Query 014643
Match_columns 421
No_of_seqs 300 out of 1710
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 07:08:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014643.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014643hhsearch_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 1.2E-50 2.5E-55 401.7 21.5 272 6-299 1-278 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 1.2E-41 2.5E-46 334.4 18.7 226 44-287 27-258 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 1.2E-38 2.6E-43 290.7 9.3 171 79-263 3-173 (174)
4 KOG1314 DHHC-type Zn-finger pr 100.0 3.8E-35 8.3E-40 285.5 12.9 197 61-289 46-265 (414)
5 COG5273 Uncharacterized protei 100.0 8.6E-33 1.9E-37 274.4 12.8 164 73-263 66-232 (309)
6 KOG1313 DHHC-type Zn-finger pr 100.0 5.5E-33 1.2E-37 263.2 9.8 152 138-290 103-279 (309)
7 KOG1312 DHHC-type Zn-finger pr 100.0 9.6E-32 2.1E-36 255.9 10.4 168 71-263 106-290 (341)
8 KOG0509 Ankyrin repeat and DHH 99.9 1.3E-28 2.8E-33 256.2 7.0 145 138-284 421-582 (600)
9 COG5273 Uncharacterized protei 93.3 0.23 5E-06 50.0 7.1 118 136-264 122-245 (309)
10 KOG1311 DHHC-type Zn-finger pr 92.6 0.61 1.3E-05 46.4 9.0 41 151-191 113-164 (299)
11 PF01529 zf-DHHC: DHHC palmito 92.2 0.53 1.2E-05 42.4 7.3 61 133-204 58-118 (174)
12 KOG0509 Ankyrin repeat and DHH 78.7 1.1 2.5E-05 48.4 1.8 55 137-192 325-380 (600)
13 PRK04136 rpl40e 50S ribosomal 71.7 2.2 4.7E-05 31.0 1.2 24 136-159 13-36 (48)
14 PF13240 zinc_ribbon_2: zinc-r 64.7 3.6 7.9E-05 25.2 1.0 21 139-159 1-21 (23)
15 PRK15103 paraquat-inducible me 56.2 94 0.002 32.7 10.4 31 137-167 221-251 (419)
16 PF13248 zf-ribbon_3: zinc-rib 53.7 6.9 0.00015 24.5 0.9 22 138-159 3-24 (26)
17 PTZ00303 phosphatidylinositol 49.4 8.4 0.00018 43.1 1.3 22 138-159 461-489 (1374)
18 TIGR00155 pqiA_fam integral me 48.2 1.5E+02 0.0032 31.1 10.3 31 137-167 215-246 (403)
19 PF12773 DZR: Double zinc ribb 48.2 12 0.00027 26.6 1.7 34 137-170 12-48 (50)
20 PF06906 DUF1272: Protein of u 48.2 8.9 0.00019 28.8 0.9 35 140-177 8-50 (57)
21 TIGR00155 pqiA_fam integral me 46.7 1.2E+02 0.0026 31.8 9.3 30 138-167 14-49 (403)
22 PF01020 Ribosomal_L40e: Ribos 45.6 13 0.00028 27.5 1.4 24 137-160 17-42 (52)
23 COG1552 RPL40A Ribosomal prote 45.0 4.9 0.00011 29.3 -0.9 24 137-160 14-37 (50)
24 PF00641 zf-RanBP: Zn-finger i 42.4 12 0.00025 24.1 0.7 21 139-159 6-26 (30)
25 PF10864 DUF2663: Protein of u 38.1 1.3E+02 0.0029 26.5 6.8 17 181-197 22-38 (130)
26 PHA02680 ORF090 IMV phosphoryl 33.8 2.1E+02 0.0044 23.6 6.7 25 238-262 58-82 (91)
27 KOG1842 FYVE finger-containing 31.5 14 0.00029 38.9 -0.5 26 136-161 179-206 (505)
28 PF10571 UPF0547: Uncharacteri 31.2 26 0.00056 22.1 0.9 22 138-159 1-22 (26)
29 PF08600 Rsm1: Rsm1-like; Int 30.8 25 0.00054 28.9 1.1 14 163-176 53-66 (91)
30 KOG1398 Uncharacterized conser 30.6 41 0.00089 35.0 2.7 23 149-177 12-34 (460)
31 PF12773 DZR: Double zinc ribb 29.5 33 0.00071 24.4 1.4 23 136-158 28-50 (50)
32 KOG1315 Predicted DHHC-type Zn 27.5 3.9E+02 0.0085 27.0 9.1 32 150-181 108-139 (307)
33 KOG3183 Predicted Zn-finger pr 25.4 34 0.00073 33.2 1.1 16 157-172 34-49 (250)
34 PF07010 Endomucin: Endomucin; 24.8 1.2E+02 0.0027 29.3 4.7 17 76-92 207-223 (259)
35 PF01363 FYVE: FYVE zinc finge 24.4 23 0.0005 27.0 -0.2 25 138-162 10-36 (69)
36 cd01995 ExsB ExsB is a transcr 23.6 29 0.00063 31.0 0.2 23 139-164 142-164 (169)
37 PF07649 C1_3: C1-like domain; 22.9 31 0.00067 22.1 0.2 21 139-159 2-23 (30)
38 PRK15103 paraquat-inducible me 22.7 2.9E+02 0.0063 29.1 7.5 28 139-166 12-45 (419)
39 PRK13743 conjugal transfer pro 21.6 5.7E+02 0.012 22.6 7.8 22 180-201 38-59 (141)
40 KOG1277 Endosomal membrane pro 21.4 1.3E+02 0.0029 32.1 4.5 11 140-150 432-442 (593)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=1.2e-50 Score=401.70 Aligned_cols=272 Identities=37% Similarity=0.587 Sum_probs=216.6
Q ss_pred eeeecCCCEEEeCcEEEecCCCchhhhhhhhhhhheeeeeeheehhhhhccCCCchhhHHHHHHHHHHHHHHHHHHHhhc
