Query 005664
Match_columns 684
No_of_seqs 269 out of 1384
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 11:52:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005664.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005664hhsearch_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 5E-34 1.1E-38 296.8 8.4 134 128-269 108-241 (299)
2 PF01529 zf-DHHC: DHHC palmito 100.0 2.6E-32 5.6E-37 260.3 9.1 132 127-269 42-173 (174)
3 KOG1315 Predicted DHHC-type Zn 100.0 4.9E-30 1.1E-34 269.2 9.3 127 130-269 106-232 (307)
4 KOG1313 DHHC-type Zn-finger pr 100.0 5.9E-29 1.3E-33 254.1 6.3 166 106-273 77-249 (309)
5 KOG1314 DHHC-type Zn-finger pr 99.9 1.5E-29 3.2E-34 265.1 0.9 161 104-270 62-227 (414)
6 COG5273 Uncharacterized protei 99.9 1.9E-27 4.1E-32 250.7 11.6 137 127-276 103-239 (309)
7 KOG1312 DHHC-type Zn-finger pr 99.9 4.2E-24 9E-29 219.7 3.2 61 133-193 148-208 (341)
8 KOG0509 Ankyrin repeat and DHH 99.8 5.2E-20 1.1E-24 205.2 4.2 70 131-200 417-487 (600)
9 PF01529 zf-DHHC: DHHC palmito 93.8 0.45 9.9E-06 45.7 9.8 52 131-193 60-111 (174)
10 KOG1311 DHHC-type Zn-finger pr 93.2 0.21 4.5E-06 52.9 6.9 42 146-187 112-164 (299)
11 COG5273 Uncharacterized protei 90.7 1.3 2.8E-05 48.1 9.4 126 131-272 121-247 (309)
12 PRK04136 rpl40e 50S ribosomal 73.3 1.9 4.2E-05 35.0 1.4 25 131-155 12-36 (48)
13 KOG0509 Ankyrin repeat and DHH 70.4 1.9 4.2E-05 50.4 1.1 60 131-191 323-383 (600)
14 PF13240 zinc_ribbon_2: zinc-r 66.4 3.1 6.8E-05 28.7 1.1 21 135-155 1-21 (23)
15 PRK15103 paraquat-inducible me 59.2 91 0.002 35.5 11.5 34 131-164 219-252 (419)
16 KOG1314 DHHC-type Zn-finger pr 58.2 4.7 0.0001 44.7 1.2 44 131-185 103-146 (414)
17 PF13248 zf-ribbon_3: zinc-rib 52.1 7.7 0.00017 27.2 1.1 23 133-155 2-24 (26)
18 PF01020 Ribosomal_L40e: Ribos 51.6 8.2 0.00018 31.9 1.3 26 131-156 15-42 (52)
19 PTZ00303 phosphatidylinositol 51.1 9 0.00019 46.4 2.0 23 133-155 460-489 (1374)
20 TIGR00155 pqiA_fam integral me 51.1 1.5E+02 0.0032 33.7 11.4 33 131-163 213-246 (403)
21 PHA02680 ORF090 IMV phosphoryl 50.9 42 0.00092 30.6 5.7 39 226-267 43-81 (91)
22 KOG1315 Predicted DHHC-type Zn 49.6 78 0.0017 34.8 8.6 51 131-192 121-171 (307)
23 PF12773 DZR: Double zinc ribb 48.5 16 0.00036 28.6 2.5 36 131-166 10-48 (50)
24 PF15232 DUF4585: Domain of un 48.0 17 0.00037 32.2 2.7 20 544-563 28-47 (75)
25 PF08972 DUF1902: Domain of un 42.2 16 0.00034 30.6 1.6 15 547-561 4-18 (54)
26 COG1552 RPL40A Ribosomal prote 41.2 6.9 0.00015 32.0 -0.6 25 131-155 12-36 (50)
27 KOG1313 DHHC-type Zn-finger pr 39.8 51 0.0011 35.9 5.3 54 131-195 114-167 (309)
28 PF10571 UPF0547: Uncharacteri 37.2 19 0.00042 25.6 1.2 22 134-155 1-22 (26)
29 KOG1842 FYVE finger-containing 33.9 12 0.00025 42.8 -0.5 28 131-158 178-207 (505)
30 KOG3183 Predicted Zn-finger pr 32.6 18 0.00039 38.4 0.6 12 157-168 38-49 (250)
31 PF06906 DUF1272: Protein of u 31.3 21 0.00045 30.1 0.6 36 135-173 7-50 (57)
32 PF01363 FYVE: FYVE zinc finge 30.7 20 0.00044 29.8 0.5 28 131-158 7-36 (69)
33 PF12773 DZR: Double zinc ribb 30.3 35 0.00076 26.7 1.8 26 129-154 25-50 (50)
34 TIGR00155 pqiA_fam integral me 29.6 4.9E+02 0.011 29.6 11.2 33 131-163 11-49 (403)
35 PHA02898 virion envelope prote 29.5 1.4E+02 0.003 27.5 5.5 37 226-265 42-79 (92)
36 PRK15103 paraquat-inducible me 29.3 4.4E+02 0.0095 30.1 10.8 31 133-163 10-46 (419)
37 PF09788 Tmemb_55A: Transmembr 28.4 75 0.0016 34.1 4.3 25 171-195 189-214 (256)
38 KOG4399 C2HC-type Zn-finger pr 28.4 15 0.00033 39.4 -0.7 31 129-159 200-230 (325)
39 COG4640 Predicted membrane pro 27.6 28 0.0006 39.5 1.0 42 133-174 1-43 (465)
40 PF05502 Dynactin_p62: Dynacti 26.9 40 0.00086 39.0 2.2 63 111-174 5-102 (483)
41 PF09889 DUF2116: Uncharacteri 25.4 77 0.0017 26.9 3.0 18 134-151 4-21 (59)
42 TIGR02484 CitB CitB domain pro 24.1 1.9E+02 0.0042 32.7 6.7 16 147-166 47-62 (372)
43 COG0805 TatC Sec-independent p 23.3 5.1E+02 0.011 27.9 9.4 22 251-272 177-198 (255)
44 smart00064 FYVE Protein presen 22.8 61 0.0013 26.8 2.0 26 133-158 10-37 (68)
45 PF14015 DUF4231: Protein of u 21.9 4.5E+02 0.0097 23.5 7.6 18 256-273 77-94 (112)
46 PRK05978 hypothetical protein; 21.9 3.6E+02 0.0078 26.8 7.4 27 134-163 34-65 (148)
