Query 005312
Match_columns 703
No_of_seqs 271 out of 1341
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 21:29:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005312.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005312hhsearch_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 3.6E-36 7.9E-41 314.2 11.5 137 144-288 105-241 (299)
2 PF01529 zf-DHHC: DHHC palmito 100.0 1.4E-31 3E-36 256.4 11.1 133 145-288 41-173 (174)
3 KOG1315 Predicted DHHC-type Zn 100.0 1.9E-30 4E-35 273.3 9.6 128 148-288 105-232 (307)
4 KOG1313 DHHC-type Zn-finger pr 99.9 4.8E-29 1E-33 255.4 4.8 158 129-292 81-249 (309)
5 KOG1314 DHHC-type Zn-finger pr 99.9 1.7E-29 3.7E-34 265.3 -0.6 162 123-290 62-228 (414)
6 COG5273 Uncharacterized protei 99.9 2.7E-27 5.9E-32 250.4 12.0 138 145-295 102-239 (309)
7 KOG1312 DHHC-type Zn-finger pr 99.9 5.8E-23 1.3E-27 211.9 5.3 59 153-211 149-207 (341)
8 KOG0509 Ankyrin repeat and DHH 99.8 4E-20 8.6E-25 206.8 5.0 65 153-217 421-485 (600)
9 PF01529 zf-DHHC: DHHC palmito 93.2 0.56 1.2E-05 45.3 9.3 58 150-218 60-117 (174)
10 COG5273 Uncharacterized protei 92.6 1.2 2.6E-05 48.4 11.7 127 150-291 121-247 (309)
11 KOG1311 DHHC-type Zn-finger pr 91.7 0.31 6.7E-06 51.9 5.9 37 1-40 1-37 (299)
12 KOG1315 Predicted DHHC-type Zn 75.2 52 0.0011 36.3 13.2 59 150-219 121-179 (307)
13 PRK04136 rpl40e 50S ribosomal 68.3 2.9 6.2E-05 34.1 1.3 25 150-174 12-36 (48)
14 PF13240 zinc_ribbon_2: zinc-r 67.8 2.8 6E-05 29.0 1.0 21 154-174 1-21 (23)
15 KOG0509 Ankyrin repeat and DHH 65.8 2.5 5.3E-05 49.7 0.7 57 151-208 324-381 (600)
16 PTZ00303 phosphatidylinositol 57.9 5.9 0.00013 47.9 2.0 23 152-174 460-489 (1374)
17 KOG1313 DHHC-type Zn-finger pr 55.3 23 0.0005 38.5 5.6 54 150-214 114-167 (309)
18 PRK15103 paraquat-inducible me 53.8 1.5E+02 0.0032 33.9 12.1 34 150-183 219-252 (419)
19 PF13248 zf-ribbon_3: zinc-rib 52.1 7.5 0.00016 27.4 1.0 22 153-174 3-24 (26)
20 PF12773 DZR: Double zinc ribb 50.7 13 0.00027 29.4 2.2 36 150-185 10-48 (50)
21 PF01363 FYVE: FYVE zinc finge 46.5 9.6 0.00021 31.9 1.0 28 150-177 7-36 (69)
22 TIGR00155 pqiA_fam integral me 46.2 2.3E+02 0.005 32.2 12.0 33 150-182 213-246 (403)
23 PF15232 DUF4585: Domain of un 45.9 19 0.00042 31.9 2.7 20 563-582 28-47 (75)
24 PF08693 SKG6: Transmembrane a 42.8 30 0.00066 27.3 3.1 27 8-34 8-35 (40)
25 PF01020 Ribosomal_L40e: Ribos 42.3 14 0.0003 30.7 1.2 26 150-175 15-42 (52)
26 PF08972 DUF1902: Domain of un 40.0 18 0.00038 30.4 1.5 15 566-580 4-18 (54)
27 KOG1842 FYVE finger-containing 39.6 8.8 0.00019 43.9 -0.3 27 150-176 178-206 (505)
28 PF10571 UPF0547: Uncharacteri 38.9 17 0.00037 26.0 1.1 21 154-174 2-22 (26)
29 KOG1314 DHHC-type Zn-finger pr 38.3 16 0.00035 40.9 1.4 45 150-205 103-147 (414)
30 KOG1312 DHHC-type Zn-finger pr 37.3 27 0.00059 38.2 2.9 53 151-214 161-213 (341)
31 COG1552 RPL40A Ribosomal prote 35.7 9.5 0.00021 31.3 -0.6 24 151-174 13-36 (50)
32 KOG4399 C2HC-type Zn-finger pr 35.1 9.6 0.00021 40.9 -0.9 31 148-178 200-230 (325)
33 PF09788 Tmemb_55A: Transmembr 32.9 89 0.0019 33.7 5.7 25 190-214 189-214 (256)
34 PF06906 DUF1272: Protein of u 31.7 18 0.00039 30.6 0.3 35 155-192 8-50 (57)
35 PHA02680 ORF090 IMV phosphoryl 31.4 1.5E+02 0.0031 27.4 6.0 37 247-286 45-81 (91)
36 PF12773 DZR: Double zinc ribb 31.1 33 0.00072 26.9 1.8 25 149-173 26-50 (50)
37 smart00064 FYVE Protein presen 29.3 39 0.00084 28.1 2.0 26 152-177 10-37 (68)
38 PF07062 Clc-like: Clc-like; 27.9 1.8E+02 0.004 30.4 7.0 9 173-181 65-73 (211)
39 PF05502 Dynactin_p62: Dynacti 26.9 42 0.0009 39.0 2.3 63 130-193 5-102 (483)
40 KOG1729 FYVE finger containing 24.4 19 0.0004 39.3 -1.0 14 161-174 162-176 (288)
41 KOG3183 Predicted Zn-finger pr 24.0 31 0.00067 36.8 0.6 12 176-187 38-49 (250)
42 PF08600 Rsm1: Rsm1-like; Int 23.4 39 0.00085 30.5 1.0 11 181-191 56-66 (91)
43 PF14015 DUF4231: Protein of u 22.3 5.5E+02 0.012 23.0 8.3 19 275-293 77-95 (112)
44 PRK13700 conjugal transfer pro 22.3 2.8E+02 0.006 34.3 7.9 11 190-200 14-24 (732)
45 COG4640 Predicted membrane pro 21.6 49 0.0011 37.7 1.5 41 152-192 1-42 (465)
46 PF09889 DUF2116: Uncharacteri 21.4 1E+02 0.0022 26.3 3.0 17 154-170 5-21 (59)
47 TIGR00155 pqiA_fam integral me 21.3 6.9E+02 0.015 28.5 10.5 33 151-183 12-50 (403)
48 PF11057 Cortexin: Cortexin of 20.6 56 0.0012 29.3 1.4 21 18-38 31-51 (81)
49 PRK15033 tricarballylate utili 20.1 3.6E+02 0.0077 30.9 7.8 16 166-185 66-81 (389)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.6e-36 Score=314.24 Aligned_cols=137 Identities=28% Similarity=0.467 Sum_probs=107.0
Q ss_pred hhcCCCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhheee
