Query 005293
Match_columns 704
No_of_seqs 279 out of 1353
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 21:10:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005293.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005293hhsearch_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 4.6E-35 1E-39 306.3 13.3 132 150-289 110-241 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 7.3E-32 1.6E-36 284.0 13.1 128 149-289 105-232 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 5E-32 1.1E-36 259.8 9.0 131 148-289 43-173 (174)
4 COG5273 Uncharacterized protei 100.0 4.1E-28 8.8E-33 256.9 14.3 135 149-296 105-239 (309)
5 KOG1314 DHHC-type Zn-finger pr 99.9 1.4E-29 3E-34 266.0 1.0 162 124-291 62-228 (414)
6 KOG1313 DHHC-type Zn-finger pr 99.9 7.6E-29 1.6E-33 254.0 5.3 156 132-293 83-249 (309)
7 KOG1312 DHHC-type Zn-finger pr 99.9 2.1E-24 4.5E-29 222.5 2.8 167 119-290 101-291 (341)
8 KOG0509 Ankyrin repeat and DHH 99.8 6.8E-21 1.5E-25 213.0 6.6 66 154-219 421-486 (600)
9 PF01529 zf-DHHC: DHHC palmito 95.1 0.16 3.5E-06 49.0 9.8 52 151-213 60-111 (174)
10 COG5273 Uncharacterized protei 93.3 0.76 1.6E-05 50.0 11.4 127 150-292 120-247 (309)
11 KOG1311 DHHC-type Zn-finger pr 85.0 3.7 8.1E-05 43.8 8.5 36 151-186 125-160 (299)
12 PRK04136 rpl40e 50S ribosomal 69.5 2.5 5.4E-05 34.4 1.2 25 151-175 12-36 (48)
13 KOG1314 DHHC-type Zn-finger pr 68.3 2.1 4.6E-05 47.4 0.8 45 151-206 103-147 (414)
14 KOG0509 Ankyrin repeat and DHH 65.5 2.5 5.5E-05 49.6 0.8 58 153-211 325-383 (600)
15 PF13240 zinc_ribbon_2: zinc-r 63.3 3.8 8.3E-05 28.3 1.0 21 155-175 1-21 (23)
16 KOG1315 Predicted DHHC-type Zn 61.2 36 0.00079 37.4 8.5 59 150-219 120-178 (307)
17 PTZ00303 phosphatidylinositol 54.5 7.2 0.00016 47.2 1.9 23 153-175 460-489 (1374)
18 KOG1313 DHHC-type Zn-finger pr 51.0 38 0.00083 36.9 6.4 54 151-215 114-167 (309)
19 PF12773 DZR: Double zinc ribb 50.6 14 0.00031 29.0 2.5 36 151-186 10-48 (50)
20 PF13248 zf-ribbon_3: zinc-rib 48.3 9.4 0.0002 26.8 1.0 22 154-175 3-24 (26)
21 PF01020 Ribosomal_L40e: Ribos 48.0 10 0.00022 31.5 1.3 26 151-176 15-42 (52)
22 PF15232 DUF4585: Domain of un 47.2 18 0.00038 32.2 2.7 20 564-583 28-47 (75)
23 PF08972 DUF1902: Domain of un 41.7 16 0.00035 30.6 1.5 15 567-581 4-18 (54)
24 COG1552 RPL40A Ribosomal prote 40.2 7.3 0.00016 31.9 -0.6 24 152-175 13-36 (50)
25 KOG1842 FYVE finger-containing 39.8 9 0.0002 43.8 -0.2 28 151-178 178-207 (505)
26 PHA02680 ORF090 IMV phosphoryl 37.7 86 0.0019 28.8 5.6 38 247-287 44-81 (91)
27 PRK15103 paraquat-inducible me 36.5 1.7E+02 0.0036 33.5 9.1 32 152-183 220-251 (419)
28 PF10571 UPF0547: Uncharacteri 36.3 19 0.00042 25.7 1.1 22 154-175 1-22 (26)
29 PF01363 FYVE: FYVE zinc finge 34.9 17 0.00036 30.4 0.7 28 151-178 7-36 (69)
30 PF09788 Tmemb_55A: Transmembr 33.8 71 0.0015 34.4 5.2 53 152-216 156-215 (256)
31 PF07010 Endomucin: Endomucin; 33.6 59 0.0013 34.6 4.5 31 18-48 196-226 (259)
32 PF12773 DZR: Double zinc ribb 28.1 39 0.00085 26.5 1.7 25 150-174 26-50 (50)
33 KOG3183 Predicted Zn-finger pr 27.3 27 0.00058 37.2 0.8 12 177-188 38-49 (250)
34 PF05502 Dynactin_p62: Dynacti 25.0 44 0.00096 38.8 2.1 44 151-194 24-102 (483)
35 PRK15103 paraquat-inducible me 24.3 3.5E+02 0.0076 31.0 9.0 29 153-181 10-44 (419)
36 smart00064 FYVE Protein presen 23.7 56 0.0012 27.2 2.0 27 152-178 9-37 (68)
37 TIGR00155 pqiA_fam integral me 23.6 4E+02 0.0086 30.4 9.2 32 152-183 12-49 (403)
38 TIGR02484 CitB CitB domain pro 23.0 2.8E+02 0.0062 31.5 7.8 16 167-186 47-62 (372)
39 PF09889 DUF2116: Uncharacteri 22.5 93 0.002 26.5 3.0 16 155-170 5-20 (59)
40 PF12273 RCR: Chitin synthesis 22.5 64 0.0014 30.6 2.3 30 18-48 4-33 (130)
41 PF07062 Clc-like: Clc-like; 21.6 1.7E+02 0.0037 30.7 5.3 9 174-182 65-73 (211)
42 PF14015 DUF4231: Protein of u 21.3 4.8E+02 0.01 23.4 7.7 19 276-294 77-95 (112)
43 PF11057 Cortexin: Cortexin of 21.2 78 0.0017 28.4 2.4 27 11-40 26-52 (81)
44 TIGR00155 pqiA_fam integral me 20.5 7.3E+02 0.016 28.3 10.5 32 152-183 214-246 (403)
45 COG4640 Predicted membrane pro 20.5 44 0.00096 38.0 0.9 30 153-182 1-30 (465)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=4.6e-35 Score=306.30 Aligned_cols=132 Identities=30% Similarity=0.487 Sum_probs=104.2
Q ss_pred CccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCc
