~~Fl~~~~ll~~~~~~~~ 208 (428)
+.+.++|..|+.--..+=|||..-|+||-+.-| +-+=.|+++.....+..++.....
T Consensus 59 p~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~ 115 (174)
T PF01529_consen 59 PPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFILSLYY 115 (174)
T ss_pred CCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678999988888889999999999988777 556677776665555555443333
No 12
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=74.76 E-value=1.2 Score=48.31 Aligned_cols=54 Identities=15% Similarity=-0.051 Sum_probs=46.1
Q ss_pred eeecccCCcccCCCCCCCccCCceeccCCccCCCCCceeeccchhhHH-HHHHHHH
Q 014261 144 VKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFF-MFVSSST 198 (428)
Q Consensus 144 ~k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr~F~-~Fl~~~~ 198 (428)
...|.+|.+..+.+..+|..|-.|+..|++||+|+. ||+.+|-..|. .|+++..
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l 379 (600)
T KOG0509|consen 325 TCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVL 379 (600)
T ss_pred heeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHH
Confidence 357999999999999999999999999999999999 99999987544 4444433
No 13
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=71.09 E-value=37 Score=35.83 Aligned_cols=32 Identities=16% Similarity=0.364 Sum_probs=24.2
Q ss_pred eeecccCCcccCCCCCCCccCCceeccCCccC
Q 014261 144 VKYCDTCMLYRPPRCSHCSICNNCVERFDHHC 175 (428)
Q Consensus 144 ~k~C~tC~i~rPpRs~HCs~C~~CV~rfDHHC 175 (428)
..-|..|+..-|....||..|+.-..+..++.
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 45699999988777778888888776655544
No 14
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=69.74 E-value=2.6 Score=30.65 Aligned_cols=24 Identities=29% Similarity=0.591 Sum_probs=21.5
Q ss_pred eeecccCCcccCCCCCCCccCCce
Q 014261 144 VKYCDTCMLYRPPRCSHCSICNNC 167 (428)
Q Consensus 144 ~k~C~tC~i~rPpRs~HCs~C~~C 167 (428)
.+.|..|...-|+|+..|+.|+.=
T Consensus 14 k~ICrkC~ARnp~~A~~CRKCg~~ 37 (48)
T PRK04136 14 KKICMRCNARNPWRATKCRKCGYK 37 (48)
T ss_pred ccchhcccCCCCccccccccCCCC
Confidence 468999999999999999999863
No 15
>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=67.50 E-value=39 Score=35.50 Aligned_cols=31 Identities=16% Similarity=0.381 Sum_probs=19.2
Q ss_pred eecccCCccc--CC----CCCCCccCCceeccCCccC
Q 014261 145 KYCDTCMLYR--PP----RCSHCSICNNCVERFDHHC 175 (428)
Q Consensus 145 k~C~tC~i~r--Pp----Rs~HCs~C~~CV~rfDHHC 175 (428)
.-|..|+..- |+ ..-+|..|+.-..|.+++.
T Consensus 14 ~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~~ 50 (403)
T TIGR00155 14 ILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDWS 50 (403)
T ss_pred eeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCCC
Confidence 3589997432 32 2335888888776666654
No 16
>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=66.69 E-value=59 Score=34.13 Aligned_cols=32 Identities=16% Similarity=0.426 Sum_probs=22.1
Q ss_pred eeecccCCc-ccCCCCCCCccCCceeccCCccC
Q 014261 144 VKYCDTCML-YRPPRCSHCSICNNCVERFDHHC 175 (428)
Q Consensus 144 ~k~C~tC~i-~rPpRs~HCs~C~~CV~rfDHHC 175 (428)
..-|..|+. .+|....||..|+.-..+..++.