Q 005312 144 EQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRC 223 (703)
Q Consensus 144 ~~~~~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~vLi~~ 223 (703)
++.+...+++||.+|+.++|+|||||++||+||+||||||+|+|||||++|||||+.|+++..++.++.+++..+.+...
T Consensus 105 ~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~ 184 (299)
T KOG1311|consen 105 DVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQR 184 (299)
T ss_pred ccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455578999999999999999999999999999999999999999999999999999988888888776666654433
Q ss_pred eecCcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005312 224 FVNKKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 288 (703)
Q Consensus 224 fv~~~~~~~~i~~~Lg~~~s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i~a 288 (703)
........ . .........+.+++++++++++++++.|+++|+++|.+|+||+|++++
T Consensus 185 ~~~~~~~~-------~-~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~ 241 (299)
T KOG1311|consen 185 ADNLKVNL-------T-PVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKS 241 (299)
T ss_pred cccccccc-------c-ccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhc
Confidence 22221100 0 011122233445556788888888999999999999999999999876
No 2
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=99.97 E-value=1.4e-31 Score=256.44 Aligned_cols=133 Identities=28% Similarity=0.527 Sum_probs=101.9
Q ss_pred hcCCCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhheeee
Q 005312 145 QQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCF 224 (703)
Q Consensus 145 ~~~~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~vLi~~f 224 (703)
+.....+.+||.+|+.+||+|+|||+.||+||++|||||+|+|||||++|||+|++|+++..+++++.+...+..+....
T Consensus 41 ~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~ 120 (174)
T PF01529_consen 41 EDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYI 120 (174)
T ss_pred ccccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455789999999999999999999999999999999999999999999999999999988887777665555443322
Q ss_pred ecCcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005312 225 VNKKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 288 (703)
Q Consensus 225 v~~~~~~~~i~~~Lg~~~s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i~a 288 (703)
..... ..+ ........+++++++++++++++.|+++|+++|.+|+||+|.+++
T Consensus 121 ~~~~~----------~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 121 PSISF----------SSF-WIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred hcccc----------ccc-ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 21110 000 000001114455566777888999999999999999999999875
No 3
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=99.96 E-value=1.9e-30 Score=273.28 Aligned_cols=128 Identities=26% Similarity=0.506 Sum_probs=98.5
Q ss_pred CCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhheeeeecC
Q 005312 148 NGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNK 227 (703)
Q Consensus 148 ~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~vLi~~fv~~ 227 (703)
.....+||.+|+.+||+|||||++|+|||+||||||+|+|||||.+|||+|++|++|+.++.++.+...+..++..+ ..
T Consensus 105 ~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~-~~ 183 (307)
T KOG1315|consen 105 SDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYF-QG 183 (307)
T ss_pred CCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hc
Confidence 34678999999999999999999999999999999999999999999999999999999888665544443333222 10
Q ss_pred cchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005312 228 KSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 288 (703)
Q Consensus 228 ~~~~~~i~~~Lg~~~s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i~a 288 (703)
. ..........+++++++++.+++.+++|+++|++||.+|+||+|....
T Consensus 184 ~------------~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~ 232 (307)
T KOG1315|consen 184 G------------AGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKS 232 (307)
T ss_pred c------------ccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhcc
Confidence 0 000111122344455666677787888999999999999999998755
No 4
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.95 E-value=4.8e-29 Score=255.42 Aligned_cols=158 Identities=25% Similarity=0.408 Sum_probs=111.3
Q ss_pred eeeeccccccchhHHhhcCCCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHH
Q 005312 129 ALFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVW 208 (703)
Q Consensus 129 ~lfv~~dcr~~~~~~~~~~~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~ 208 (703)
..|.+-.|+...+ .-....+...+|.+|+.+|++|+|||+.|||||++|||||||+|||||..|||||++||+|..+.