47 COG4068 Uncharacterized protei 21.7 88 0.0019 26.8 2.7 18 147-164 8-25 (64)
48 PF07062 Clc-like: Clc-like; 21.5 1.8E+02 0.0039 30.4 5.5 9 154-162 65-73 (211)
49 KOG1312 DHHC-type Zn-finger pr 21.2 60 0.0013 35.6 2.0 54 131-195 160-213 (341)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=5e-34 Score=296.83 Aligned_cols=134 Identities=29% Similarity=0.472 Sum_probs=104.8
Q ss_pred CCCcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhheeeeeeec
Q 005664 128 GNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVN 207 (684)
Q Consensus 128 ~~~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~vLv~~~~~ 207 (684)
....+++||.+|+.++|+|||||++||+||+||||||+|+|||||++|||||++|+++..+++++.+++..+.+......
T Consensus 108 ~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~ 187 (299)
T KOG1311|consen 108 GIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADN 187 (299)
T ss_pred CcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 33457999999999999999999999999999999999999999999999999999988888888776666554332222
Q ss_pred CcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005664 208 KKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 269 (684)
Q Consensus 208 ~~~~~~~i~~~Lg~~~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l~~ 269 (684)
..... . .........+.+++++++++++++++.|+++|+++|.+|+||+|++++
T Consensus 188 ~~~~~-------~-~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~ 241 (299)
T KOG1311|consen 188 LKVNL-------T-PVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKS 241 (299)
T ss_pred ccccc-------c-ccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhc
Confidence 11100 0 111122234455556778888888999999999999999999999886
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=2.6e-32 Score=260.28 Aligned_cols=132 Identities=28% Similarity=0.522 Sum_probs=101.5
Q ss_pred cCCCcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhheeeeeee
Q 005664 127 QGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFV 206 (684)
Q Consensus 127 ~~~~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~vLv~~~~ 206 (684)
.......+||.+|++.||+|||||+.||+||++|||||+|+|||||++|||+|++|+++..+++++.+...+..+.....
T Consensus 42 ~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~ 121 (174)
T PF01529_consen 42 DDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIP 121 (174)
T ss_pred cccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33457889999999999999999999999999999999999999999999999999999988888876666554432211
Q ss_pred cCcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005664 207 NKKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 269 (684)
Q Consensus 207 ~~~~~~~~i~~~Lg~~~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l~~ 269 (684)
.... ..+. .......+++++++++++++++.|+++|+++|++|+||+|.+++
T Consensus 122 ~~~~----------~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 122 SISF----------SSFW-IFSNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred cccc----------cccc-cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 1110 0000 00001114455566777788999999999999999999999876
No 3
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=99.96 E-value=4.9e-30 Score=269.21 Aligned_cols=127 Identities=26% Similarity=0.499 Sum_probs=97.8
Q ss_pred CcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhheeeeeeecCc
Q 005664 130 GDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNKK 209 (684)
Q Consensus 130 ~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~vLv~~~~~~~ 209 (684)
....+||.+|+.+||+|||||++|++||+||||||+|+|||||.+|||+|++|++|..+++++.+...+..++..+ ..
T Consensus 106 ~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~-~~- 183 (307)
T KOG1315|consen 106 DGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYF-QG- 183 (307)
T ss_pred CCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hc-
Confidence 3578999999999999999999999999999999999999999999999999999999988776554443332211 00
Q ss_pred chhHHHHhhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005664 210 SMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 269 (684)
Q Consensus 210 ~~~~~i~~~Lg~~~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l~~ 269 (684)
. ........+.+.+++++++.+.+.+++|+++|++||++|+||+|....