Q 005293 150 GDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNKK 229 (704)
Q Consensus 150 ~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~f~~~~ 229 (704)
..+++||.+|+.++|+|||||++||+||+||||||+|+|||||++|||||++|++++.+++++.+++..+.+........
T Consensus 110 ~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~ 189 (299)
T KOG1311|consen 110 QVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLK 189 (299)
T ss_pred ccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 36799999999999999999999999999999999999999999999999999998888888877666655443322211
Q ss_pred chhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005293 230 SMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 289 (704)
Q Consensus 230 ~~~~~i~~~Lg~~~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l~~ 289 (704)
.. +. .........+.++++++++++.++++.|+++|+++|.+|+||+|++++
T Consensus 190 ~~-------~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~ 241 (299)
T KOG1311|consen 190 VN-------LT-PVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKS 241 (299)
T ss_pred cc-------cc-ccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhc
Confidence 10 00 011122233445556788888888999999999999999999999886
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=99.97 E-value=7.3e-32 Score=284.02 Aligned_cols=128 Identities=26% Similarity=0.509 Sum_probs=98.9
Q ss_pred CCccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecC
Q 005293 149 NGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNK 228 (704)
Q Consensus 149 ~~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~f~~~ 228 (704)
..+..++|.+|+.+||+|||||++|+|||+||||||+|+|||||.+|||+|++|++|+.+++++.+...+..++..+ ..
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 34788999999999999999999999999999999999999999999999999999999998775544433322222 00
Q ss_pred cchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005293 229 KSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 289 (704)
Q Consensus 229 ~~~~~~i~~~Lg~~~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l~~ 289 (704)
...........+++++++++.+++.+.+|+++|++||.+|+||+|....
T Consensus 184 ------------~~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~ 232 (307)
T KOG1315|consen 184 ------------GAGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKS 232 (307)
T ss_pred ------------cccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhcc
Confidence 0000111122344555666667777778999999999999999998765
No 3
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=99.97 E-value=5e-32 Score=259.85 Aligned_cols=131 Identities=28% Similarity=0.524 Sum_probs=101.2
Q ss_pred cCCccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeeeeec
Q 005293 148 GNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVN 227 (704)
Q Consensus 148 ~~~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~f~~ 227 (704)
......+||.+|+.+||+|||||+.||+||++|||||+|+|||||++|||+|++|+++..+++++.+...+..+......
T Consensus 43 ~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~ 122 (174)
T PF01529_consen 43 DENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPS 122 (174)
T ss_pred ccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34478899999999999999999999999999999999999999999999999999999888888766555544332211
Q ss_pred CcchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005293 228 KKSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVA 289 (704)
Q Consensus 228 ~~~~~~~i~~~Lg~~~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l~~ 289 (704)
... ..+. .......+++++++++++++++.|+++|+++|.+|+||+|++++
T Consensus 123 ~~~----------~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 123 ISF----------SSFW-IFSNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred ccc----------cccc-cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 110 0000 00001114455566777888999999999999999999999876
No 4
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.95 E-value=4.1e-28 Score=256.86 Aligned_cols=135 Identities=27% Similarity=0.515 Sum_probs=101.1
Q ss_pred CCccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecC
Q 005293 149 NGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNK 228 (704)
Q Consensus 149 ~~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~f~~~ 228 (704)
.....+||.+|+.+||+|||||+.||+||+||||||+|+|||||.+|||+|++|+++..+..++.+....+.+...+...