T Consensus 81 vi~hy~ka~t~pP--vgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltla 158 (309)
T KOG1313|consen 81 VIFHYYKARTKPP--VGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLA 158 (309)
T ss_pred HHHhheeecccCC--cCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHH
Confidence 3444455666654 22334467889999999999999999999999999999999999999999999999999999888
Q ss_pred HHHHHHHHHhhheeeeecCcchhHHHHhhhcC--------CCCCch---hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 005312 209 LVIEAGVGIAVLVRCFVNKKSMETEIIDRLGD--------GFSRAP---FATVVAICTAVSMLACIPLGELFFFHMILIR 277 (703)
Q Consensus 209 lii~~~vgI~vLi~~fv~~~~~~~~i~~~Lg~--------~~s~~~---f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~ 277 (703)
+.+....+.+.++........ +....++ .+.+.. -..-++.+.+++..+.++++.|..||.++|.
T Consensus 159 t~~~~i~~~~~w~~~le~~~~----~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~ 234 (309)
T KOG1313|consen 159 TSYAAIMCVYTWIDHLEPIEE----ITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLIS 234 (309)
T ss_pred HHHHHHHHHHHHHHhcchHhh----cccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeee
Confidence 887665555544433222111 1111111 000000 0011233455666677889999999999999
Q ss_pred cCcchHHHHHHHhhh
Q 005312 278 KGITTYEYVVAMRAM 292 (703)
Q Consensus 278 rNiTTyE~i~a~R~~ 292 (703)
+|.|.+|+++.+++.
T Consensus 235 ~G~tsi~~~~~~~e~ 249 (309)
T KOG1313|consen 235 RGETSIEQLINIKER 249 (309)
T ss_pred hhhhhHHHHHHHHHh
Confidence 999999998876654
No 5
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.95 E-value=1.7e-29 Score=265.30 Aligned_cols=162 Identities=22% Similarity=0.356 Sum_probs=109.9
Q ss_pred ccceeeeeeeccccccchhHHhhcCCCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHH
Q 005312 123 NGRIFCALFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLM 202 (703)
Q Consensus 123 lg~llc~lfv~~dcr~~~~~~~~~~~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL 202 (703)
++.++.++++...-.+.....+.........||..|+.+|++|||||+.|||||.+|||||||+|||||..||.+|+.||
T Consensus 62 ~~ny~~A~~~gPG~vp~~wkPe~~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FL 141 (414)
T KOG1314|consen 62 LYNYFNAIFTGPGFVPLGWKPENPKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFL 141 (414)
T ss_pred HHHHHHHHhcCCCCCCCCCCCCCChhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHH
Confidence 45566677777666666665444444467889999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHHHHHHHHHHhhheeeeecCcchhHHHHhhhcCCC-----CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 005312 203 AISLVWLVIEAGVGIAVLVRCFVNKKSMETEIIDRLGDGF-----SRAPFATVVAICTAVSMLACIPLGELFFFHMILIR 277 (703)
Q Consensus 203 ~~slL~lii~~~vgI~vLi~~fv~~~~~~~~i~~~Lg~~~-----s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~ 277 (703)
+++.+.++-...+.+..++ +.+...+....|... ....-.+.+++.+.+++.+.+.+++||+.|+..|.
T Consensus 142 lf~ivG~ih~tiI~~~~~~------~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il 215 (414)
T KOG1314|consen 142 LFSIVGCIHGTIILVCAQY------RGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQIL 215 (414)
T ss_pred HHHHHhcccceeeehhHHH------HHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 8776543322111000000 011111111112111 11111233445555667777889999999999999
Q ss_pred cCcchHHHHHHHh
Q 005312 278 KGITTYEYVVAMR 290 (703)
Q Consensus 278 rNiTTyE~i~a~R 290 (703)
+|+|.+|.+...+
T Consensus 216 ~nrt~IE~wi~~K 228 (414)
T KOG1314|consen 216 NNRTGIESWIVEK 228 (414)
T ss_pred cCCcchHHHHHHH
Confidence 9999999987433
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.94 E-value=2.7e-27 Score=250.40 Aligned_cols=138 Identities=27% Similarity=0.524 Sum_probs=101.4
Q ss_pred hcCCCCCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhheeee
Q 005312 145 QQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCF 224 (703)
Q Consensus 145 ~~~~~d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~vLi~~f 224 (703)
........+||.+|+.+||+|||||+.||+||++|||||+|+|||||.+|||+|++|+++..+..++.+....+.+...+
T Consensus 102 ~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~ 181 (309)
T COG5273 102 DDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIF 181 (309)
T ss_pred hcCccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34556788999999999999999999999999999999999999999999999999999887666665554444433222
Q ss_pred ecCcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHHHhhhccC
Q 005312 225 VNKKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRAMSEA 295 (703)
Q Consensus 225 v~~~~~~~~i~~~Lg~~~s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i~a~R~~s~~ 295 (703)
....... ....+++..+..++.++++.+..++++|.+++..|.||+|.....|..+..
T Consensus 182 ~~~~~~~-------------~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~ 239 (309)
T COG5273 182 SIRHDTS-------------LAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTL 239 (309)
T ss_pred cccCChH-------------HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecc
Confidence 1111100 000112222334455556777788999999999999999998877765443
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.87 E-value=5.8e-23 Score=211.90 Aligned_cols=59 Identities=36% Similarity=0.839 Sum_probs=53.6
Q ss_pred cccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHH
Q 005312 153 LFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVI 211 (703)
Q Consensus 153 ~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii 211 (703)
.-|++|+++||+|||||+.||+||.+|||||.|+|||||.+|+|||++|+++....+.+
T Consensus 149 ~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~y 207 (341)
T KOG1312|consen 149 VKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATY 207 (341)
T ss_pred CccccccCCCccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHH
Confidence 45999999999999999999999999999999999999999999999998876444444
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.79 E-value=4e-20 Score=206.80 Aligned_cols=65 Identities=38% Similarity=0.787 Sum_probs=56.5
Q ss_pred cccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 005312 153 LFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGI 217 (703)
Q Consensus 153 ~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI 217 (703)
+||.+|-+.||.|||||++|||||.+|||||||++||||.+|+++|+.|++.....+.+.+....