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 446999997 45555667888887766655544
No 17
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=57.82 E-value=5.8 Score=24.35 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=16.8
Q ss_pred ecccCCcccCCCCCCCccCCc
Q 014261 146 YCDTCMLYRPPRCSHCSICNN 166 (428)
Q Consensus 146 ~C~tC~i~rPpRs~HCs~C~~ 166 (428)
||..|...-++-+..|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 588888888888888888874
No 18
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=51.30 E-value=67 Score=26.47 Aligned_cols=41 Identities=29% Similarity=0.428 Sum_probs=25.6
Q ss_pred cchhhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhCceeeEeee
Q 014261 221 GTVWRAMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFR 269 (428)
Q Consensus 221 ~~~w~~~~~~~~~i~l~i~~~~~~~~v~~L~~~h~ylI~~N~TT~E~~k 269 (428)
...|+++ +++.++++. +.+.++++|..|-=++..+++|+++
T Consensus 42 ~~~wRal-----Sii~FIlG~---vl~lGilifs~y~~C~~~~~~~r~n 82 (91)
T PHA02680 42 DYVWRAL-----SVTCFIVGA---VLLLGLFVFSMYRKCSGSMPYERLN 82 (91)
T ss_pred chhHHHH-----HHHHHHHHH---HHHHHHHHHHHhcccCCCceeeccc
Confidence 4578764 233333222 3344688888888788888888764
No 19
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=50.99 E-value=8.1 Score=43.35 Aligned_cols=22 Identities=27% Similarity=0.582 Sum_probs=17.7
Q ss_pred eecccCCcccC-------CCCCCCccCCc
Q 014261 145 KYCDTCMLYRP-------PRCSHCSICNN 166 (428)
Q Consensus 145 k~C~tC~i~rP-------pRs~HCs~C~~ 166 (428)
+.|..|+..-. -|-|||+.|++
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 56999987664 39999999876
No 20
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=46.93 E-value=8.5 Score=29.02 Aligned_cols=35 Identities=34% Similarity=0.962 Sum_probs=26.4
Q ss_pred cccCCcccCCCC-------CCCccCCceeccC-CccCCCCCceeec
Q 014261 147 CDTCMLYRPPRC-------SHCSICNNCVERF-DHHCPWVGQCIGL 184 (428)
Q Consensus 147 C~tC~i~rPpRs-------~HCs~C~~CV~rf-DHHCpWv~nCIG~ 184 (428)
|..|..--|+-+ +-|..|..|+... +++|| ||=|.
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 666665555543 5689999999998 99999 77665
No 21
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=45.84 E-value=11 Score=23.63 Aligned_cols=22 Identities=23% Similarity=0.674 Sum_probs=17.4
Q ss_pred eecccCCcccCCCCCCCccCCc
Q 014261 145 KYCDTCMLYRPPRCSHCSICNN 166 (428)
Q Consensus 145 k~C~tC~i~rPpRs~HCs~C~~ 166 (428)
++|..|...-++-++.|..|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 4788888877888888888874
No 22
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=43.45 E-value=16 Score=27.13 Aligned_cols=24 Identities=29% Similarity=0.820 Sum_probs=16.4
Q ss_pred eeecccCCcccCCCCCCCcc--CCce
Q 014261 144 VKYCDTCMLYRPPRCSHCSI--CNNC 167 (428)
Q Consensus 144 ~k~C~tC~i~rPpRs~HCs~--C~~C 167 (428)
...|..|...-|||+..|+. |+++
T Consensus 17 k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 17 KMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp -EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ceecccccCcCCCCccceecccCCCC
Confidence 46899999999999999998 8765
No 23
>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=41.78 E-value=11 Score=24.18 Aligned_cols=21 Identities=29% Similarity=0.838 Sum_probs=16.4
Q ss_pred ecccCCcccCCCCCCCccCCc
Q 014261 146 YCDTCMLYRPPRCSHCSICNN 166 (428)
Q Consensus 146 ~C~tC~i~rPpRs~HCs~C~~ 166 (428)
.|.+|...-+++..+|..|+.