T Consensus 105 ~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (309)
T COG5273 105 KFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIR 184 (309)
T ss_pred ccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 34678999999999999999999999999999999999999999999999999999987776666655554443333222
Q ss_pred cchhHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHHHhhhccC
Q 005293 229 KSMETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRAMSEA 296 (704)
Q Consensus 229 ~~~~~~i~~~Lg~~~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l~~~R~~~e~ 296 (704)
+... ....+++..+..++.++++.+..++.+|.+++..|.||+|.....|..+..
T Consensus 185 ~~~~-------------~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~ 239 (309)
T COG5273 185 HDTS-------------LAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTL 239 (309)
T ss_pred CChH-------------HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecc
Confidence 1100 001112222344555556777789999999999999999998877665443
No 5
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.95 E-value=1.4e-29 Score=266.03 Aligned_cols=162 Identities=24% Similarity=0.390 Sum_probs=109.2
Q ss_pred hhhhhheeeeccccccchhHHhhccCCccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHH
Q 005293 124 NGRIFCALFVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLM 203 (704)
Q Consensus 124 i~~~lc~~fv~~~cr~~~~~~e~~~~~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL 203 (704)
+..++.+.|+...-....+..+...+..-..||..|+.+|+||||||+.|||||.+|||||||+|||||..||.+|+.||
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 44566677777666666664444444456789999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhheeeeeeecCcchhHHHHhhhcCC-----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 005293 204 AISLVWLVIEAGVGIAVLVRCFVNKKSMETEIIDRLGDG-----FSRAPFATVVAICTAVSMLACIPLGELFFFHMILIR 278 (704)
Q Consensus 204 ~~~lL~li~~~~vgi~vL~~~f~~~~~~~~~i~~~Lg~~-----~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~ 278 (704)
++..+-++-.. .+++..++ +.+...+..+.+.. +....-.+.+++.+.+++.+.+.++.||+.|+..|.
T Consensus 142 lf~ivG~ih~t----iI~~~~~~--~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il 215 (414)
T KOG1314|consen 142 LFSIVGCIHGT----IILVCAQY--RGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQIL 215 (414)
T ss_pred HHHHHhcccce----eeehhHHH--HHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 87766443211 11110000 01111111111211 111111223344455666666778899999999999
Q ss_pred cCcchHHHHHHHh
Q 005293 279 KGITTYEYVVAMR 291 (704)
Q Consensus 279 ~N~TTyE~l~~~R 291 (704)
+|+|.+|.+.-.+
T Consensus 216 ~nrt~IE~wi~~K 228 (414)
T KOG1314|consen 216 NNRTGIESWIVEK 228 (414)
T ss_pred cCCcchHHHHHHH
Confidence 9999999987433
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.95 E-value=7.6e-29 Score=253.96 Aligned_cols=156 Identities=26% Similarity=0.414 Sum_probs=108.0
Q ss_pred eeccccccchhHHhhccCCccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHH
Q 005293 132 FVREDCRKEEAAAEQQGNGDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLV 211 (704)
Q Consensus 132 fv~~~cr~~~~~~e~~~~~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li 211 (704)
|.+-.|+..++ .-....+.-.||.+|+.+|+||+|||+.|||||++|||||||+|||||..|||||++||+|+.+.+.
T Consensus 83 ~hy~ka~t~pP--vgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~ 160 (309)
T KOG1313|consen 83 FHYYKARTKPP--VGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATS 160 (309)
T ss_pred HhheeecccCC--cCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHH
Confidence 33445665553 1222236678999999999999999999999999999999999999999999999999999999888
Q ss_pred HHHHHhhheeeeeeecCcchhHHHHhhhcC--------CCCCch---hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcC
Q 005293 212 IEAGVGIAVLVRCFVNKKSMETEIIDRLGD--------GFSRAP---FATVVAICTAVSMLACIPLGELFFFHMILIRKG 280 (704)
Q Consensus 212 ~~~~vgi~vL~~~f~~~~~~~~~i~~~Lg~--------~~s~~~---f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N 280 (704)
+..+.+.+.+........ .+....++ .+.+.. -..-++.+.+++..+.+.++.|..||.++|.+|
T Consensus 161 ~~~i~~~~~w~~~le~~~----~~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G 236 (309)
T KOG1313|consen 161 YAAIMCVYTWIDHLEPIE----EITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRG 236 (309)
T ss_pred HHHHHHHHHHHHhcchHh----hcccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehh
Confidence 866555544332221111 11111111 010000 001122344556666778899999999999999
Q ss_pred cchHHHHHHHhhh
Q 005293 281 ITTYEYVVAMRAM 293 (704)
Q Consensus 281 ~TTyE~l~~~R~~ 293 (704)
.|.+|+++.+++.