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~ 485 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCL 485 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999988765554444433333
No 9
>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=93.22 E-value=0.56 Score=45.28 Aligned_cols=58 Identities=21% Similarity=0.514 Sum_probs=43.6
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHh
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIA 218 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~ 218 (703)
...+.|..|+.-+..+-|||..-+.||-+.-| +-|-.|++++...+++.++.....+.
T Consensus 60 ~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~~ 117 (174)
T PF01529_consen 60 PRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFILSLYYLV 117 (174)
T ss_pred CcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999998766 45667777666555555554443343
No 10
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=92.56 E-value=1.2 Score=48.41 Aligned_cols=127 Identities=17% Similarity=0.246 Sum_probs=75.8
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhheeeeecCcc
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNKKS 229 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~vLi~~fv~~~~ 229 (703)
+..+.|..|+.=....=|||..=|+||-+.-| +=+-.|++++....+..++.+...+..+...-.....
T Consensus 121 ~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 189 (309)
T COG5273 121 PRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSL 189 (309)
T ss_pred CCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHH
Confidence 67889999999999999999999999987654 5677888877666555555555445444322211111
Q ss_pred hhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHHHhh
Q 005312 230 METEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRA 291 (703)
Q Consensus 230 ~~~~i~~~Lg~~~s~~~f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i~a~R~ 291 (703)
....+... ...+ .....+.+..++......++..+.....+.+.++.++-|...-.|.
T Consensus 190 ~~~~li~~-~~~~---~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~ 247 (309)
T COG5273 190 AICFLIFG-CSLL---GVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRE 247 (309)
T ss_pred HHHHHHHh-hhHH---HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhcc
Confidence 11111111 0000 0001111122222233345566778889999999999998665554
No 11
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=91.73 E-value=0.31 Score=51.90 Aligned_cols=37 Identities=19% Similarity=-0.020 Sum_probs=35.4
Q ss_pred CCccccccccceEEEEEecchhHHHHHHHHhhhheeccCC
Q 005312 1 MFSFLHKETWPSFIIPCIVGVALQALLVFILYVRCTAINP 40 (703)
Q Consensus 1 ~~pflg~~~~~~~~i~~ysp~~~la~~V~~lYirCta~dP 40 (703)
+++++|+++..+....++.| .+++++++|+.|+++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~ 37 (299)
T KOG1311|consen 1 FADFLGNRIPRRGGRILDPP---VALPVLVTYVLLVGSET 37 (299)
T ss_pred CCcCccccccCCCceeeccc---cchhHHHHHHHHhhheE
Confidence 57899999999999999999 99999999999999988
No 12
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=75.23 E-value=52 Score=36.26 Aligned_cols=59 Identities=22% Similarity=0.509 Sum_probs=42.3
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAV 219 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~vgI~v 219 (703)
+..+-|+.|+.=.-+.=|||..=++||.-.++ +=+-.|+.|.+...++.++.....+..
T Consensus 121 dRaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~~~~lv~~~~~~~~ 179 (307)
T KOG1315|consen 121 DRAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYSIYVLVTTLIGFTK 179 (307)
T ss_pred CccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788999999899999999999999985443 556777776665555544444444433
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=68.26 E-value=2.9 Score=34.07 Aligned_cols=25 Identities=28% Similarity=0.570 Sum_probs=22.3
Q ss_pred CCccccccccccccCCCccCccCCc
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDK 174 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnr 174 (703)
-...+|..|.+.-|+|+..|+.|+.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 3567899999999999999998885
No 14
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=67.79 E-value=2.8 Score=29.02 Aligned_cols=21 Identities=33% Similarity=0.915 Sum_probs=18.9
Q ss_pred ccccccccccCCCccCccCCc
Q 005312 154 FCTLCNAEVRRFSKHCRSCDK 174 (703)
Q Consensus 154 yC~~C~i~KP~RShHCrvCnr 174 (703)
||..|....++.++.|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 699999999999999999985
No 15
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=65.82 E-value=2.5 Score=49.73 Aligned_cols=57 Identities=11% Similarity=0.014 Sum_probs=46.7
Q ss_pred CccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHH-HHHHHHHHHH
Q 005312 151 DALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTF-ISLMAISLVW 208 (703)
Q Consensus 151 ~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyF-IlFL~~slL~ 208 (703)
-...|..|....+.+..+|..|-.|+..|++||.|+. ||+.+|...| +.|+++.+++
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~~ 381 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLAY 381 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHHH
Confidence 3456999999999999999999999999999999999 9999996654 4444444433
No 16
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=57.94 E-value=5.9 Score=47.90 Aligned_cols=23 Identities=30% Similarity=0.652 Sum_probs=19.1
Q ss_pred cccccccccccc-------CCCccCccCCc
Q 005312 152 ALFCTLCNAEVR-------RFSKHCRSCDK 174 (703)
Q Consensus 152 ~~yC~~C~i~KP-------~RShHCrvCnr 174 (703)
...|..|+..-. .|-||||.|++
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCcc
Confidence 467999998774 39999999988
No 17
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=55.28 E-value=23 Score=38.46 Aligned_cols=54 Identities=20% Similarity=0.557 Sum_probs=43.4
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAG 214 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~ 214 (703)
...+-|+.|+.=+-.=-|||..=|.||--..| +-+-.|+.++..+..++.++..