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 111111122344445566666777777999999999999999998765
No 4
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.95 E-value=5.9e-29 Score=254.10 Aligned_cols=166 Identities=23% Similarity=0.362 Sum_probs=111.8
Q ss_pred hhhheeeeccccccchhHHhhcCCCcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHH
Q 005664 106 RIFCALFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAI 185 (684)
Q Consensus 106 ~l~c~~fv~~~cr~~~~~~~q~~~~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~ 185 (684)
.+...+|.+-.|+..++ .-+...+...||.+|+.+|++|+|||+.||+||++|||||||+|||||..|||||++||+|
T Consensus 77 ~l~nvi~hy~ka~t~pP--vgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ 154 (309)
T KOG1313|consen 77 LLSNVIFHYYKARTKPP--VGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFY 154 (309)
T ss_pred HHHHHHHhheeecccCC--cCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHH
Confidence 33344444445554442 2333447788999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhheeeeeeecCcchhHHHHh---h-hcCCCCCch---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005664 186 SLVWLVIEAGVGIAVLVRCFVNKKSMETEIID---R-LGDGFSRAP---FATVVAICTAVSMLACIPLGELFFFHMILIR 258 (684)
Q Consensus 186 ~lL~li~~~~vgI~vLv~~~~~~~~~~~~i~~---~-Lg~~~s~~p---~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~ 258 (684)
+.+.+.+..+.+.+.+.............-.+ . ....+.+.. ...-++.+.+++..++++++.|..||.++|.
T Consensus 155 ltlat~~~~i~~~~~w~~~le~~~~~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~ 234 (309)
T KOG1313|consen 155 LTLATSYAAIMCVYTWIDHLEPIEEITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLIS 234 (309)
T ss_pred HHHHHHHHHHHHHHHHHHhcchHhhcccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeee
Confidence 99888887666555443322211111000000 0 000000000 0011223445555667889999999999999
Q ss_pred cCcchHHHHHHHhhh
Q 005664 259 KGITTYEYVVAMRAM 273 (684)
Q Consensus 259 rN~TTyE~l~~~R~~ 273 (684)
+|.|.+|+++.+++.
T Consensus 235 ~G~tsi~~~~~~~e~ 249 (309)
T KOG1313|consen 235 RGETSIEQLINIKER 249 (309)
T ss_pred hhhhhHHHHHHHHHh
Confidence 999999998876554
No 5
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.95 E-value=1.5e-29 Score=265.10 Aligned_cols=161 Identities=25% Similarity=0.402 Sum_probs=109.6
Q ss_pred hhhhhheeeeccccccchhHHhhcCCCcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHH
Q 005664 104 NGRIFCALFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLM 183 (684)
Q Consensus 104 i~~l~c~~fv~~~cr~~~~~~~q~~~~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL 183 (684)
++.++.+.++...-.+.....+...+.....||.+|+.+|+||||||+.|||||.+|||||||+|||||..||.+|+.||
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 45566677776666666665444455567889999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHHHHHHHHHhheeeeeeecCcchhHHHHhhhcCC-----CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005664 184 AISLVWLVIEAGVGIAVLVRCFVNKKSMETEIIDRLGDG-----FSRAPFATVVAICTAVSMLACIPLGELFFFHMILIR 258 (684)
Q Consensus 184 ~~~lL~li~~~~vgI~vLv~~~~~~~~~~~~i~~~Lg~~-----~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~ 258 (684)
++..+.++-... +++ |.. .+.+...+....|.. +....-.+++++.+.+++.+.+.+++||+.|+..|+
T Consensus 142 lf~ivG~ih~ti----I~~-~~~-~~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il 215 (414)
T KOG1314|consen 142 LFSIVGCIHGTI----ILV-CAQ-YRGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQIL 215 (414)
T ss_pred HHHHHhccccee----eeh-hHH-HHHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 877664433211 110 000 001111111111211 111112233444455666667888999999999999
Q ss_pred cCcchHHHHHHH
Q 005664 259 KGITTYEYVVAM 270 (684)
Q Consensus 259 rN~TTyE~l~~~ 270 (684)
+|+|.+|.+.-.
T Consensus 216 ~nrt~IE~wi~~ 227 (414)
T KOG1314|consen 216 NNRTGIESWIVE 227 (414)
T ss_pred cCCcchHHHHHH
Confidence 999999998733
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.94 E-value=1.9e-27 Score=250.66 Aligned_cols=137 Identities=27% Similarity=0.526 Sum_probs=101.9
Q ss_pred cCCCcccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhheeeeeee
Q 005664 127 QGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFV 206 (684)
Q Consensus 127 ~~~~d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~vLv~~~~ 206 (684)
.......+||.+|+.+||+|||||+.||+||+||||||+|+|||||++|||+|++|+++..+..++.++...+.+...+.
T Consensus 103 ~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~ 182 (309)
T COG5273 103 DGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFS 182 (309)
T ss_pred cCccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34457889999999999999999999999999999999999999999999999999998877666665555544432222
Q ss_pred cCcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHhhhccC
Q 005664 207 NKKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRAMSEA 276 (684)
Q Consensus 207 ~~~~~~~~i~~~Lg~~~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l~~~R~~se~ 276 (684)
..+... ....+++..+..+..++++.+..++.+|.+++..|.||+|.....|.++..
T Consensus 183 ~~~~~~-------------~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~ 239 (309)
T COG5273 183 IRHDTS-------------LAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTL 239 (309)
T ss_pred ccCChH-------------HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecc
Confidence 111100 000112222344555566777889999999999999999998887765443
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.89 E-value=4.2e-24 Score=219.74 Aligned_cols=61 Identities=34% Similarity=0.810 Sum_probs=55.1
Q ss_pred cccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHH
Q 005664 133 ALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIE 193 (684)
Q Consensus 133 ~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~ 193 (684)
...|++|+++||.|||||++||+||+||||||.|+|||||.+|+|||++|++.....+.++
T Consensus 148 ~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~ya 208 (341)
T KOG1312|consen 148 NVKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYA 208 (341)
T ss_pred CCccccccCCCccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHH
Confidence 3569999999999999999999999999999999999999999999999998775544444
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.78 E-value=5.2e-20 Score=205.21 Aligned_cols=70 Identities=37% Similarity=0.719 Sum_probs=60.3
Q ss_pred ccc-ccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhhe
Q 005664 131 DDA-LFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAV 200 (684)
Q Consensus 131 d~~-~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~v 200 (684)
+.. +||.+|-+.||.|||||++||+||.+|||||||++||||.+||++|+.|++.....+.+.++.+.+.