Q 014643 6 YEVWKGSNKFIIGGRLIFGPDARSLLVTLLLIIVPVVIFCVFVARHLRHEFSPYNAGYAILVVAIVFTIYVLGLLFLTSA 85 (421)
Q Consensus 6 y~~~~g~n~f~~~Gr~i~Gpd~~~l~lt~~Li~~~~~lf~i~~~~~l~~~~~~~~~g~~i~~v~~l~~i~~l~~l~lt~~ 85 (421)
++.|+|++.+.+.|+.+.+|+...+++++++++++.. |+++..+.+.. ......+.++.++|.++.++.++.++.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~l~~----~~~~~~~~~~~~if~~~~~~~~~~~~~ 75 (299)
T KOG1311|consen 1 FADFLGNRIPRRGGRILDPPVALPVLVTYVLLVGSET-FFVFLPPLLPR----GGVSPAVLVLGAIFFLLNILNLMLACF 75 (299)
T ss_pred CCcCccccccCCCceeeccccchhHHHHHHHHhhheE-EEEEEeeecCC----cccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 4679999999999999999999999999999888776 66666665544 122345555666777777777766666
Q ss_pred c---CCCcCCCCCCCChhhhhhcccccccCCCCCCCCCCCCCcceEEecCcccceeeccccccccCCCCccccccccccc
Q 014643 86 R---DPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVE 162 (421)
Q Consensus 86 ~---DPGiiPr~~~~~~~e~~~~~~~~~~~~~~~~p~~~~p~~k~v~vng~~~~~k~C~tC~i~rP~Rs~HCs~C~~CV~ 162 (421)
+ |||++|++..+. .+ +. .+.++.+++.+||..++.|||.+|+.+||||||||++||+||+
T Consensus 76 ~~~sdpg~~p~~~~~~-----~~----------~~--~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~ 138 (299)
T KOG1311|consen 76 RMLSDPGIVPRADDEQ-----IE----------DP--ERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVL 138 (299)
T ss_pred cccCCCceecCcccCC-----CC----------Cc--cccccCCCcccCCcccceEEcCcCcccCCCCcccchhhccccc
Confidence 6 999999974110 00 00 1446678888999999999999999999999999999999999
Q ss_pred cccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhh--hhhccChHHHHHHHHHHHHHHHH
Q 014643 163 RFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVW--RAMKASPASVLLMAYCFISLWFV 240 (421)
Q Consensus 163 rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~--~~~~~~~~~iil~~~~~~~~~~v 240 (421)
||||||||+|||||+||||||++|++++++++++.++++.+++...........+ ........++++.++++++++++
T Consensus 139 rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 218 (299)
T KOG1311|consen 139 RFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFT 218 (299)
T ss_pred ccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999888876654443333333 22223344556667788888899
Q ss_pred HHHHHHHHHHHhcCcceEEEeee-ccCCCCCCCchhHHHHHHHhcCCCCCCCcccccccc
Q 014643 241 GGLTGFHLYLIGTNQTTYENFRY-RADNRLNVYDRGCVNNFLEVFCTKVKTSRNNFRAFV 299 (421)
Q Consensus 241 ~~L~~~hlylI~~N~TT~E~~k~-~~~~~~npy~~G~~~N~~evf~~~~~ps~~~f~~~~ 299 (421)
+.|+.||+++|.+|+||+|+++. +.+.+.++|++|.++|++++||.+.+++........
T Consensus 219 ~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~ 278 (299)
T KOG1311|consen 219 SALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARS 278 (299)
T ss_pred HHHHHhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCCCCcccccccccC
Confidence 99999999999999999999884 433446999999999999999999999888776544
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.2e-41 Score=334.42 Aligned_cols=226 Identities=30% Similarity=0.523 Sum_probs=156.4
Q ss_pred eeeheehhhhhccCCCchhhHHHHHHHHHHHHHHHHHHHhhccCCCcCCCCCCCChhhhhhcccccccCCCCCCCCCCCC
Q 014643 44 FCVFVARHLRHEFSPYNAGYAILVVAIVFTIYVLGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFP 123 (421)
Q Consensus 44 f~i~~~~~l~~~~~~~~~g~~i~~v~~l~~i~~l~~l~lt~~~DPGiiPr~~~~~~~e~~~~~~~~~~~~~~~~p~~~~p 123 (421)
+.++++................+++..++.++.+.+++.++++|||.+|..+.+..++.+.... + ...+
T Consensus 27 yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~------~-----~~~~ 95 (307)
T KOG1315|consen 27 YYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLEN------G-----SDNE 95 (307)
T ss_pred EEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccc------c-----Cccc
Confidence 3445554444444322233344444555666677788999999999999987764433221110 0 1111
Q ss_pred CcceEEecCcccceeeccccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHH
Q 014643 124 RTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSAL 203 (421)
Q Consensus 124 ~~k~v~vng~~~~~k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~ 203 (421)
+.+.+...+...+.|+|.+|+.+||+||||||+|++||+||||||||+|||||.+|||||++|++|+.+.++++++....