T Consensus 114 prTHHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryFFlFl~~ltlat~~~~i~~~ 167 (309)
T KOG1313|consen 114 PRTHHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYFFLFLFYLTLATSYAAIMCV 167 (309)
T ss_pred CCcchhhHHhhHhhccccCCchhhcccccccc-----------hhHHHHHHHHHHHHHHHHHHHH
Confidence 45667999998888889999999999997766 4567788888887777777644
No 18
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=53.80 E-value=1.5e+02 Score=33.91 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=25.1
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccc
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHC 183 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHC 183 (703)
+...-|..|+...+....||..|+.-..+..++.
T Consensus 219 ~~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 219 QGLRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred cCCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 3456699999987777778888888776655543
No 19
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=52.12 E-value=7.5 Score=27.36 Aligned_cols=22 Identities=36% Similarity=0.917 Sum_probs=18.8
Q ss_pred cccccccccccCCCccCccCCc
Q 005312 153 LFCTLCNAEVRRFSKHCRSCDK 174 (703)
Q Consensus 153 ~yC~~C~i~KP~RShHCrvCnr 174 (703)
++|..|....++.++.|..|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5799999988889999998874
No 20
>PF12773 DZR: Double zinc ribbon
Probab=50.70 E-value=13 Score=29.36 Aligned_cols=36 Identities=28% Similarity=0.541 Sum_probs=24.1
Q ss_pred CCcccccccccccc---CCCccCccCCceeeCCCccccc
Q 005312 150 DDALFCTLCNAEVR---RFSKHCRSCDKCVDGFDHHCRW 185 (703)
Q Consensus 150 d~~~yC~~C~i~KP---~RShHCrvCnrCVlrfDHHCPW 185 (703)
++.+||..|....+ .....|..|+.=+...+.+|++
T Consensus 10 ~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 10 DDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 45677777777666 3356677777776666666664
No 21
>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=46.47 E-value=9.6 Score=31.87 Aligned_cols=28 Identities=32% Similarity=0.752 Sum_probs=14.0
Q ss_pred CCccccccccccc--cCCCccCccCCceee
Q 005312 150 DDALFCTLCNAEV--RRFSKHCRSCDKCVD 177 (703)
Q Consensus 150 d~~~yC~~C~i~K--P~RShHCrvCnrCVl 177 (703)
.+...|..|+..= -.|-|||+.||+.|=
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 3556788887643 468999999999654
No 22
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=46.18 E-value=2.3e+02 Score=32.25 Aligned_cols=33 Identities=12% Similarity=0.244 Sum_probs=21.8
Q ss_pred CCcccccccccc-ccCCCccCccCCceeeCCCcc
Q 005312 150 DDALFCTLCNAE-VRRFSKHCRSCDKCVDGFDHH 182 (703)
Q Consensus 150 d~~~yC~~C~i~-KP~RShHCrvCnrCVlrfDHH 182 (703)
+...-|..|+.. .+....||..|+.-..+..++
T Consensus 213 ~~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 213 LKLRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred cCCCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 345569999984 444456788887777665554
No 23
>PF15232 DUF4585: Domain of unknown function (DUF4585)
Probab=45.95 E-value=19 Score=31.94 Aligned_cols=20 Identities=40% Similarity=0.730 Sum_probs=16.8
Q ss_pred cccceeeccCCCceeeeccc
Q 005312 563 KRTSVVWDQEAGRYVSVPIS 582 (703)
Q Consensus 563 ~r~sv~wd~~agr~vs~~~~ 582 (703)
-|+...+|+|+|.||-|+.+
T Consensus 28 p~~k~lfDPETGqYVeV~iP 47 (75)
T PF15232_consen 28 PKTKTLFDPETGQYVEVLIP 47 (75)
T ss_pred cceeeeecCCCCcEEEEeCC
Confidence 35778999999999999764
No 24
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=42.83 E-value=30 Score=27.34 Aligned_cols=27 Identities=11% Similarity=0.234 Sum_probs=19.7
Q ss_pred cccceEEEEEecchhHHHHHH-HHhhhh
Q 005312 8 ETWPSFIIPCIVGVALQALLV-FILYVR 34 (703)
Q Consensus 8 ~~~~~~~i~~ysp~~~la~~V-~~lYir 34 (703)
+...-++.|+-.|++++++++ ++||+|
T Consensus 8 ~~~vaIa~~VvVPV~vI~~vl~~~l~~~ 35 (40)
T PF08693_consen 8 SNTVAIAVGVVVPVGVIIIVLGAFLFFW 35 (40)
T ss_pred CceEEEEEEEEechHHHHHHHHHHhheE
Confidence 445668899999988877766 666654
No 25
>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=42.32 E-value=14 Score=30.72 Aligned_cols=26 Identities=27% Similarity=0.703 Sum_probs=17.7
Q ss_pred CCccccccccccccCCCccCcc--CCce
Q 005312 150 DDALFCTLCNAEVRRFSKHCRS--CDKC 175 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrv--CnrC 175 (703)
-+...|..|...-|+++..|+. ||.+
T Consensus 15 ~~k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 15 CDKMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp TS-EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ccceecccccCcCCCCccceecccCCCC
Confidence 4567899999999999999998 8765
No 26
>PF08972 DUF1902: Domain of unknown function (DUF1902); InterPro: IPR015066 Members of these prokaryotic proteins adopt a fold consisting of one alpha-helix and four beta-strands. Their function has not, as yet, been elucidated []. ; PDB: 1WV8_A.