T Consensus 417 ~~en~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y 487 (600)
T KOG0509|consen 417 DLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYY 487 (600)
T ss_pred cccccceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444 6999999999999999999999999999999999999999999999999887666655555444443
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=93.85 E-value=0.45 Score=45.69 Aligned_cols=52 Identities=23% Similarity=0.608 Sum_probs=40.3
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIE 193 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~ 193 (684)
...+.|..|+.-+..+-|||..-|.||.+.-| +.+-.|++++...+++.++.
T Consensus 60 ~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~ 111 (174)
T PF01529_consen 60 PRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFIL 111 (174)
T ss_pred CcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999999999999998755 45667776665555444443
No 10
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=93.19 E-value=0.21 Score=52.94 Aligned_cols=42 Identities=21% Similarity=0.317 Sum_probs=35.0
Q ss_pred CCCCCccCCccccCCccccccccccccchh-----------HHHHHHHHHHHH
Q 005664 146 FSKHCRSCDKCVDGFDHHCRWLNNCVGHKN-----------YVTFISLMAISL 187 (684)
Q Consensus 146 RShHCsvCnrCVlrfDHHCpWLnNCIG~rN-----------yRyFLlFL~~~l 187 (684)
+-|+|..|+..+..+-|||..-|+||-+.- +|-+-.|+.+.+
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~ 164 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLF 164 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHH
Confidence 379999999999999999999999998764 566777774444
No 11
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=90.70 E-value=1.3 Score=48.08 Aligned_cols=126 Identities=17% Similarity=0.248 Sum_probs=76.1
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhheeeeeeecCcc
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNKKS 210 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~vgI~vLv~~~~~~~~ 210 (684)
+..+.|..|+.=....=|||.-=|+||-+.-| +=+-.|++++.+..+..++.+...+..+...-.....
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 67899999999999999999999999997544 5677888877665555555444444444322111111
Q ss_pred h-hHHHHhhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHhh
Q 005664 211 M-ETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRA 272 (684)
Q Consensus 211 ~-~~~i~~~Lg~~~s~~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l~~~R~ 272 (684)
. ...+....+ + ...+.+.+..++......++..+...+.+.+.++.++-|...-.|.
T Consensus 190 ~~~~li~~~~~--~---~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~ 247 (309)
T COG5273 190 AICFLIFGCSL--L---GVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRE 247 (309)
T ss_pred HHHHHHHhhhH--H---HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhcc
Confidence 2 222221000 0 0001111222222333355666778889999999999998766554
No 12
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=73.27 E-value=1.9 Score=34.96 Aligned_cols=25 Identities=28% Similarity=0.570 Sum_probs=22.6
Q ss_pred cccccccccccccCCCCCCCccCCc
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDK 155 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnr 155 (684)
....+|..|.+.-|+|+..|+.|+.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 4678899999999999999999886
No 13
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=70.36 E-value=1.9 Score=50.38 Aligned_cols=60 Identities=10% Similarity=0.026 Sum_probs=48.9
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHH-HHHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTF-ISLMAISLVWLV 191 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyF-LlFL~~~lL~li 191 (684)
--...|..|.+..+.+..+|..|-.|+..|++||+|+. ||+.+|...| +.|+++.+++++
T Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~~~~ 383 (600)
T KOG0509|consen 323 VLTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLAYFI 383 (600)
T ss_pred hhheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHHHHH
Confidence 34556999999999999999999999999999999999 9999997765 445544444433
No 14
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=66.42 E-value=3.1 Score=28.67 Aligned_cols=21 Identities=33% Similarity=0.915 Sum_probs=18.9
Q ss_pred cccccccccCCCCCCCccCCc
Q 005664 135 FCTLCNAEVRRFSKHCRSCDK 155 (684)
Q Consensus 135 fC~tC~i~KPpRShHCsvCnr 155 (684)
||..|....++.++.|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 699999999999999999985
No 15
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=59.25 E-value=91 Score=35.48 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=25.3
Q ss_pred cccccccccccccCCCCCCCccCCccccCCcccc
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHC 164 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHC 164 (684)
++..-|..|+...+....||..|+.-..+..++.
T Consensus 219 ~~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 219 QGLRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred cCCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 4566799999887777778988888776655543
No 16
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=58.19 E-value=4.7 Score=44.72 Aligned_cols=44 Identities=23% Similarity=0.559 Sum_probs=35.7
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAI 185 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~ 185 (684)
...+-|++|+.=+-+=-|||.--|.||--..| .-+-+|++|.+.