T Consensus 96 ~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~ 175 (307)
T KOG1315|consen 96 RDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLI 175 (307)
T ss_pred ccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444556677789999999999999999999999999999999999999999999999999999999999998776665
Q ss_pred HHHHHHhcc-c-chhhhhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceEEEeeecc----CCCCCCCchhHH
Q 014643 204 YIKILMEDH-H-GTVWRAMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRYRA----DNRLNVYDRGCV 277 (421)
Q Consensus 204 ~i~~~~~~~-~-~~~~~~~~~~~~~iil~~~~~~~~~~v~~L~~~hlylI~~N~TT~E~~k~~~----~~~~npy~~G~~ 277 (421)
.+....... . ...+. ...+++++..+.+.+.+++|+++|++||++|+||+|.++... ....|.|+. .
T Consensus 176 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~ 248 (307)
T KOG1315|consen 176 GFTKYFQGGAGPSSLLL-----FFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--Y 248 (307)
T ss_pred HHHHHHhccccCchhHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--e
Confidence 554433110 0 00010 112233333444455566799999999999999999887541 234566666 7
Q ss_pred HHHHHhcCCC
Q 014643 278 NNFLEVFCTK 287 (421)
Q Consensus 278 ~N~~evf~~~ 287 (421)
.|+.|+|++.
T Consensus 249 ~n~~~vfg~~ 258 (307)
T KOG1315|consen 249 VNFREVFGSN 258 (307)
T ss_pred ecHHHHhCCC
Confidence 8999999987
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=1.2e-38 Score=290.67 Aligned_cols=171 Identities=37% Similarity=0.724 Sum_probs=122.3
Q ss_pred HHHHhhccCCCcCCCCCCCChhhhhhcccccccCCCCCCCCCCCCCcceEEecCcccceeeccccccccCCCCccccccc
Q 014643 79 LLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICN 158 (421)
Q Consensus 79 ~l~lt~~~DPGiiPr~~~~~~~e~~~~~~~~~~~~~~~~p~~~~p~~k~v~vng~~~~~k~C~tC~i~rP~Rs~HCs~C~ 158 (421)
+++++..+|||++|+.... +++...+. + ......++...++...+.++|.+|+++||+|||||+.||
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 5678889999999987211 11100000 0 001111222234455678999999999999999999999
Q ss_pred cccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhhhccChHHHHHHHHHHHHHH
Q 014643 159 NCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVWRAMKASPASVLLMAYCFISLW 238 (421)
Q Consensus 159 ~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~iil~~~~~~~~~ 238 (421)
+||.||||||||+|||||++|||+|++|+++..+++++.+..++.++...........+... .....+++++++++.++
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 99999999999999999999999999999999999998887766655444332221111111 01112455666777778
Q ss_pred HHHHHHHHHHHHHhcCcceEEEeee
Q 014643 239 FVGGLTGFHLYLIGTNQTTYENFRY 263 (421)
Q Consensus 239 ~v~~L~~~hlylI~~N~TT~E~~k~ 263 (421)
+++.|+++|+++|++|+||+|.+|+
T Consensus 149 ~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 149 FVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 8999999999999999999998875
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.8e-35 Score=285.55 Aligned_cols=197 Identities=27% Similarity=0.459 Sum_probs=135.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhccCCCcCCCCCCCChhhhhhcccccccCCCCCCCCCCCCCcceEEecCcccceeec
Q 014643 61 AGYAILVVAIVFTIYVLGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYC 140 (421)
Q Consensus 61 ~g~~i~~v~~l~~i~~l~~l~lt~~~DPGiiPr~~~~~~~e~~~~~~~~~~~~~~~~p~~~~p~~k~v~vng~~~~~k~C 140 (421)
.|..-.+.+.+.+.+.++.|+.++++.||++|++++|..+... ...+||
T Consensus 46 ~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D~-------------------------------~~lqfC 94 (414)
T KOG1314|consen 46 LGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKDE-------------------------------MFLQFC 94 (414)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChhH-------------------------------HHHHHH
Confidence 3444445556667778889999999999999999987321110 124599
Q ss_pred cccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHH--HHHHHHHHH----HHhcccc
Q 014643 141 DTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVF--SMSALYIKI----LMEDHHG 214 (421)
Q Consensus 141 ~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~--~~~~~~i~~----~~~~~~~ 214 (421)
..|+-||+||||||+.|||||.+|||||||+|||||..||.||+.||++..+.|+-.. ..++.|-.+ ..+.+..
T Consensus 95 k~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~~g~~ 174 (414)
T KOG1314|consen 95 KKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIKYGLR 174 (414)
T ss_pred hhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhhcccc
Confidence 9999999999999999999999999999999999999999999999999888776531 112222111 1111111
Q ss_pred hhhhhhccChHHHHHHH----HHHHHHHHHHHHHHHHHHHHhcCcceEEEee---------ecc-C---CCCCCCchhHH
Q 014643 215 TVWRAMKASPASVLLMA----YCFISLWFVGGLTGFHLYLIGTNQTTYENFR---------YRA-D---NRLNVYDRGCV 277 (421)
Q Consensus 215 ~~~~~~~~~~~~iil~~----~~~~~~~~v~~L~~~hlylI~~N~TT~E~~k---------~~~-~---~~~npy~~G~~ 277 (421)
.+- ...-.+.+++.++ +.+..++.++.|+..|+..|.+|+|.+|.+- +.. + .-.-|||.|..
T Consensus 175 hlp-~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypydlgWr 253 (414)
T KOG1314|consen 175 HLP-IVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYDLGWR 253 (414)
T ss_pred cCc-eeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeecccccc
Confidence 110 0111122222222 2223345566888899999999999999752 110 1 12469999977
Q ss_pred HHHHHhcCCCCC
Q 014643 278 NNFLEVFCTKVK 289 (421)
Q Consensus 278 ~N~~evf~~~~~ 289 (421)
.|++++|.....