Probab=40.04 E-value=18 Score=30.36 Aligned_cols=15 Identities=40% Similarity=0.893 Sum_probs=12.6
Q ss_pred ceeeccCCCceeeec
Q 005312 566 SVVWDQEAGRYVSVP 580 (703)
Q Consensus 566 sv~wd~~agr~vs~~ 580 (703)
..+||+|||-||+-.
T Consensus 4 ~a~wD~EA~VWvA~s 18 (54)
T PF08972_consen 4 RAFWDEEAGVWVATS 18 (54)
T ss_dssp EEEEETTTTEEEEE-
T ss_pred EEEEcCCCCEEEEec
Confidence 478999999999875
No 27
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=39.63 E-value=8.8 Score=43.86 Aligned_cols=27 Identities=30% Similarity=0.792 Sum_probs=21.1
Q ss_pred CCccccccccccc--cCCCccCccCCcee
Q 005312 150 DDALFCTLCNAEV--RRFSKHCRSCDKCV 176 (703)
Q Consensus 150 d~~~yC~~C~i~K--P~RShHCrvCnrCV 176 (703)
....+|..|.-.= ..|-|||+.||+-+
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHH
Confidence 4577999997643 45899999999853
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=38.90 E-value=17 Score=25.99 Aligned_cols=21 Identities=38% Similarity=0.773 Sum_probs=18.8
Q ss_pred ccccccccccCCCccCccCCc
Q 005312 154 FCTLCNAEVRRFSKHCRSCDK 174 (703)
Q Consensus 154 yC~~C~i~KP~RShHCrvCnr 174 (703)
.|..|...+|.-++-|..||.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCC
Confidence 599999999999999998874
No 29
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=38.25 E-value=16 Score=40.85 Aligned_cols=45 Identities=22% Similarity=0.549 Sum_probs=36.0
Q ss_pred CCccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHH
Q 005312 150 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAIS 205 (703)
Q Consensus 150 d~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~s 205 (703)
...+-|.+|+.=+-.=-|||..-|.||--..| .-+-+|++|.+..
T Consensus 103 pRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh-----------~~F~~FLlf~ivG 147 (414)
T KOG1314|consen 103 PRSHHCRKCNRCVMKMDHHCPWINNCVGWANH-----------AYFLRFLLFSIVG 147 (414)
T ss_pred CccccchHHHHHHHhhccCCcchhhccccccc-----------HHHHHHHHHHHHh
Confidence 45677999999999999999999999975544 3467888877763
No 30
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=37.33 E-value=27 Score=38.21 Aligned_cols=53 Identities=21% Similarity=0.632 Sum_probs=41.3
Q ss_pred CccccccccccccCCCccCccCCceeeCCCccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 005312 151 DALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAG 214 (703)
Q Consensus 151 ~~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCPWLnNCIG~rNYRyFIlFL~~slL~lii~~~ 214 (703)
..+-|+.||.=+-..-|||-.-|.||-... .+=+-.|++-.+.++++.++.++
T Consensus 161 RSKHCsiCNrCV~rfDHHCiWiNNCIG~~N-----------~ryF~lFLL~~i~l~~yaivrlg 213 (341)
T KOG1312|consen 161 RSKHCSICNRCVHRFDHHCIWINNCIGAWN-----------IRYFLLFLLTLISLATYAIVRLG 213 (341)
T ss_pred ccccchHHHHHHHHhccceEeeecccccch-----------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 456699999989899999999999998732 36677888777777777666544
No 31
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=35.70 E-value=9.5 Score=31.33 Aligned_cols=24 Identities=25% Similarity=0.599 Sum_probs=21.1
Q ss_pred CccccccccccccCCCccCccCCc
Q 005312 151 DALFCTLCNAEVRRFSKHCRSCDK 174 (703)
Q Consensus 151 ~~~yC~~C~i~KP~RShHCrvCnr 174 (703)
....|..|++.-|+++..|+.|+.
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 456799999999999999998865
No 32
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=35.09 E-value=9.6 Score=40.94 Aligned_cols=31 Identities=26% Similarity=0.716 Sum_probs=26.6
Q ss_pred CCCCccccccccccccCCCccCccCCceeeC
Q 005312 148 NGDDALFCTLCNAEVRRFSKHCRSCDKCVDG 178 (703)
Q Consensus 148 ~~d~~~yC~~C~i~KP~RShHCrvCnrCVlr 178 (703)
.++..+||..|.+++...-.||..|+.|..+
T Consensus 200 ~EE~~~~~~~~~~Yv~~~~~H~~~~~S~~~~ 230 (325)
T KOG4399|consen 200 TEEGYRFCSPCQRYVSLENQHCEHCNSCTSK 230 (325)
T ss_pred cccceEEEeehHHHHHHHhhhchhhcccccc
Confidence 3467889999999999999999999988654
No 33
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=32.88 E-value=89 Score=33.69 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=14.7
Q ss_pred ccc-chHHHHHHHHHHHHHHHHHHHH
Q 005312 190 VGH-KNYVTFISLMAISLVWLVIEAG 214 (703)
Q Consensus 190 IG~-rNYRyFIlFL~~slL~lii~~~ 214 (703)
||. ...+..++|++++++++++.++
T Consensus 189 VG~~faRkR~i~f~llgllfliiaig 214 (256)
T PF09788_consen 189 VGPRFARKRAIIFFLLGLLFLIIAIG 214 (256)
T ss_pred ccchHhhhHHHHHHHHHHHHHHHHHH
Confidence 674 4556666666666666555443
No 34
>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=31.69 E-value=18 Score=30.58 Aligned_cols=35 Identities=29% Similarity=0.801 Sum_probs=26.4
Q ss_pred cccccccccCCC-------ccCccCCceeeCC-Ccccccccccccc
Q 005312 155 CTLCNAEVRRFS-------KHCRSCDKCVDGF-DHHCRWLNNCVGH 192 (703)
Q Consensus 155 C~~C~i~KP~RS-------hHCrvCnrCVlrf-DHHCPWLnNCIG~ 192 (703)
|..|+...|+-+ +-|-.|..|+..+ +++|| ||=|.