T Consensus 103 pRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh-----------~~F~~FLlf~iv 146 (414)
T KOG1314|consen 103 PRSHHCRKCNRCVMKMDHHCPWINNCVGWANH-----------AYFLRFLLFSIV 146 (414)
T ss_pred CccccchHHHHHHHhhccCCcchhhccccccc-----------HHHHHHHHHHHH
Confidence 45678999998888899999999999985443 456788888776
No 17
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=52.11 E-value=7.7 Score=27.21 Aligned_cols=23 Identities=35% Similarity=0.878 Sum_probs=19.4
Q ss_pred cccccccccccCCCCCCCccCCc
Q 005664 133 ALFCTLCNAEVRRFSKHCRSCDK 155 (684)
Q Consensus 133 ~~fC~tC~i~KPpRShHCsvCnr 155 (684)
.++|..|....++.++.|..|+.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcCCcccccChhhCC
Confidence 36799999988889999998875
No 18
>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=51.61 E-value=8.2 Score=31.94 Aligned_cols=26 Identities=27% Similarity=0.703 Sum_probs=18.0
Q ss_pred cccccccccccccCCCCCCCcc--CCcc
Q 005664 131 DDALFCTLCNAEVRRFSKHCRS--CDKC 156 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsv--CnrC 156 (684)
.+..+|..|.+.-|+|+..|+. ||++
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 4678999999999999999998 8765
No 19
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=51.12 E-value=9 Score=46.36 Aligned_cols=23 Identities=30% Similarity=0.652 Sum_probs=18.9
Q ss_pred cccccccccccC-------CCCCCCccCCc
Q 005664 133 ALFCTLCNAEVR-------RFSKHCRSCDK 155 (684)
Q Consensus 133 ~~fC~tC~i~KP-------pRShHCsvCnr 155 (684)
...|..|+..-. .|-|||+.|++
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCcc
Confidence 467999987664 38999999988
No 20
>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=51.10 E-value=1.5e+02 Score=33.66 Aligned_cols=33 Identities=12% Similarity=0.244 Sum_probs=22.3
Q ss_pred cccccccccccc-cCCCCCCCccCCccccCCccc
Q 005664 131 DDALFCTLCNAE-VRRFSKHCRSCDKCVDGFDHH 163 (684)
Q Consensus 131 d~~~fC~tC~i~-KPpRShHCsvCnrCVlrfDHH 163 (684)
+...-|..|+.. .+....||..|+.-..+..++
T Consensus 213 ~~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 213 LKLRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred cCCCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 455669999974 344456788888877665554
No 21
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=50.86 E-value=42 Score=30.64 Aligned_cols=39 Identities=26% Similarity=0.348 Sum_probs=26.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHH
Q 005664 226 APFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYV 267 (684)
Q Consensus 226 ~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~LI~rN~TTyE~l 267 (684)
.+|..+..++++++++ .+.++++|-+|--+++-+++|++
T Consensus 43 ~~wRalSii~FIlG~v---l~lGilifs~y~~C~~~~~~~r~ 81 (91)
T PHA02680 43 YVWRALSVTCFIVGAV---LLLGLFVFSMYRKCSGSMPYERL 81 (91)
T ss_pred hhHHHHHHHHHHHHHH---HHHHHHHHHHhcccCCCceeecc
Confidence 4455566677777764 34447888888877777777654
No 22
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=49.64 E-value=78 Score=34.81 Aligned_cols=51 Identities=24% Similarity=0.551 Sum_probs=35.3
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVI 192 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~ 192 (684)
+..+-|+.|+.=.-+.=|||..=|+||.-.++ +=+-.|+.+.+...++.++
T Consensus 121 dRaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~~~~lv 171 (307)
T KOG1315|consen 121 DRAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYSIYVLV 171 (307)
T ss_pred CccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHHHHHHH
Confidence 56778888888888888888888888885433 4455666655554444443
No 23
>PF12773 DZR: Double zinc ribbon
Probab=48.46 E-value=16 Score=28.59 Aligned_cols=36 Identities=28% Similarity=0.541 Sum_probs=25.1
Q ss_pred cccccccccccccC---CCCCCCccCCccccCCcccccc
Q 005664 131 DDALFCTLCNAEVR---RFSKHCRSCDKCVDGFDHHCRW 166 (684)
Q Consensus 131 d~~~fC~tC~i~KP---pRShHCsvCnrCVlrfDHHCpW 166 (684)
++.+||..|....+ ...+.|..|+.=+...+.+|++
T Consensus 10 ~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 10 DDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 45777888877666 3356688887777777777764
No 24
>PF15232 DUF4585: Domain of unknown function (DUF4585)
Probab=48.00 E-value=17 Score=32.15 Aligned_cols=20 Identities=40% Similarity=0.730 Sum_probs=17.0
Q ss_pred cccceeeccCCCceeeeccc
Q 005664 544 KRTSVVWDQEAGRYVSVPIS 563 (684)
Q Consensus 544 ~r~sv~wd~eagr~vs~~~~ 563 (684)
-|+-..+|+|.|.||-|+.+
T Consensus 28 p~~k~lfDPETGqYVeV~iP 47 (75)
T PF15232_consen 28 PKTKTLFDPETGQYVEVLIP 47 (75)
T ss_pred cceeeeecCCCCcEEEEeCC
Confidence 35788999999999999764
No 25
>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=42.19 E-value=16 Score=30.55 Aligned_cols=15 Identities=40% Similarity=0.893 Sum_probs=12.5
Q ss_pred ceeeccCCCceeeec
Q 005664 547 SVVWDQEAGRYVSVP 561 (684)
Q Consensus 547 sv~wd~eagr~vs~~ 561 (684)
..+||+|||-||.-.