T Consensus 237 ~tsi~~~~~~~e~ 249 (309)
T KOG1313|consen 237 ETSIEQLINIKER 249 (309)
T ss_pred hhhHHHHHHHHHh
Confidence 9999998876543
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.89 E-value=2.1e-24 Score=222.54 Aligned_cols=167 Identities=22% Similarity=0.371 Sum_probs=104.1
Q ss_pred ccccchhhhhheeeeccccccchhHHhhccC-C-------c-----cccccccccccccCCCcCCccCCccccCCCcccc
Q 005293 119 KSCNINGRIFCALFVREDCRKEEAAAEQQGN-G-------D-----DALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCR 185 (704)
Q Consensus 119 ~iC~~i~~~lc~~fv~~~cr~~~~~~e~~~~-~-------~-----~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCp 185 (704)
.+-....+++..+++...|...+++....+. . | ...-|++|++.||+|||||++||+||.||||||.
T Consensus 101 ~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCi 180 (341)
T KOG1312|consen 101 LILPYLLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHCI 180 (341)
T ss_pred HHHHHHHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccceE
Confidence 4555566677778888888888776433221 1 1 2356999999999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeee-eecCcchhHHHHhhhcCCCCCc-----hhH----HHHHHH
Q 005293 186 WLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRC-FVNKKSMETEIIDRLGDGFSRA-----PFA----TVVAIC 255 (704)
Q Consensus 186 WLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~-f~~~~~~~~~i~~~Lg~~~s~~-----~f~----ivvvl~ 255 (704)
|+|||||.+|+|||++|+++....+.+++ +.+..+... ..+.. .....+...+... .+. .+.-..
T Consensus 181 WiNNCIG~~N~ryF~lFLL~~i~l~~yai-vrlgfi~ln~~sdl~----q~v~ilt~~~g~~ks~~~L~~yl~la~~~~v 255 (341)
T KOG1312|consen 181 WINNCIGAWNIRYFLLFLLTLISLATYAI-VRLGFIVLNVMSDLY----QEVYILTLGHGHVKSTVFLIQYLFLAFPRIV 255 (341)
T ss_pred eeecccccchHHHHHHHHHHHHHHHHHHH-HHHHheehhhccccc----hheeeeeeeecchhhHHHHHHHHHHHhccce
Confidence 99999999999999999988755555543 222222110 00000 0000000001000 000 000011
Q ss_pred HHHHHhH-HHHHHHHHHHHHHHHhcCcchHHHHHHH
Q 005293 256 TAVSMLA-CIPLGELFFFHMILIRKGITTYEYVVAM 290 (704)
Q Consensus 256 ~lLsll~-~i~Lg~Lf~fHLyLI~~N~TTyE~l~~~ 290 (704)
++++++. .-++++..++-+|+-.+|+||.|+....
T Consensus 256 ~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~d 291 (341)
T KOG1312|consen 256 FMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRGD 291 (341)
T ss_pred eeeehhhhhhHhHHHHHHHHHHHhccCCchhhhccc
Confidence 1122221 2346777888899999999999997663
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.82 E-value=6.8e-21 Score=212.96 Aligned_cols=66 Identities=38% Similarity=0.765 Sum_probs=58.3
Q ss_pred cccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 005293 154 LFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIA 219 (704)
Q Consensus 154 ~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~ 219 (704)
+||.+|-+.||.|||||++|||||.+|||||||++||||.+|+++|+.|++.....+.+.+..+++
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~ 486 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLY 486 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999999999999999999988766655554444443
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=95.06 E-value=0.16 Score=49.04 Aligned_cols=52 Identities=23% Similarity=0.608 Sum_probs=41.3
Q ss_pred ccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHH
Q 005293 151 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIE 213 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~ 213 (704)
.+.+.|..|+.-+..+-|||..-+.||.+.-| +.|-.|++++...+++.++.
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 67899999999999999999999999998754 46667877666555554443
No 10
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=93.26 E-value=0.76 Score=49.97 Aligned_cols=127 Identities=17% Similarity=0.241 Sum_probs=77.4
Q ss_pred CccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhheeeeeeecCc
Q 005293 150 GDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIAVLVRCFVNKK 229 (704)
Q Consensus 150 ~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~vL~~~f~~~~ 229 (704)
.++.+.|+.|+.=....=|||.-=|+||-+.- ++=+-.|++++.+..+..++.....+..+...-.+..
T Consensus 120 P~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N-----------~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (309)
T COG5273 120 PPRSHHCSICNRCVLKFDHHCPWINNCVGFRN-----------YRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTS 188 (309)
T ss_pred CCCCccchhhcchhhccCccCcccccccCcch-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChH
Confidence 37899999999999999999999999999764 4678889888866655555544444444432222111
Q ss_pred ch-hHHHHhhhcCCCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHHHHHhh
Q 005293 230 SM-ETEIIDRLGDGFSRAPFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYVVAMRA 292 (704)
Q Consensus 230 ~~-~~~i~~~Lg~~~s~~~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l~~~R~ 292 (704)
.. ...+.. ... .....++.+..++......++..+..+..+.+.++.++-|...-.|.