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 599999999999999999874
No 24
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=40.58 E-value=5.5 Score=29.13 Aligned_cols=24 Identities=33% Similarity=0.830 Sum_probs=21.1
Q ss_pred eeecccCCcccCCCCCCCccCCce
Q 014261 144 VKYCDTCMLYRPPRCSHCSICNNC 167 (428)
Q Consensus 144 ~k~C~tC~i~rPpRs~HCs~C~~C 167 (428)
.+.|..|...-|+|+--|+.|+.=
T Consensus 14 kkIC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 14 KKICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred HHHHHHhcCCCCcchhHHhhccCC
Confidence 468999999999999999988753
No 25
>PF12773 DZR: Double zinc ribbon
Probab=39.65 E-value=21 Score=25.51 Aligned_cols=34 Identities=24% Similarity=0.484 Sum_probs=23.4
Q ss_pred eeecccCCcccC---CCCCCCccCCceeccCCccCCC
Q 014261 144 VKYCDTCMLYRP---PRCSHCSICNNCVERFDHHCPW 177 (428)
Q Consensus 144 ~k~C~tC~i~rP---pRs~HCs~C~~CV~rfDHHCpW 177 (428)
.+||..|...-+ .....|..|+.=+...+.+|+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 457888876655 2356688887777777777764
No 26
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=36.93 E-value=1.2e+02 Score=32.12 Aligned_cols=28 Identities=18% Similarity=0.456 Sum_probs=17.3
Q ss_pred ecccCCccc--C----CCCCCCccCCceeccCCc
Q 014261 146 YCDTCMLYR--P----PRCSHCSICNNCVERFDH 173 (428)
Q Consensus 146 ~C~tC~i~r--P----pRs~HCs~C~~CV~rfDH 173 (428)
-|+.|...- | ...-||..|+.-..+.++
T Consensus 12 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~ 45 (419)
T PRK15103 12 LCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWD 45 (419)
T ss_pred cCCCCCceeecCCCCCCCeeECCCCCCCCcCCCC
Confidence 499998542 2 234567777776655444
No 27
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=35.21 E-value=11 Score=39.77 Aligned_cols=24 Identities=29% Similarity=0.794 Sum_probs=18.4
Q ss_pred eeecccCCccc--CCCCCCCccCCce
Q 014261 144 VKYCDTCMLYR--PPRCSHCSICNNC 167 (428)
Q Consensus 144 ~k~C~tC~i~r--PpRs~HCs~C~~C 167 (428)
+++|+.|...= --|-|||+.||+-
T Consensus 180 V~~CP~Ca~~F~l~rRrHHCRLCG~V 205 (505)
T KOG1842|consen 180 VQFCPECANSFGLTRRRHHCRLCGRV 205 (505)
T ss_pred ccccccccchhhhHHHhhhhhhcchH
Confidence 57999997432 2378999999984
No 28
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=33.26 E-value=1.6e+02 Score=26.15 Aligned_cols=17 Identities=29% Similarity=0.495 Sum_probs=9.0
Q ss_pred hhHHHHHHHHHHHHHHH
Q 014261 188 RFFFMFVSSSTLLCIYV 204 (428)
Q Consensus 188 r~F~~Fl~~~~ll~~~~ 204 (428)
++.++++++++++++|+
T Consensus 22 ~~~~~~l~~~~~~~~y~ 38 (130)
T PF10864_consen 22 FWQWLFLFSLFLFFIYF 38 (130)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34555565555555543
No 29
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.01 E-value=38 Score=35.29 Aligned_cols=38 Identities=13% Similarity=0.209 Sum_probs=22.5
Q ss_pred CCCCchhHHHh-HHHhcCCCCCCCcccccccccccCCCC
Q 014261 276 LNVYDRGCVNN-FLEVFCTKVKTSRNNFRAFVQEEVPRT 313 (428)
Q Consensus 276 ~npy~~G~~~N-~~evf~~~~~ps~~~~~~~~~~~~~~~ 313 (428)
.-+|..++..= +....++..+.|.+.|++++..|...+
T Consensus 165 ~llfg~~~aal~yi~~~g~tlpksFn~f~~~agke~~~e 203 (460)
T KOG1398|consen 165 SLLFGLACAALMYIFIMGPTLPKSFNEFIQKAGKEARPE 203 (460)
T ss_pred chhhhHHHHHHHHHHhcCCCCCccchHHHHHhcccccCc
Confidence 34666666432 222335556677888888877776543
No 30
>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=32.10 E-value=25 Score=28.99 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=9.5
Q ss_pred CCccCCCCCceee
Q 014261 171 FDHHCPWVGQCIG 183 (428)
Q Consensus 171 fDHHCpWv~nCIG 183 (428)
+-.||||++.-..
T Consensus 54 Hr~~CPwv~~~~q 66 (91)
T PF08600_consen 54 HREYCPWVNPSTQ 66 (91)
T ss_pred ccccCCccCCccc
Confidence 4468999987653
No 31
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=31.17 E-value=2.7e+02 Score=28.22 Aligned_cols=32 Identities=19% Similarity=0.423 Sum_probs=28.7
Q ss_pred CCCCCccCCceeccCCccCCCCCceeeccchh
Q 014261 157 RCSHCSICNNCVERFDHHCPWVGQCIGLRNYR 188 (428)
Q Consensus 157 Rs~HCs~C~~CV~rfDHHCpWv~nCIG~~Nyr 188 (428)
+.+.|..|+.-....-|||.--+.||.+.-|.