T Consensus 254 ~n~r~vf~~~~~ 265 (414)
T KOG1314|consen 254 INLREVFFQNKK 265 (414)
T ss_pred ccHHHHhhhccc
Confidence 799999976643
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=8.6e-33 Score=274.43 Aligned_cols=164 Identities=31% Similarity=0.606 Sum_probs=116.4
Q ss_pred HHHHHHHHHHhhccCCCcCCCCCCCChhhhhhcccccccCCCCCCCCCCCCCcceEEecCcccceeeccccccccCCCCc
Q 014643 73 TIYVLGLLFLTSARDPGIIPRNSHPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCS 152 (421)
Q Consensus 73 ~i~~l~~l~lt~~~DPGiiPr~~~~~~~e~~~~~~~~~~~~~~~~p~~~~p~~k~v~vng~~~~~k~C~tC~i~rP~Rs~ 152 (421)
......+++.....|||+.+++......+.. . + .....|...+.++|.||+.+||+|||
T Consensus 66 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~----~-----~------------~~~~~~~~~~~~~C~~C~~~KP~RS~ 124 (309)
T COG5273 66 LVLASFSYLLLLVSDPGYLGENITLSGYRET----I-----S------------RLLDDGKFGTENFCSTCNIYKPPRSH 124 (309)
T ss_pred hhhHHHhhHHHhhcCCCccCccccccchhhh----h-----h------------hhhhcCccccceeccccccccCCCCc
Confidence 3345566778888999999876432211100 0 0 00112333467899999999999999
Q ss_pred cccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-cchhhhhhccChHHHHH--
Q 014643 153 HCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDH-HGTVWRAMKASPASVLL-- 229 (421)
Q Consensus 153 HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~~~~-~~~~~~~~~~~~~~iil-- 229 (421)
||+.||+||+||||||||+|||||.+|||+|++|++++....++++..++.++....+.. ....+. ..++.
T Consensus 125 HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~li~~~ 198 (309)
T COG5273 125 HCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAI------CFLIFGC 198 (309)
T ss_pred cchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHH------HHHHHhh
Confidence 999999999999999999999999999999999999998888888877777665544322 111110 00111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCcceEEEeee
Q 014643 230 MAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY 263 (421)
Q Consensus 230 ~~~~~~~~~~v~~L~~~hlylI~~N~TT~E~~k~ 263 (421)
..+....++++..++.+|.+++..|+||+|..+.
T Consensus 199 ~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~ 232 (309)
T COG5273 199 SLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQI 232 (309)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 1223334566778999999999999999997643
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.98 E-value=5.5e-33 Score=263.21 Aligned_cols=152 Identities=31% Similarity=0.520 Sum_probs=113.6
Q ss_pred eeccccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hcc--
Q 014643 138 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILM---EDH-- 212 (421)
Q Consensus 138 k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~---~~~-- 212 (421)
.+|.+|+.+||||+||||+||+||++|||||||+|||||..||||||+|++|+++.+.|...++........ .+.
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 489999999999999999999999999999999999999999999999999999999997766543221111 100
Q ss_pred c-c---hhhh---------hhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceEEEeee-------ccCCCCCCC
Q 014643 213 H-G---TVWR---------AMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY-------RADNRLNVY 272 (421)
Q Consensus 213 ~-~---~~~~---------~~~~~~~~iil~~~~~~~~~~v~~L~~~hlylI~~N~TT~E~~k~-------~~~~~~npy 272 (421)
. . ..|. .+..+ ....+.++++..++.++.|+.+|.++|+.|.|.+|.... ..+.+.||+
T Consensus 183 y~~d~~h~~Pp~~i~r~~~~i~~t-~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~~ 261 (309)
T KOG1313|consen 183 YASDVAHVAPPPSILRVYKNITRT-SIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLRSNPT 261 (309)
T ss_pred ccCcccccCCChhhhhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhccCCCc
Confidence 0 0 0010 00000 011234445556678889999999999999999986533 234568999
Q ss_pred chhHHHHHHHhcCCCCCC
Q 014643 273 DRGCVNNFLEVFCTKVKT 290 (421)
Q Consensus 273 ~~G~~~N~~evf~~~~~p 290 (421)
+.|...||+.+++-..-|
T Consensus 262 n~g~k~nWr~fLg~~~~r 279 (309)
T KOG1313|consen 262 NFGGKANWRNFLGLFRGR 279 (309)
T ss_pred ccchHHHHHHhhccccCC
Confidence 999999999999765444
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=9.6e-32 Score=255.91 Aligned_cols=168 Identities=36% Similarity=0.661 Sum_probs=107.9
Q ss_pred HHHHHHHHHHHHhhccCCCcCCCCC-CCChhhhhhcccccccCCCCCCCCCCCCCcceEEecCcccceeeccccccccCC
Q 014643 71 VFTIYVLGLLFLTSARDPGIIPRNS-HPPEEEFRYESSMSLDVGGRQTPSLQFPRTKEVMVNGVPVRVKYCDTCMLYRPP 149 (421)
Q Consensus 71 l~~i~~l~~l~lt~~~DPGiiPr~~-~~~~~e~~~~~~~~~~~~~~~~p~~~~p~~k~v~vng~~~~~k~C~tC~i~rP~ 149 (421)
...+.-++++.+++.+|||++.... ..-.++++||..+ ++ +.+-|+||++.||+
T Consensus 106 l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~i-------------f~------------k~~kCSTCki~KPA 160 (341)
T KOG1312|consen 106 LLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVI-------------FP------------KNVKCSTCKIRKPA 160 (341)
T ss_pred HHHHHHHHHHhhhhcCCCCccchhhhccceeccCcccee-------------ec------------CCCccccccCCCcc
Confidence 3445567788899999999997532 1111233333221 11 22469999999999
Q ss_pred CCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-----chh-hhhhccC
Q 014643 150 RCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHH-----GTV-WRAMKAS 223 (421)
Q Consensus 150 Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~~~~~-----~~~-~~~~~~~ 223 (421)
||||||+||+||+||||||.|+|||||++|+|||++||++...++.|.+.-........+.+.. .++ |...+..