T Consensus 189 ~~~~~li~~--~~~---~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~ 247 (309)
T COG5273 189 LAICFLIFG--CSL---LGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRE 247 (309)
T ss_pred HHHHHHHHh--hhH---HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhcc
Confidence 11 222221 000 00001111222222233345557788889999999999998665554
No 11
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=85.04 E-value=3.7 Score=43.80 Aligned_cols=36 Identities=25% Similarity=0.542 Sum_probs=26.0
Q ss_pred ccccccccccccccCCCcCCccCCccccCCCccccc
Q 005293 151 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRW 186 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpW 186 (704)
.+.+-|+.|+.=+..+=|||.--|.||-+.-|=...
T Consensus 125 pRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~ 160 (299)
T KOG1311|consen 125 PRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFV 160 (299)
T ss_pred CCcccchhhcccccccCCCCCCccceECCCchHHHH
Confidence 466678888777777788888888888877654433
No 12
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=69.47 E-value=2.5 Score=34.38 Aligned_cols=25 Identities=28% Similarity=0.570 Sum_probs=22.5
Q ss_pred ccccccccccccccCCCcCCccCCc
Q 005293 151 DDALFCTLCNAEVRRFSKHCRSCDK 175 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsvCnr 175 (704)
-...+|..|.+.-|+||..|+.|+.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 4567899999999999999998885
No 13
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=68.33 E-value=2.1 Score=47.41 Aligned_cols=45 Identities=24% Similarity=0.561 Sum_probs=37.0
Q ss_pred ccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHH
Q 005293 151 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAIS 206 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~ 206 (704)
.+.+-|++|+.=+-.=-|||.--+.||--. | +.-+-+|++|.+..
T Consensus 103 pRSHHCrkCnrCvmkMDHHCPWinnCVG~a-------N----h~~F~~FLlf~ivG 147 (414)
T KOG1314|consen 103 PRSHHCRKCNRCVMKMDHHCPWINNCVGWA-------N----HAYFLRFLLFSIVG 147 (414)
T ss_pred CccccchHHHHHHHhhccCCcchhhccccc-------c----cHHHHHHHHHHHHh
Confidence 577889999998888999999999999743 3 35678898887763
No 14
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=65.46 E-value=2.5 Score=49.62 Aligned_cols=58 Identities=10% Similarity=0.066 Sum_probs=47.7
Q ss_pred ccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHH-HHHHHHHHHHHH
Q 005293 153 ALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTF-ISLMAISLVWLV 211 (704)
Q Consensus 153 ~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyF-LlFL~~~lL~li 211 (704)
...|..|....+.+..+|..|-.|+..|++||+|+. ||+..|...| +.|+++.+++++
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~~~~ 383 (600)
T KOG0509|consen 325 TCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLAYFI 383 (600)
T ss_pred heeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHHHHH
Confidence 446999999999999999999999999999999999 9999997655 445554444433
No 15
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=63.27 E-value=3.8 Score=28.30 Aligned_cols=21 Identities=33% Similarity=0.915 Sum_probs=18.7
Q ss_pred ccccccccccCCCcCCccCCc
Q 005293 155 FCTLCNAEVRRFSKHCRSCDK 175 (704)
Q Consensus 155 fC~tC~~~KPpRShHCsvCnr 175 (704)
||..|....++.++.|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 699999999999999999875
No 16
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=61.17 E-value=36 Score=37.43 Aligned_cols=59 Identities=22% Similarity=0.509 Sum_probs=43.1
Q ss_pred CccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 005293 150 GDDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAGVGIA 219 (704)
Q Consensus 150 ~~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~vgi~ 219 (704)
.++.+-|+.|+.=.-+.=|||..-++||.-.+ .+=+-.|+.+.+...++.++.....+.
T Consensus 120 PdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~N-----------yKfF~lfl~y~~l~~~~~lv~~~~~~~ 178 (307)
T KOG1315|consen 120 PDRAHHCSVCNRCVLKMDHHCPWINNCVGFRN-----------YKFFLLFLFYTNLYSIYVLVTTLIGFT 178 (307)
T ss_pred CCccccchhhhhhhhccccCCcceeceecccc-----------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999888899999999999998543 466777887776655554444333333
No 17
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=54.51 E-value=7.2 Score=47.21 Aligned_cols=23 Identities=30% Similarity=0.652 Sum_probs=18.9
Q ss_pred cccccccccccc-------CCCcCCccCCc
Q 005293 153 ALFCTLCNAEVR-------RFSKHCRSCDK 175 (704)
Q Consensus 153 ~~fC~tC~~~KP-------pRShHCsvCnr 175 (704)
...|..|+..-. .|-||||.||+
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCcc
Confidence 467999987664 38999999988
No 18
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=51.04 E-value=38 Score=36.89 Aligned_cols=54 Identities=20% Similarity=0.557 Sum_probs=43.9
Q ss_pred ccccccccccccccCCCcCCccCCccccCCCcccccccccccchhHHHHHHHHHHHHHHHHHHHH
Q 005293 151 DDALFCTLCNAEVRRFSKHCRSCDKCVDGFDHHCRWLNNCVGHKNYVTFISLMAISLVWLVIEAG 215 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHHCpWLgNCVG~rNyRyFLlFL~~~lL~li~~~~ 215 (704)
...+-|+.|+.=+-.=-|||..-|.||--..| +-+-.|+.++..++.++.++..