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHH 139 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHH 139 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccC
Confidence 67789999999999999999999999988664
No 32
>PHA02898 virion envelope protein; Provisional
Probab=30.08 E-value=2.4e+02 Score=23.35 Aligned_cols=26 Identities=31% Similarity=0.294 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHH-HhhCceeeEeeee
Q 014261 245 WFVGGLTGFHLYL-IGTNQTTYENFRY 270 (428)
Q Consensus 245 ~~v~~L~~~h~yl-I~~N~TT~E~~k~ 270 (428)
+.+.++++|..|- -+++.+++|.-++
T Consensus 57 vl~lG~~ifs~y~r~C~~~~~~e~~ry 83 (92)
T PHA02898 57 ILILGIIFFKGYNMFCGGNTTDEVSRY 83 (92)
T ss_pred HHHHHHHHHHHHhhhcCCCccccccee
Confidence 4455777888887 6777777775443
No 33
>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=29.27 E-value=31 Score=21.81 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=16.7
Q ss_pred eecccCCcccCCCCCCCccCCc
Q 014261 145 KYCDTCMLYRPPRCSHCSICNN 166 (428)
Q Consensus 145 k~C~tC~i~rPpRs~HCs~C~~ 166 (428)
|.|+.|...-|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 3588888888888888877764
No 34
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=26.27 E-value=1.2e+02 Score=29.37 Aligned_cols=18 Identities=28% Similarity=0.462 Sum_probs=12.9
Q ss_pred HHHHhhhhhccCCCcCCC
Q 014261 83 VLGLLFLTSARDPGIIPR 100 (428)
Q Consensus 83 ~l~~l~lt~~~DPGiiP~ 100 (428)
++.+|.+|--+|||+.-.
T Consensus 207 LvgLyr~C~k~dPg~p~~ 224 (259)
T PF07010_consen 207 LVGLYRMCWKTDPGTPEN 224 (259)
T ss_pred HHHHHHHhhcCCCCCccc
Confidence 366677788899995433
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=25.73 E-value=21 Score=27.21 Aligned_cols=24 Identities=29% Similarity=0.485 Sum_probs=11.2
Q ss_pred eecccCCccc--CCCCCCCccCCcee
Q 014261 145 KYCDTCMLYR--PPRCSHCSICNNCV 168 (428)
Q Consensus 145 k~C~tC~i~r--PpRs~HCs~C~~CV 168 (428)
+.|..|...= --|-|||+.||+.|
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 4677775322 25789999999864
No 36
>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=24.33 E-value=26 Score=22.48 Aligned_cols=21 Identities=29% Similarity=0.493 Sum_probs=8.4
Q ss_pred ecccCCcccCC-CCCCCccCCc
Q 014261 146 YCDTCMLYRPP-RCSHCSICNN 166 (428)
Q Consensus 146 ~C~tC~i~rPp-Rs~HCs~C~~ 166 (428)
.|..|+..... ..++|..|+-
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 47777766665 6778888863
No 37
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=22.67 E-value=41 Score=32.76 Aligned_cols=16 Identities=31% Similarity=0.439 Sum_probs=11.8
Q ss_pred CCceeccCCccCCCCC
Q 014261 164 CNNCVERFDHHCPWVG 179 (428)
Q Consensus 164 C~~CV~rfDHHCpWv~ 179 (428)
|-.=..+.+|||||..
T Consensus 34 C~eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 34 CLEHRSYESHHCPKGL 49 (250)
T ss_pred hhccchHhhcCCCccc
Confidence 3345678899999974
No 38
>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=21.80 E-value=29 Score=31.07 Aligned_cols=23 Identities=26% Similarity=0.585 Sum_probs=16.3
Q ss_pred ecccCCcccCCCCCCCccCCceeccC
Q 014261 146 YCDTCMLYRPPRCSHCSICNNCVERF 171 (428)
Q Consensus 146 ~C~tC~i~rPpRs~HCs~C~~CV~rf 171 (428)
...+|.. | ...||..|..|++|.
T Consensus 142 ~s~sC~~--~-~~~~CG~C~~C~~r~ 164 (169)
T cd01995 142 LTWSCYN--G-GEKHCGECDSCLLRK 164 (169)
T ss_pred heeeccC--C-CCCCCCCCHHHHHHH
Confidence 3455654 3 338999999999874
Done!