T Consensus 161 RSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ilt~~~g~~ks~ 240 (341)
T KOG1312|consen 161 RSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVYILTLGHGHVKST 240 (341)
T ss_pred ccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchheeeeeeeecchhhH
Confidence 9999999999999999999999999999999999999999988877765433221111111110 011 1111111
Q ss_pred hHHHHHHH---------HHHHH-HHHHHHHHHHHHHHHhcCcceEEEeee
Q 014643 224 PASVLLMA---------YCFIS-LWFVGGLTGFHLYLIGTNQTTYENFRY 263 (421)
Q Consensus 224 ~~~iil~~---------~~~~~-~~~v~~L~~~hlylI~~N~TT~E~~k~ 263 (421)
...+-.++ .++.. ..++++...|-+|+.++|+||.|+.+.
T Consensus 241 ~~L~~yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~ 290 (341)
T KOG1312|consen 241 VFLIQYLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRG 290 (341)
T ss_pred HHHHHHHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhcc
Confidence 11110011 11111 234667778889999999999998754
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.95 E-value=1.3e-28 Score=256.21 Aligned_cols=145 Identities=29% Similarity=0.647 Sum_probs=100.1
Q ss_pred eeccccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhh
Q 014643 138 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVW 217 (421)
Q Consensus 138 k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~ 217 (421)
+||.+|.+.||.|||||++|||||.||||||||++||||.+|||+|+.|++++...+.+++..+..|+....... ..|
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 699999999999999999999999999999999999999999999999999999988888877777765543321 111
Q ss_pred h----hhc----cChHHHHHHHHHHHHHHHHH-HHHHHHHHHHhcCcceEEEeeecc--------CCCCCCCchhHHHHH
Q 014643 218 R----AMK----ASPASVLLMAYCFISLWFVG-GLTGFHLYLIGTNQTTYENFRYRA--------DNRLNVYDRGCVNNF 280 (421)
Q Consensus 218 ~----~~~----~~~~~iil~~~~~~~~~~v~-~L~~~hlylI~~N~TT~E~~k~~~--------~~~~npy~~G~~~N~ 280 (421)
. ++. ..+....++...-+...+.. ...+.|...++.+.||+|.++.+. ....+|++.|..+|+
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 1 000 00000000000000000111 122234445788999999775322 234789999999999
Q ss_pred HHhc
Q 014643 281 LEVF 284 (421)
Q Consensus 281 ~evf 284 (421)
.+||
T Consensus 579 ~df~ 582 (600)
T KOG0509|consen 579 VDFF 582 (600)
T ss_pred hhee
Confidence 9998
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=93.32 E-value=0.23 Score=49.96 Aligned_cols=118 Identities=18% Similarity=0.215 Sum_probs=65.9
Q ss_pred ceeeccccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhcc--
Q 014643 136 RVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIK-ILMEDH-- 212 (421)
Q Consensus 136 ~~k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~i~-~~~~~~-- 212 (421)
+.++|++|+.=-...=|||..=|+||-+--| |=+-.|++++.+..+..++...+....+. ...+..
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 5668999998888889999999999998766 66778888876555444333222111111 000000
Q ss_pred -cchhhh--hhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceEEEeeec
Q 014643 213 -HGTVWR--AMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRYR 264 (421)
Q Consensus 213 -~~~~~~--~~~~~~~~iil~~~~~~~~~~v~~L~~~hlylI~~N~TT~E~~k~~ 264 (421)
...++. .+......+..+++.+....++..++....+.+.++.++-|.....
T Consensus 191 ~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~ 245 (309)
T COG5273 191 ICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLC 245 (309)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchh
Confidence 000110 0000011111222222233345567778888899999988866443
No 10
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=92.63 E-value=0.61 Score=46.37 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=35.4
Q ss_pred CccccccccccccccccCCCCCceeeccch-----------hHHHHHHHHHH
Q 014643 151 CSHCSICNNCVERFDHHCPWVGQCIGLRNY-----------RFFFMFVSSST 191 (421)
Q Consensus 151 s~HCs~C~~CV~rfDHHCpWv~nCIG~rNy-----------r~FllFl~~~~ 191 (421)
-++|..|+..+...-|||..-++||-..-| |-+-.|+.++.
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 799999999999999999999999998866 45668885554
No 11
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=92.18 E-value=0.53 Score=42.45 Aligned_cols=61 Identities=21% Similarity=0.406 Sum_probs=45.3
Q ss_pred cccceeeccccccccCCCCccccccccccccccccCCCCCceeeccchhHHHHHHHHHHHHHHHHHHHHHHH
Q 014643 133 VPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALY 204 (421)
Q Consensus 133 ~~~~~k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~FllFl~~~~l~~~~~~~~~~~~ 204 (421)
.+.+.++|..|+.--..+-|||..-|+||-+--| +-+=.|+++.....+..++.....+..