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 56778999998888889999999999997655 5677899988887777777643
No 19
>PF12773 DZR: Double zinc ribbon
Probab=50.61 E-value=14 Score=29.01 Aligned_cols=36 Identities=28% Similarity=0.541 Sum_probs=26.5
Q ss_pred cccccccccccccc---CCCcCCccCCccccCCCccccc
Q 005293 151 DDALFCTLCNAEVR---RFSKHCRSCDKCVDGFDHHCRW 186 (704)
Q Consensus 151 ~~~~fC~tC~~~KP---pRShHCsvCnrCVlrfDHHCpW 186 (704)
+..+||..|....+ ...+.|..|+.=+...+.+|++
T Consensus 10 ~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 10 DDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 55778888877776 3466788888877777777765
No 20
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=48.32 E-value=9.4 Score=26.84 Aligned_cols=22 Identities=36% Similarity=0.917 Sum_probs=18.6
Q ss_pred cccccccccccCCCcCCccCCc
Q 005293 154 LFCTLCNAEVRRFSKHCRSCDK 175 (704)
Q Consensus 154 ~fC~tC~~~KPpRShHCsvCnr 175 (704)
.+|..|....++.++.|..|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5799999888888999988874
No 21
>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=47.98 E-value=10 Score=31.45 Aligned_cols=26 Identities=27% Similarity=0.703 Sum_probs=17.9
Q ss_pred ccccccccccccccCCCcCCcc--CCcc
Q 005293 151 DDALFCTLCNAEVRRFSKHCRS--CDKC 176 (704)
Q Consensus 151 ~~~~fC~tC~~~KPpRShHCsv--CnrC 176 (704)
-+...|..|.+.-|+||..|+. ||.+
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 22
>PF15232 DUF4585: Domain of unknown function (DUF4585)
Probab=47.18 E-value=18 Score=32.15 Aligned_cols=20 Identities=40% Similarity=0.730 Sum_probs=16.9
Q ss_pred cccceeeccCCCceeeeccc
Q 005293 564 KRTSVVWDQEAGRYVSVPIS 583 (704)
Q Consensus 564 ~r~sv~wd~~agr~vs~~~~ 583 (704)
-|+-..+|+|.|.||-|+.+
T Consensus 28 p~~k~lfDPETGqYVeV~iP 47 (75)
T PF15232_consen 28 PKTKTLFDPETGQYVEVLIP 47 (75)
T ss_pred cceeeeecCCCCcEEEEeCC
Confidence 35778999999999999764
No 23
>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=41.67 E-value=16 Score=30.57 Aligned_cols=15 Identities=40% Similarity=0.893 Sum_probs=12.6
Q ss_pred ceeeccCCCceeeec
Q 005293 567 SVVWDQEAGRYVSVP 581 (704)
Q Consensus 567 sv~wd~~agr~vs~~ 581 (704)
..+||+|||-||+-.