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 26
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=41.20 E-value=6.9 Score=32.03 Aligned_cols=25 Identities=24% Similarity=0.515 Sum_probs=21.8
Q ss_pred cccccccccccccCCCCCCCccCCc
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDK 155 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnr 155 (684)
-...+|..|++.-|+++.-|+.|+.
T Consensus 12 ~~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 12 FNKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hhHHHHHHhcCCCCcchhHHhhccC
Confidence 3467899999999999999998865
No 27
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=39.84 E-value=51 Score=35.90 Aligned_cols=54 Identities=20% Similarity=0.557 Sum_probs=43.4
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAG 195 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~ 195 (684)
....-|+.|+.=+-.=-|||..=|+||--..| +-+-.|+.++..+..++.++..
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 45677999988888889999999999997766 4567798888877777777644
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=37.20 E-value=19 Score=25.63 Aligned_cols=22 Identities=36% Similarity=0.706 Sum_probs=19.1
Q ss_pred ccccccccccCCCCCCCccCCc
Q 005664 134 LFCTLCNAEVRRFSKHCRSCDK 155 (684)
Q Consensus 134 ~fC~tC~i~KPpRShHCsvCnr 155 (684)
+.|..|....|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 3699999999999999998875
No 29
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=33.92 E-value=12 Score=42.82 Aligned_cols=28 Identities=29% Similarity=0.746 Sum_probs=21.2
Q ss_pred cccccccccccc--cCCCCCCCccCCcccc
Q 005664 131 DDALFCTLCNAE--VRRFSKHCRSCDKCVD 158 (684)
Q Consensus 131 d~~~fC~tC~i~--KPpRShHCsvCnrCVl 158 (684)
....||..|.-. --.|-|||+.||+-+-
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC 207 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVMC 207 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHHH
Confidence 567799999743 3468999999998543
No 30
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=32.55 E-value=18 Score=38.38 Aligned_cols=12 Identities=25% Similarity=0.080 Sum_probs=9.5
Q ss_pred ccCCcccccccc
Q 005664 157 VDGFDHHCRWLN 168 (684)
Q Consensus 157 VlrfDHHCpWLn 168 (684)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 456799999975
No 31
>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=31.30 E-value=21 Score=30.14 Aligned_cols=36 Identities=28% Similarity=0.750 Sum_probs=27.3
Q ss_pred cccccccccCCCC-------CCCccCCccccCC-ccccccccccccc
Q 005664 135 FCTLCNAEVRRFS-------KHCRSCDKCVDGF-DHHCRWLNNCVGH 173 (684)
Q Consensus 135 fC~tC~i~KPpRS-------hHCsvCnrCVlrf-DHHCpWLnNCIG~ 173 (684)
-|..|+.-.|+-+ +-|..|..|+..+ +++|| ||=|.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 3666776666654 5689999999998 99999 66553
No 32
>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=30.70 E-value=20 Score=29.81 Aligned_cols=28 Identities=32% Similarity=0.752 Sum_probs=13.7
Q ss_pred ccccccccccccc--CCCCCCCccCCcccc
Q 005664 131 DDALFCTLCNAEV--RRFSKHCRSCDKCVD 158 (684)
Q Consensus 131 d~~~fC~tC~i~K--PpRShHCsvCnrCVl 158 (684)
.+...|..|...= -.|-|||+.||+.|=
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 4566788886433 468899999998554
No 33
>PF12773 DZR: Double zinc ribbon
Probab=30.29 E-value=35 Score=26.72 Aligned_cols=26 Identities=27% Similarity=0.588 Sum_probs=22.7
Q ss_pred CCcccccccccccccCCCCCCCccCC
Q 005664 129 NGDDALFCTLCNAEVRRFSKHCRSCD 154 (684)
Q Consensus 129 ~~d~~~fC~tC~i~KPpRShHCsvCn 154 (684)
......+|..|....++.++.|..|+
T Consensus 25 ~~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 25 PDQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred ccCCCCCCcCCcCCCcCCcCccCccc
Confidence 34567899999999999999999986
No 34
>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=29.60 E-value=4.9e+02 Score=29.59 Aligned_cols=33 Identities=15% Similarity=0.334 Sum_probs=20.9
Q ss_pred ccccccccccccc--C----CCCCCCccCCccccCCccc
Q 005664 131 DDALFCTLCNAEV--R----RFSKHCRSCDKCVDGFDHH 163 (684)
Q Consensus 131 d~~~fC~tC~i~K--P----pRShHCsvCnrCVlrfDHH 163 (684)
.+..-|..|+... | ...-||..|+.-..+.+++
T Consensus 11 ~~~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 49 (403)
T TIGR00155 11 AKHILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDW 49 (403)
T ss_pred CCeeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCC
Confidence 3455699998443 2 2234588888877766555
No 35
>PHA02898 virion envelope protein; Provisional
Probab=29.47 E-value=1.4e+02 Score=27.55 Aligned_cols=37 Identities=19% Similarity=0.260 Sum_probs=22.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchHH