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 666666665544 6788999999998 99998 67664
No 35
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=31.43 E-value=1.5e+02 Score=27.40 Aligned_cols=37 Identities=27% Similarity=0.403 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHH
Q 005312 247 FATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYV 286 (703)
Q Consensus 247 f~iVv~L~~lLsll~~I~Lg~Lf~fHlyLI~rNiTTyE~i 286 (703)
+..+..++++++++ .+.++++|-+|--+++.+++|++
T Consensus 45 wRalSii~FIlG~v---l~lGilifs~y~~C~~~~~~~r~ 81 (91)
T PHA02680 45 WRALSVTCFIVGAV---LLLGLFVFSMYRKCSGSMPYERL 81 (91)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHhcccCCCceeecc
Confidence 44455566666653 34447788888777777777654
No 36
>PF12773 DZR: Double zinc ribbon
Probab=31.15 E-value=33 Score=26.95 Aligned_cols=25 Identities=28% Similarity=0.623 Sum_probs=22.2
Q ss_pred CCCccccccccccccCCCccCccCC
Q 005312 149 GDDALFCTLCNAEVRRFSKHCRSCD 173 (703)
Q Consensus 149 ~d~~~yC~~C~i~KP~RShHCrvCn 173 (703)
.....+|..|....++.++.|..|+
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 3567899999999999999999986
No 37
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF07062 Clc-like: Clc-like; InterPro: IPR010761 Clc proteins are a nine-member gene family of chloride channels that have diverse roles in the plasma membrane and in intracellular organelles, especially membrane excitability and the maintenance of osmotic balance [, ]. This family contains a number of Clc-like proteins that are approximately 250 residues long and their homologues. ; GO: 0016021 integral to membrane
Probab=27.94 E-value=1.8e+02 Score=30.41 Aligned_cols=9 Identities=33% Similarity=0.508 Sum_probs=6.2
Q ss_pred CceeeCCCc
Q 005312 173 DKCVDGFDH 181 (703)
Q Consensus 173 nrCVlrfDH 181 (703)
..|+.|||+
T Consensus 65 ~~C~ykFd~ 73 (211)
T PF07062_consen 65 LHCTYKFDY 73 (211)
T ss_pred ceEEEEcCc
Confidence 457788874
No 39
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=26.90 E-value=42 Score=39.00 Aligned_cols=63 Identities=29% Similarity=0.594 Sum_probs=39.3
Q ss_pred eeeccccccchhHHhhcCCCCCccccccccccccC--------CCc-cCccCCceeeC-----CCc--------------
Q 005312 130 LFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRR--------FSK-HCRSCDKCVDG-----FDH-------------- 181 (703)
Q Consensus 130 lfv~~dcr~~~~~~~~~~~~d~~~yC~~C~i~KP~--------RSh-HCrvCnrCVlr-----fDH-------------- 181 (703)
+|++++|....-. ..-..+-+..||..|....|. |+. +|-.|-.|..- -|+
T Consensus 5 L~fC~~C~~irc~-~c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~~~~~~~~~~~~~~~~~~ 83 (483)
T PF05502_consen 5 LYFCEHCHKIRCP-RCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRASDTPPSPPDPSSDSGGK 83 (483)
T ss_pred ceecccccccCCh-hhcccccceeECccccccCChhhheeccceeccccccCCCCCCcceeEecccccccccccccCCCC
Confidence 3444455433321 122334568899999887773 664 88888888532 233
Q ss_pred -------cccccccccccc
Q 005312 182 -------HCRWLNNCVGHK 193 (703)
Q Consensus 182 -------HCPWLnNCIG~r 193 (703)
||.|--..||..
T Consensus 84 ~~~l~C~~C~Wss~~igi~ 102 (483)
T PF05502_consen 84 PYYLSCSYCRWSSRDIGIK 102 (483)
T ss_pred CEEEECCCceeeccccCcc
Confidence 788888888875
No 40
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=24.43 E-value=19 Score=39.26 Aligned_cols=14 Identities=14% Similarity=0.278 Sum_probs=6.7
Q ss_pred cccC-CCccCccCCc
Q 005312 161 EVRR-FSKHCRSCDK 174 (703)
Q Consensus 161 ~KP~-RShHCrvCnr 174 (703)
|.|+ .+-||.+|++
T Consensus 162 W~PD~ea~~C~~C~~ 176 (288)
T KOG1729|consen 162 WLPDSEATECMVCGC 176 (288)
T ss_pred ccCcccceecccCCC
Confidence 4444 4445555544
No 41
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=24.04 E-value=31 Score=36.77 Aligned_cols=12 Identities=25% Similarity=0.080 Sum_probs=9.4
Q ss_pred eeCCCccccccc
Q 005312 176 VDGFDHHCRWLN 187 (703)
Q Consensus 176 VlrfDHHCPWLn 187 (703)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 456689999985
No 42
>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=23.35 E-value=39 Score=30.53 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=8.6
Q ss_pred ccccccccccc
Q 005312 181 HHCRWLNNCVG 191 (703)
Q Consensus 181 HHCPWLnNCIG 191 (703)
.||||++.-..