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 24
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=40.17 E-value=7.3 Score=31.93 Aligned_cols=24 Identities=25% Similarity=0.599 Sum_probs=21.2
Q ss_pred cccccccccccccCCCcCCccCCc
Q 005293 152 DALFCTLCNAEVRRFSKHCRSCDK 175 (704)
Q Consensus 152 ~~~fC~tC~~~KPpRShHCsvCnr 175 (704)
...+|..|++.-|+++.-|+.|+-
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 456899999999999999998864
No 25
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=39.77 E-value=9 Score=43.79 Aligned_cols=28 Identities=29% Similarity=0.726 Sum_probs=21.1
Q ss_pred ccccccccccccc--cCCCcCCccCCcccc
Q 005293 151 DDALFCTLCNAEV--RRFSKHCRSCDKCVD 178 (704)
Q Consensus 151 ~~~~fC~tC~~~K--PpRShHCsvCnrCVl 178 (704)
....||..|...= --|-|||+.||+-+-
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 4567999997443 458999999999543
No 26
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=37.73 E-value=86 Score=28.79 Aligned_cols=38 Identities=26% Similarity=0.377 Sum_probs=23.4
Q ss_pred hhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCcchHHHH
Q 005293 247 PFATVVAICTAVSMLACIPLGELFFFHMILIRKGITTYEYV 287 (704)
Q Consensus 247 ~f~ivvvl~~lLsll~~i~Lg~Lf~fHLyLI~~N~TTyE~l 287 (704)
++..+..++++++++ .+.++++|.+|--+++.+++|++
T Consensus 44 ~wRalSii~FIlG~v---l~lGilifs~y~~C~~~~~~~r~ 81 (91)
T PHA02680 44 VWRALSVTCFIVGAV---LLLGLFVFSMYRKCSGSMPYERL 81 (91)
T ss_pred hHHHHHHHHHHHHHH---HHHHHHHHHHhcccCCCceeecc
Confidence 344455566666653 33457788888766777777654
No 27
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=36.53 E-value=1.7e+02 Score=33.54 Aligned_cols=32 Identities=16% Similarity=0.200 Sum_probs=22.8
Q ss_pred cccccccccccccCCCcCCccCCccccCCCcc
Q 005293 152 DALFCTLCNAEVRRFSKHCRSCDKCVDGFDHH 183 (704)
Q Consensus 152 ~~~fC~tC~~~KPpRShHCsvCnrCVlrfDHH 183 (704)
...-|..|+...+....||..|+.-..+..++
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 45569999988776666788887776555444
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=36.28 E-value=19 Score=25.68 Aligned_cols=22 Identities=36% Similarity=0.706 Sum_probs=18.9
Q ss_pred cccccccccccCCCcCCccCCc
Q 005293 154 LFCTLCNAEVRRFSKHCRSCDK 175 (704)
Q Consensus 154 ~fC~tC~~~KPpRShHCsvCnr 175 (704)
+.|..|...+|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 3599999999999999988874
No 29
>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=34.86 E-value=17 Score=30.44 Aligned_cols=28 Identities=32% Similarity=0.752 Sum_probs=13.8
Q ss_pred ccccccccccccc--cCCCcCCccCCcccc
Q 005293 151 DDALFCTLCNAEV--RRFSKHCRSCDKCVD 178 (704)
Q Consensus 151 ~~~~fC~tC~~~K--PpRShHCsvCnrCVl 178 (704)
.+...|..|...= -.|-|||+.||+.|=
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 4567788886433 468899999998654
No 30
>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=33.81 E-value=71 Score=34.37 Aligned_cols=53 Identities=23% Similarity=0.473 Sum_probs=28.6
Q ss_pred cccccccccccc----cC-CCc-CCccCCccccCCCcccccccccccc-hhHHHHHHHHHHHHHHHHHHHHH
Q 005293 152 DALFCTLCNAEV----RR-FSK-HCRSCDKCVDGFDHHCRWLNNCVGH-KNYVTFISLMAISLVWLVIEAGV 216 (704)
Q Consensus 152 ~~~fC~tC~~~K----Pp-RSh-HCsvCnrCVlrfDHHCpWLgNCVG~-rNyRyFLlFL~~~lL~li~~~~v 216 (704)
-...|..|+..= +. ++- +|..|+|- .=||. ...+..++|++++++++++.+++
T Consensus 156 ~rv~CghC~~~Fl~~~~~~~tlARCPHCrKv------------SSVG~~faRkR~i~f~llgllfliiaigl 215 (256)
T PF09788_consen 156 CRVICGHCSNTFLFNTLTSNTLARCPHCRKV------------SSVGPRFARKRAIIFFLLGLLFLIIAIGL 215 (256)
T ss_pred eeEECCCCCCcEeccCCCCCccccCCCCcee------------ccccchHhhhHHHHHHHHHHHHHHHHHHH
Confidence 345688885321 11 222 56655552 23664 45666676766666666665443
No 31
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=33.57 E-value=59 Score=34.59 Aligned_cols=31 Identities=19% Similarity=0.307 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccCCCCccc
Q 005293 18 LLLIHQWYALLVFILYVRCTAINPADPGIMS 48 (704)
Q Consensus 18 ~~~lY~~l~~~V~~lYiRc~~~~paDPGi~~ 48 (704)
++++-+.++|+++.||-=|.-.||.+|--.+
T Consensus 196 aliVitl~vf~LvgLyr~C~k~dPg~p~~g~ 226 (259)
T PF07010_consen 196 ALIVITLSVFTLVGLYRMCWKTDPGTPENGP 226 (259)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCcccCC
Confidence 3444577888889999999999888875444
No 32
>PF12773 DZR: Double zinc ribbon
Probab=28.10 E-value=39 Score=26.55 Aligned_cols=25 Identities=28% Similarity=0.623 Sum_probs=22.2
Q ss_pred CccccccccccccccCCCcCCccCC
Q 005293 150 GDDALFCTLCNAEVRRFSKHCRSCD 174 (704)
Q Consensus 150 ~~~~~fC~tC~~~KPpRShHCsvCn 174 (704)
.....+|..|....++.++.|..|+
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 3567899999999999999999986
No 33
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=27.30 E-value=27 Score=37.19 Aligned_cols=12 Identities=25% Similarity=0.080 Sum_probs=10.0
Q ss_pred ccCCCccccccc
Q 005293 177 VDGFDHHCRWLN 188 (704)
Q Consensus 177 VlrfDHHCpWLg 188 (704)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 567899999985
No 34
>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=25.05 E-value=44 Score=38.81 Aligned_cols=44 Identities=32% Similarity=0.685 Sum_probs=32.6
Q ss_pred ccccccccccccccC--------CCc-CCccCCccccC-----CCc---------------------ccccccccccch
Q 005293 151 DDALFCTLCNAEVRR--------FSK-HCRSCDKCVDG-----FDH---------------------HCRWLNNCVGHK 194 (704)
Q Consensus 151 ~~~~fC~tC~~~KPp--------RSh-HCsvCnrCVlr-----fDH---------------------HCpWLgNCVG~r 194 (704)
-...||..|-...|. |+. +|-.|-.|..- -|+ ||.|.-..||..