Q 005664 226 APFATVVAICTAVSMLACIPLGELFFFHMIL-IRKGITTYE 265 (684)
Q Consensus 226 ~p~~iVv~L~~iLslL~~I~Lg~Ll~fHL~L-I~rN~TTyE 265 (684)
..|..+..++++++++ .+.++++|-+|. -+++-+++|
T Consensus 42 ~~wRalSii~FIlgiv---l~lG~~ifs~y~r~C~~~~~~e 79 (92)
T PHA02898 42 SALRSISIISFILAII---LILGIIFFKGYNMFCGGNTTDE 79 (92)
T ss_pred hHHHHHHHHHHHHHHH---HHHHHHHHHHHhhhcCCCcccc
Confidence 3455556667666653 344567777776 566666665
No 36
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=29.31 E-value=4.4e+02 Score=30.13 Aligned_cols=31 Identities=16% Similarity=0.372 Sum_probs=18.8
Q ss_pred ccccccccccc--C----CCCCCCccCCccccCCccc
Q 005664 133 ALFCTLCNAEV--R----RFSKHCRSCDKCVDGFDHH 163 (684)
Q Consensus 133 ~~fC~tC~i~K--P----pRShHCsvCnrCVlrfDHH 163 (684)
..-|..|+... | ...-||..|+.-..+.+++
T Consensus 10 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 46 (419)
T PRK15103 10 HILCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWDE 46 (419)
T ss_pred cccCCCCCceeecCCCCCCCeeECCCCCCCCcCCCCC
Confidence 35599998543 2 2245677777766554443
No 37
>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=28.44 E-value=75 Score=34.11 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=15.1
Q ss_pred ccc-hhHHHHHHHHHHHHHHHHHHHH
Q 005664 171 VGH-KNYVTFISLMAISLVWLVIEAG 195 (684)
Q Consensus 171 IG~-rNyRyFLlFL~~~lL~li~~~~ 195 (684)
||. ...+..++|+++.++++++.++
T Consensus 189 VG~~faRkR~i~f~llgllfliiaig 214 (256)
T PF09788_consen 189 VGPRFARKRAIIFFLLGLLFLIIAIG 214 (256)
T ss_pred ccchHhhhHHHHHHHHHHHHHHHHHH
Confidence 674 4556666666666666665543
No 38
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=28.40 E-value=15 Score=39.39 Aligned_cols=31 Identities=26% Similarity=0.716 Sum_probs=26.7
Q ss_pred CCcccccccccccccCCCCCCCccCCccccC
Q 005664 129 NGDDALFCTLCNAEVRRFSKHCRSCDKCVDG 159 (684)
Q Consensus 129 ~~d~~~fC~tC~i~KPpRShHCsvCnrCVlr 159 (684)
.++..+||..|.++....-.||..|+.|..+
T Consensus 200 ~EE~~~~~~~~~~Yv~~~~~H~~~~~S~~~~ 230 (325)
T KOG4399|consen 200 TEEGYRFCSPCQRYVSLENQHCEHCNSCTSK 230 (325)
T ss_pred cccceEEEeehHHHHHHHhhhchhhcccccc
Confidence 3478889999999999999999999988654
No 39
>COG4640 Predicted membrane protein [Function unknown]
Probab=27.56 E-value=28 Score=39.45 Aligned_cols=42 Identities=14% Similarity=0.369 Sum_probs=30.4
Q ss_pred cccccccccccCCCCCCCccCCccccCCccccc-cccccccch
Q 005664 133 ALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCR-WLNNCVGHK 174 (684)
Q Consensus 133 ~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCp-WLnNCIG~r 174 (684)
++||..|...+-..+..|..||.=+-.+----. -+++-+-.+
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~t~~~sqan~~tn~i~~tr 43 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKFTSRQSQANKSTNEIIQTR 43 (465)
T ss_pred CCcccccccccccccccccccCCcCCchhhhhhHHHHHHHHhh
Confidence 579999999999999999999987766544333 444444433
No 40
>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=26.88 E-value=40 Score=39.03 Aligned_cols=63 Identities=29% Similarity=0.594 Sum_probs=40.3
Q ss_pred eeeccccccchhHHhhcCCCcccccccccccccCC--------CCC-CCccCCccccC-----Ccc--------------
Q 005664 111 LFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRR--------FSK-HCRSCDKCVDG-----FDH-------------- 162 (684)
Q Consensus 111 ~fv~~~cr~~~~~~~q~~~~d~~~fC~tC~i~KPp--------RSh-HCsvCnrCVlr-----fDH-------------- 162 (684)
+|+++.|....-. ..-..+-+..||..|....|. |+. +|-.|-.|..- -|+
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 4445555543321 233344568999999877763 654 88888888542 343
Q ss_pred -------ccccccccccch
Q 005664 163 -------HCRWLNNCVGHK 174 (684)
Q Consensus 163 -------HCpWLnNCIG~r 174 (684)
||.|.-..||..
T Consensus 84 ~~~l~C~~C~Wss~~igi~ 102 (483)
T PF05502_consen 84 PYYLSCSYCRWSSRDIGIK 102 (483)
T ss_pred CEEEECCCceeeccccCcc
Confidence 788888888875
No 41
>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=25.43 E-value=77 Score=26.90 Aligned_cols=18 Identities=17% Similarity=0.565 Sum_probs=10.2
Q ss_pred ccccccccccCCCCCCCc
Q 005664 134 LFCTLCNAEVRRFSKHCR 151 (684)
Q Consensus 134 ~fC~tC~i~KPpRShHCs 151 (684)
+-|..|....|+--..|+
T Consensus 4 kHC~~CG~~Ip~~~~fCS 21 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCS 21 (59)
T ss_pred CcCCcCCCcCCcchhhhC
Confidence 446666666665555553
No 42
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=24.05 E-value=1.9e+02 Score=32.67 Aligned_cols=16 Identities=31% Similarity=1.138 Sum_probs=13.2
Q ss_pred CCCCccCCccccCCcccccc
Q 005664 147 SKHCRSCDKCVDGFDHHCRW 166 (684)
Q Consensus 147 ShHCsvCnrCVlrfDHHCpW 166 (684)
+..|..|+.| +|+||.