T Consensus 58 kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~~~ 118 (174)
T PF01529_consen 58 KPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFILSLYYLVR 118 (174)
T ss_pred CCCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456789999999999999999999999998776 566778877766555555544333333
No 12
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=78.74 E-value=1.1 Score=48.41 Aligned_cols=55 Identities=15% Similarity=-0.026 Sum_probs=46.6
Q ss_pred eeeccccccccCCCCccccccccccccccccCCCCCceeeccchhHH-HHHHHHHHH
Q 014643 137 VKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFF-FMFVSSSTL 192 (421)
Q Consensus 137 ~k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F-llFl~~~~l 192 (421)
...|.+|.+..+.+..+|..|-.|+..|++||+|+. ||+.+|-..| +.|++++.+
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~ 380 (600)
T KOG0509|consen 325 TCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLA 380 (600)
T ss_pred heeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHH
Confidence 347999999999999999999999999999999999 9999998644 445555443
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=71.74 E-value=2.2 Score=31.01 Aligned_cols=24 Identities=29% Similarity=0.634 Sum_probs=21.6
Q ss_pred ceeeccccccccCCCCcccccccc
Q 014643 136 RVKYCDTCMLYRPPRCSHCSICNN 159 (421)
Q Consensus 136 ~~k~C~tC~i~rP~Rs~HCs~C~~ 159 (421)
..+.|..|...-|+|+..|+.|+.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 356899999999999999999986
No 14
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=64.68 E-value=3.6 Score=25.17 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=17.4
Q ss_pred eccccccccCCCCcccccccc
Q 014643 139 YCDTCMLYRPPRCSHCSICNN 159 (421)
Q Consensus 139 ~C~tC~i~rP~Rs~HCs~C~~ 159 (421)
||..|...-++-++.|..||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 588888888888888888874
No 15
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=56.19 E-value=94 Score=32.72 Aligned_cols=31 Identities=16% Similarity=0.374 Sum_probs=22.7
Q ss_pred eeeccccccccCCCCcccccccccccccccc
Q 014643 137 VKYCDTCMLYRPPRCSHCSICNNCVERFDHH 167 (421)
Q Consensus 137 ~k~C~tC~i~rP~Rs~HCs~C~~CV~rfDHH 167 (421)
..-|..|...-|....||..|+.-..+..++
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 4569999998777777888888766554443
No 16
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=53.68 E-value=6.9 Score=24.48 Aligned_cols=22 Identities=23% Similarity=0.674 Sum_probs=17.9
Q ss_pred eeccccccccCCCCcccccccc
Q 014643 138 KYCDTCMLYRPPRCSHCSICNN 159 (421)
Q Consensus 138 k~C~tC~i~rP~Rs~HCs~C~~ 159 (421)
++|..|...-++-++.|..||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 4788898877888888888874
No 17
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=49.38 E-value=8.4 Score=43.13 Aligned_cols=22 Identities=27% Similarity=0.582 Sum_probs=18.1
Q ss_pred eeccccccccC-------CCCcccccccc
Q 014643 138 KYCDTCMLYRP-------PRCSHCSICNN 159 (421)
Q Consensus 138 k~C~tC~i~rP-------~Rs~HCs~C~~ 159 (421)
+.|..|+..-. -|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 56999988774 39999999987
No 18
>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=48.23 E-value=1.5e+02 Score=31.05 Aligned_cols=31 Identities=16% Similarity=0.438 Sum_probs=20.4
Q ss_pred eeecccccc-ccCCCCcccccccccccccccc
Q 014643 137 VKYCDTCML-YRPPRCSHCSICNNCVERFDHH 167 (421)
Q Consensus 137 ~k~C~tC~i-~rP~Rs~HCs~C~~CV~rfDHH 167 (421)
..-|..|.. .+|....||..|+.-..+..++
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 446999998 4455556787777766554443
No 19
>PF12773 DZR: Double zinc ribbon
Probab=48.20 E-value=12 Score=26.64 Aligned_cols=34 Identities=24% Similarity=0.479 Sum_probs=24.2
Q ss_pred eeeccccccccC--C-CCccccccccccccccccCCC
Q 014643 137 VKYCDTCMLYRP--P-RCSHCSICNNCVERFDHHCPW 170 (421)
Q Consensus 137 ~k~C~tC~i~rP--~-Rs~HCs~C~~CV~rfDHHCpW 170 (421)
.+||..|...-+ . ....|..|+.=+...+.+|+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 457888877666 2 356788888877777777764
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=48.15 E-value=8.9 Score=28.82 Aligned_cols=35 Identities=34% Similarity=0.962 Sum_probs=27.2
Q ss_pred ccccccccCCCC-------ccccccccccccc-cccCCCCCceeec
Q 014643 140 CDTCMLYRPPRC-------SHCSICNNCVERF-DHHCPWVGQCIGL 177 (421)
Q Consensus 140 C~tC~i~rP~Rs-------~HCs~C~~CV~rf-DHHCpWv~nCIG~ 177 (421)
|..|..--|+-| +-|-.|..|+... +++|| ||=|.