T Consensus 56 ~~CPwv~~~~q 66 (91)
T PF08600_consen 56 EYCPWVNPSTQ 66 (91)
T ss_pred ccCCccCCccc
Confidence 58999997653
No 43
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=22.31 E-value=5.5e+02 Score=22.98 Aligned_cols=19 Identities=11% Similarity=-0.172 Sum_probs=13.6
Q ss_pred HHhcCcchHHHHHHHhhhc
Q 005312 275 LIRKGITTYEYVVAMRAMS 293 (703)
Q Consensus 275 LI~rNiTTyE~i~a~R~~s 293 (703)
...++++|-|.++..+..-
T Consensus 77 ~W~~~r~tae~lk~e~~~~ 95 (112)
T PF14015_consen 77 RWIRYRATAESLKREKWLY 95 (112)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3467888999988766543
No 44
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=22.26 E-value=2.8e+02 Score=34.28 Aligned_cols=11 Identities=9% Similarity=0.135 Sum_probs=7.7
Q ss_pred cccchHHHHHH
Q 005312 190 VGHKNYVTFIS 200 (703)
Q Consensus 190 IG~rNYRyFIl 200 (703)
|-.+|.|.|..
T Consensus 14 i~~h~~rMf~q 24 (732)
T PRK13700 14 IASMRIRMFSQ 24 (732)
T ss_pred HHHHHHHHHHH
Confidence 55677887765
No 45
>COG4640 Predicted membrane protein [Function unknown]
Probab=21.62 E-value=49 Score=37.73 Aligned_cols=41 Identities=15% Similarity=0.357 Sum_probs=29.4
Q ss_pred ccccccccccccCCCccCccCCceeeCCCcccc-cccccccc
Q 005312 152 ALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCR-WLNNCVGH 192 (703)
Q Consensus 152 ~~yC~~C~i~KP~RShHCrvCnrCVlrfDHHCP-WLnNCIG~ 192 (703)
++||..|...+-..+..|..||.=+..+--.-. -+++-+-.
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~t~~~sqan~~tn~i~~t 42 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKFTSRQSQANKSTNEIIQT 42 (465)
T ss_pred CCcccccccccccccccccccCCcCCchhhhhhHHHHHHHHh
Confidence 479999999999999999999987766544333 44444433
No 46
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=21.41 E-value=1e+02 Score=26.28 Aligned_cols=17 Identities=18% Similarity=0.639 Sum_probs=8.9
Q ss_pred ccccccccccCCCccCc
Q 005312 154 FCTLCNAEVRRFSKHCR 170 (703)
Q Consensus 154 yC~~C~i~KP~RShHCr 170 (703)
-|..|....|+--..|+
T Consensus 5 HC~~CG~~Ip~~~~fCS 21 (59)
T PF09889_consen 5 HCPVCGKPIPPDESFCS 21 (59)
T ss_pred cCCcCCCcCCcchhhhC
Confidence 35555555555555553
No 47
>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=21.33 E-value=6.9e+02 Score=28.50 Aligned_cols=33 Identities=15% Similarity=0.345 Sum_probs=20.7
Q ss_pred Cccccccccccc------cCCCccCccCCceeeCCCccc
Q 005312 151 DALFCTLCNAEV------RRFSKHCRSCDKCVDGFDHHC 183 (703)
Q Consensus 151 ~~~yC~~C~i~K------P~RShHCrvCnrCVlrfDHHC 183 (703)
+..-|..|+... +...-||..|+.-..+.+++.
T Consensus 12 ~~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~~ 50 (403)
T TIGR00155 12 KHILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDWS 50 (403)
T ss_pred CeeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCCC
Confidence 344599998644 223346888888776665543
No 48
>PF11057 Cortexin: Cortexin of kidney; InterPro: IPR020066 Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be important to neurons of both the developing and adult cerebral cortex. Cortexin has a conserved single membrane-spanning region in the middle of each sequence []. In humans, there is selective expression of Cortexin 3 (CTXN3) in the kidney as well as the brain []. This entry contains Cortexins 1, 2 and 3.; GO: 0031224 intrinsic to membrane
Probab=20.57 E-value=56 Score=29.26 Aligned_cols=21 Identities=38% Similarity=0.512 Sum_probs=17.4
Q ss_pred ecchhHHHHHHHHhhhheecc
Q 005312 18 IVGVALQALLVFILYVRCTAI 38 (703)
Q Consensus 18 ysp~~~la~~V~~lYirCta~ 38 (703)
|.+|++|.+...+|-|||+-|
T Consensus 31 faFV~~L~~fL~~liVRCfrI 51 (81)
T PF11057_consen 31 FAFVGLLCLFLGLLIVRCFRI 51 (81)
T ss_pred ehHHHHHHHHHHHHHHHHHHH
Confidence 456777888888999999987
No 49
>PRK15033 tricarballylate utilization protein B; Provisional
Probab=20.08 E-value=3.6e+02 Score=30.94 Aligned_cols=16 Identities=31% Similarity=1.244 Sum_probs=12.5
Q ss_pred CccCccCCceeeCCCccccc
Q 005312 166 SKHCRSCDKCVDGFDHHCRW 185 (703)
Q Consensus 166 ShHCrvCnrCVlrfDHHCPW 185 (703)
+..|..|+.|. |+||.
T Consensus 66 a~~C~~Cg~C~----~~CP~ 81 (389)
T PRK15033 66 ANLCHNCGACL----HACQY 81 (389)
T ss_pred HHhCcCccccc----ccCcC
Confidence 44788899994 68997
Done!