T Consensus 47 a~lChnC~~C----~~~CPy 62 (372)
T TIGR02484 47 AHLCHDCQSC----WHDCQY 62 (372)
T ss_pred HHHCcCcccc----cccCcC
Confidence 6778888899 578997
No 43
>COG0805 TatC Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]
Probab=23.29 E-value=5.1e+02 Score=27.87 Aligned_cols=22 Identities=32% Similarity=0.342 Sum_probs=17.3
Q ss_pred HHHHHHHhcCcchHHHHHHHhh
Q 005664 251 FFHMILIRKGITTYEYVVAMRA 272 (684)
Q Consensus 251 ~fHL~LI~rN~TTyE~l~~~R~ 272 (684)
+..+.|...|++|+|.++++|.
T Consensus 177 vv~~~L~~~Giv~~~~L~~~rr 198 (255)
T COG0805 177 VVIVLLTRLGIVTPETLKKKRR 198 (255)
T ss_pred HHHHHHHHcCCccHHHHHHcCC
Confidence 3456677889999999988765
No 44
>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 PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=21.94 E-value=4.5e+02 Score=23.47 Aligned_cols=18 Identities=11% Similarity=-0.147 Sum_probs=13.2
Q ss_pred HHhcCcchHHHHHHHhhh
Q 005664 256 LIRKGITTYEYVVAMRAM 273 (684)
Q Consensus 256 LI~rN~TTyE~l~~~R~~ 273 (684)
...+.++|-|.++..+..
T Consensus 77 ~W~~~r~tae~lk~e~~~ 94 (112)
T PF14015_consen 77 RWIRYRATAESLKREKWL 94 (112)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 346788999998876654
No 46
>PRK05978 hypothetical protein; Provisional
Probab=21.92 E-value=3.6e+02 Score=26.83 Aligned_cols=27 Identities=30% Similarity=0.738 Sum_probs=16.1
Q ss_pred ccccccccccC-----CCCCCCccCCccccCCccc
Q 005664 134 LFCTLCNAEVR-----RFSKHCRSCDKCVDGFDHH 163 (684)
Q Consensus 134 ~fC~tC~i~KP-----pRShHCsvCnrCVlrfDHH 163 (684)
.-|..|..-+- +=..+|..|+ .+|.||
T Consensus 34 grCP~CG~G~LF~g~Lkv~~~C~~CG---~~~~~~ 65 (148)
T PRK05978 34 GRCPACGEGKLFRAFLKPVDHCAACG---EDFTHH 65 (148)
T ss_pred CcCCCCCCCcccccccccCCCccccC---CccccC
Confidence 34778876554 2334455544 578887
No 47
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=21.67 E-value=88 Score=26.82 Aligned_cols=18 Identities=28% Similarity=0.778 Sum_probs=9.9
Q ss_pred CCCCccCCccccCCcccc
Q 005664 147 SKHCRSCDKCVDGFDHHC 164 (684)
Q Consensus 147 ShHCsvCnrCVlrfDHHC 164 (684)
-+||-+|++-|.-=...|
T Consensus 8 H~HC~VCg~aIp~de~~C 25 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVC 25 (64)
T ss_pred CccccccCCcCCCccchH
Confidence 356666666555444444
No 48
>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=21.53 E-value=1.8e+02 Score=30.35 Aligned_cols=9 Identities=33% Similarity=0.508 Sum_probs=7.1
Q ss_pred CccccCCcc
Q 005664 154 DKCVDGFDH 162 (684)
Q Consensus 154 nrCVlrfDH 162 (684)
.+|+.|||+
T Consensus 65 ~~C~ykFd~ 73 (211)
T PF07062_consen 65 LHCTYKFDY 73 (211)
T ss_pred ceEEEEcCc
Confidence 568889985
No 49
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=21.22 E-value=60 Score=35.59 Aligned_cols=54 Identities=20% Similarity=0.608 Sum_probs=40.2
Q ss_pred cccccccccccccCCCCCCCccCCccccCCccccccccccccchhHHHHHHHHHHHHHHHHHHHH
Q 005664 131 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAG 195 (684)
Q Consensus 131 d~~~fC~tC~i~KPpRShHCsvCnrCVlrfDHHCpWLnNCIG~rNyRyFLlFL~~~lL~li~~~~ 195 (684)
...+-|+.||.=+-..-|||---|.||-.. -.+-+-.|++-.+.++++.++.++
T Consensus 160 ARSKHCsiCNrCV~rfDHHCiWiNNCIG~~-----------N~ryF~lFLL~~i~l~~yaivrlg 213 (341)
T KOG1312|consen 160 ARSKHCSICNRCVHRFDHHCIWINNCIGAW-----------NIRYFLLFLLTLISLATYAIVRLG 213 (341)
T ss_pred cccccchHHHHHHHHhccceEeeecccccc-----------hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446678888888888889999999998863 246777888766776666666544
Done!