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 667766666643 5688999999998 99999 77665
No 21
>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=46.69 E-value=1.2e+02 Score=31.78 Aligned_cols=30 Identities=17% Similarity=0.392 Sum_probs=17.7
Q ss_pred eecccccccc--CC----CCcccccccccccccccc
Q 014643 138 KYCDTCMLYR--PP----RCSHCSICNNCVERFDHH 167 (421)
Q Consensus 138 k~C~tC~i~r--P~----Rs~HCs~C~~CV~rfDHH 167 (421)
.-|..|...- |+ ..-+|..||.-..|.+++
T Consensus 14 ~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 49 (403)
T TIGR00155 14 ILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDW 49 (403)
T ss_pred eeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCC
Confidence 3599997432 22 234577777766655554
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=45.61 E-value=13 Score=27.47 Aligned_cols=24 Identities=29% Similarity=0.820 Sum_probs=16.4
Q ss_pred eeeccccccccCCCCccccc--cccc
Q 014643 137 VKYCDTCMLYRPPRCSHCSI--CNNC 160 (421)
Q Consensus 137 ~k~C~tC~i~rP~Rs~HCs~--C~~C 160 (421)
...|..|...-|||+..|+. ||.+
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
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=45.01 E-value=4.9 Score=29.32 Aligned_cols=24 Identities=33% Similarity=0.830 Sum_probs=21.1
Q ss_pred eeeccccccccCCCCccccccccc
Q 014643 137 VKYCDTCMLYRPPRCSHCSICNNC 160 (421)
Q Consensus 137 ~k~C~tC~i~rP~Rs~HCs~C~~C 160 (421)
.+.|..|...-|+|+.-|+.|+.=
T Consensus 14 kkIC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 14 KKICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred HHHHHHhcCCCCcchhHHhhccCC
Confidence 468999999999999999988753
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=42.39 E-value=12 Score=24.08 Aligned_cols=21 Identities=29% Similarity=0.838 Sum_probs=16.3
Q ss_pred eccccccccCCCCcccccccc
Q 014643 139 YCDTCMLYRPPRCSHCSICNN 159 (421)
Q Consensus 139 ~C~tC~i~rP~Rs~HCs~C~~ 159 (421)
.|.+|...-+++..+|..|+.
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 25
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=38.12 E-value=1.3e+02 Score=26.51 Aligned_cols=17 Identities=29% Similarity=0.495 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHHHHH
Q 014643 181 RFFFMFVSSSTLLCIYV 197 (421)
Q Consensus 181 r~FllFl~~~~l~~~~~ 197 (421)
++.++++++++++++|+
T Consensus 22 ~~~~~~l~~~~~~~~y~ 38 (130)
T PF10864_consen 22 FWQWLFLFSLFLFFIYF 38 (130)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45566666666666554
No 26
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=33.85 E-value=2.1e+02 Score=23.62 Aligned_cols=25 Identities=24% Similarity=0.382 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHhcCcceEEEee
Q 014643 238 WFVGGLTGFHLYLIGTNQTTYENFR 262 (421)
Q Consensus 238 ~~v~~L~~~hlylI~~N~TT~E~~k 262 (421)
+.+.++++|..|-=|+..+++|.++
T Consensus 58 vl~lGilifs~y~~C~~~~~~~r~n 82 (91)
T PHA02680 58 VLLLGLFVFSMYRKCSGSMPYERLN 82 (91)
T ss_pred HHHHHHHHHHHhcccCCCceeeccc
Confidence 3455688888888788888887664
No 27
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=31.51 E-value=14 Score=38.93 Aligned_cols=26 Identities=27% Similarity=0.751 Sum_probs=19.6
Q ss_pred ceeecccccccc--CCCCcccccccccc
Q 014643 136 RVKYCDTCMLYR--PPRCSHCSICNNCV 161 (421)
Q Consensus 136 ~~k~C~tC~i~r--P~Rs~HCs~C~~CV 161 (421)
.+++|..|...= --|-|||+.||+-+
T Consensus 179 ~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 179 SVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred cccccccccchhhhHHHhhhhhhcchHH
Confidence 357999997543 33789999999854
No 28
>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=31.15 E-value=26 Score=22.13 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=16.9
Q ss_pred eeccccccccCCCCcccccccc
Q 014643 138 KYCDTCMLYRPPRCSHCSICNN 159 (421)
Q Consensus 138 k~C~tC~i~rP~Rs~HCs~C~~ 159 (421)
|.|..|...-|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4588888888888888877764
No 29
>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=30.78 E-value=25 Score=28.88 Aligned_cols=14 Identities=29% Similarity=0.800 Sum_probs=9.9
Q ss_pred cccccCCCCCceee
Q 014643 163 RFDHHCPWVGQCIG 176 (421)
Q Consensus 163 rfDHHCpWv~nCIG 176 (421)
.+-.||||++.-..
T Consensus 53 eHr~~CPwv~~~~q 66 (91)
T PF08600_consen 53 EHREYCPWVNPSTQ 66 (91)
T ss_pred cccccCCccCCccc
Confidence 34468999987653
No 30
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.57 E-value=41 Score=34.97 Aligned_cols=23 Identities=43% Similarity=0.947 Sum_probs=17.1
Q ss_pred CCCccccccccccccccccCCCCCceeec
Q 014643 149 PRCSHCSICNNCVERFDHHCPWVGQCIGL 177 (421)
Q Consensus 149 ~Rs~HCs~C~~CV~rfDHHCpWv~nCIG~ 177 (421)
.|..||-.|+. +|| +|+.||||.
T Consensus 12 ~~p~l~~tC~e----~~h--~w~~~c~ga 34 (460)
T KOG1398|consen 12 ARPSLAETCDE----ADH--SWVANCIGA 34 (460)
T ss_pred cCchHhhhhhh----ccC--CcccchhHH
Confidence 45566666664 677 799999997
No 31
>PF12773 DZR: Double zinc ribbon
Probab=29.46 E-value=33 Score=24.41 Aligned_cols=23 Identities=30% Similarity=0.772 Sum_probs=20.3
Q ss_pred ceeeccccccccCCCCccccccc
Q 014643 136 RVKYCDTCMLYRPPRCSHCSICN 158 (421)
Q Consensus 136 ~~k~C~tC~i~rP~Rs~HCs~C~ 158 (421)
..++|..|....++.+++|..|+
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 35689999999999999999886
No 32
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=27.45 E-value=3.9e+02 Score=27.04 Aligned_cols=32 Identities=19% Similarity=0.423 Sum_probs=29.0
Q ss_pred CCccccccccccccccccCCCCCceeeccchh
Q 014643 150 RCSHCSICNNCVERFDHHCPWVGQCIGLRNYR 181 (421)
Q Consensus 150 Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr 181 (421)
+.+.|..|+.-....-|||.--+.||.+.-|.
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHH 139 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHH 139 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccC
Confidence 67899999999999999999999999998664
No 33
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=25.37 E-value=34 Score=33.20 Aligned_cols=16 Identities=31% Similarity=0.439 Sum_probs=11.9
Q ss_pred cccccccccccCCCCC
Q 014643 157 CNNCVERFDHHCPWVG 172 (421)
Q Consensus 157 C~~CV~rfDHHCpWv~ 172 (421)
|-.=..+.+|||||..
T Consensus 34 C~eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 34 CLEHRSYESHHCPKGL 49 (250)
T ss_pred hhccchHhhcCCCccc
Confidence 3345678899999975
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=24.79 E-value=1.2e+02 Score=29.27 Aligned_cols=17 Identities=29% Similarity=0.483 Sum_probs=11.4
Q ss_pred HHHHHHHhhccCCCcCC
Q 014643 76 VLGLLFLTSARDPGIIP 92 (421)
Q Consensus 76 ~l~~l~lt~~~DPGiiP 92 (421)
++.+|.+|.-+|||+.-
T Consensus 207 LvgLyr~C~k~dPg~p~ 223 (259)
T PF07010_consen 207 LVGLYRMCWKTDPGTPE 223 (259)
T ss_pred HHHHHHHhhcCCCCCcc
Confidence 34455667789999543
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=24.42 E-value=23 Score=26.96 Aligned_cols=25 Identities=28% Similarity=0.426 Sum_probs=11.6
Q ss_pred eecccccccc--CCCCccccccccccc
Q 014643 138 KYCDTCMLYR--PPRCSHCSICNNCVE 162 (421)
Q Consensus 138 k~C~tC~i~r--P~Rs~HCs~C~~CV~ 162 (421)
+.|..|...= --|-|||+.||+.|=
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 4677775432 257899999998553
No 36
>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=23.55 E-value=29 Score=31.01 Aligned_cols=23 Identities=26% Similarity=0.550 Sum_probs=16.5
Q ss_pred eccccccccCCCCccccccccccccc
Q 014643 139 YCDTCMLYRPPRCSHCSICNNCVERF 164 (421)
Q Consensus 139 ~C~tC~i~rP~Rs~HCs~C~~CV~rf 164 (421)
...+|... ...||..|..|++|.
T Consensus 142 ~s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 142 LTWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred heeeccCC---CCCCCCCCHHHHHHH
Confidence 34556543 338999999999884
No 37
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=22.94 E-value=31 Score=22.08 Aligned_cols=21 Identities=29% Similarity=0.493 Sum_probs=8.5
Q ss_pred eccccccccCC-CCcccccccc
Q 014643 139 YCDTCMLYRPP-RCSHCSICNN 159 (421)
Q Consensus 139 ~C~tC~i~rP~-Rs~HCs~C~~ 159 (421)
.|..|...... ...+|..|+-
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 47777776666 6778888763
No 38
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=22.69 E-value=2.9e+02 Score=29.07 Aligned_cols=28 Identities=18% Similarity=0.456 Sum_probs=16.4
Q ss_pred ecccccccc--C----CCCccccccccccccccc
Q 014643 139 YCDTCMLYR--P----PRCSHCSICNNCVERFDH 166 (421)
Q Consensus 139 ~C~tC~i~r--P----~Rs~HCs~C~~CV~rfDH 166 (421)
-|..|...- | ...-+|..|+.-..+.++
T Consensus 12 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~ 45 (419)
T PRK15103 12 LCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWD 45 (419)
T ss_pred cCCCCCceeecCCCCCCCeeECCCCCCCCcCCCC
Confidence 499998642 2 234557777766544433
No 39
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=21.59 E-value=5.7e+02 Score=22.64 Aligned_cols=22 Identities=18% Similarity=0.125 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 014643 180 YRFFFMFVSSSTLLCIYVFSMS 201 (421)
Q Consensus 180 yr~FllFl~~~~l~~~~~~~~~ 201 (421)
-+||-+|+++++...+...++-
T Consensus 38 ~~Y~~LfiVFl~AG~vLw~vM~ 59 (141)
T PRK13743 38 DIYFDLFIVFLTAGIVLWVIMH 59 (141)
T ss_pred HHHHHHHHHHHHhhHHHHHHHH
Confidence 4799999988776665544443
No 40
>KOG1277 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.38 E-value=1.3e+02 Score=32.14 Aligned_cols=11 Identities=27% Similarity=0.323 Sum_probs=8.4
Q ss_pred ccccccccCCC
Q 014643 140 CDTCMLYRPPR 150 (421)
Q Consensus 140 C~tC~i~rP~R 150 (421)
|++|.+.||--
T Consensus 432 CR~~~~pR~Ip 442 (593)
T KOG1277|consen 432 CRTKAIPREIP 442 (593)
T ss_pred cccccCCCCCC
Confidence 89998887543
Done!