T Consensus 24 i~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~~~~~~~~~~~~~~~~~~~~~l~C~~C~Wss~~igi~ 102 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRASDTPPSPPDPSSDSGGKPYYLSCSYCRWSSRDIGIK 102 (483)
T ss_pred cceeECccccccCChhhheeccceeccccccCCCCCCcceeEecccccccccccccCCCCCEEEECCCceeeccccCcc
Confidence 568899999877763 654 88888888542 343 788888888875
No 35
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=24.31 E-value=3.5e+02 Score=31.04 Aligned_cols=29 Identities=17% Similarity=0.389 Sum_probs=16.7
Q ss_pred ccccccccccc--c----CCCcCCccCCccccCCC
Q 005293 153 ALFCTLCNAEV--R----RFSKHCRSCDKCVDGFD 181 (704)
Q Consensus 153 ~~fC~tC~~~K--P----pRShHCsvCnrCVlrfD 181 (704)
..-|..|+... | ...-||..|+.-..+.+
T Consensus 10 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~ 44 (419)
T PRK15103 10 HILCPQCDMLVALPRLEHGQKAACPRCGTTLTVRW 44 (419)
T ss_pred cccCCCCCceeecCCCCCCCeeECCCCCCCCcCCC
Confidence 35599998643 2 22345666666555443
No 36
>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 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=23.62 E-value=4e+02 Score=30.42 Aligned_cols=32 Identities=16% Similarity=0.347 Sum_probs=19.1
Q ss_pred cccccccccccc--c----CCCcCCccCCccccCCCcc
Q 005293 152 DALFCTLCNAEV--R----RFSKHCRSCDKCVDGFDHH 183 (704)
Q Consensus 152 ~~~fC~tC~~~K--P----pRShHCsvCnrCVlrfDHH 183 (704)
+..-|..|+... | ...-||..|+.-..+.+++
T Consensus 12 ~~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 49 (403)
T TIGR00155 12 KHILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDW 49 (403)
T ss_pred CeeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCC
Confidence 345599998544 2 2234577777766655444
No 38
>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=22.99 E-value=2.8e+02 Score=31.51 Aligned_cols=16 Identities=31% Similarity=1.138 Sum_probs=13.6
Q ss_pred CcCCccCCccccCCCccccc
Q 005293 167 SKHCRSCDKCVDGFDHHCRW 186 (704)
Q Consensus 167 ShHCsvCnrCVlrfDHHCpW 186 (704)
+..|..|+.| +|+||.
T Consensus 47 a~lChnC~~C----~~~CPy 62 (372)
T TIGR02484 47 AHLCHDCQSC----WHDCQY 62 (372)
T ss_pred HHHCcCcccc----cccCcC
Confidence 5789999999 579998
No 39
>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=22.55 E-value=93 Score=26.47 Aligned_cols=16 Identities=19% Similarity=0.683 Sum_probs=7.8
Q ss_pred ccccccccccCCCcCC
Q 005293 155 FCTLCNAEVRRFSKHC 170 (704)
Q Consensus 155 fC~tC~~~KPpRShHC 170 (704)
-|..|....|+--..|
T Consensus 5 HC~~CG~~Ip~~~~fC 20 (59)
T PF09889_consen 5 HCPVCGKPIPPDESFC 20 (59)
T ss_pred cCCcCCCcCCcchhhh
Confidence 3555554444444444
No 40
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=22.50 E-value=64 Score=30.61 Aligned_cols=30 Identities=20% Similarity=0.218 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccCCCCccc
Q 005293 18 LLLIHQWYALLVFILYVRCTAINPADPGIMS 48 (704)
Q Consensus 18 ~~~lY~~l~~~V~~lYiRc~~~~paDPGi~~ 48 (704)
|++|+.++||++|+++++...-.-.- |+-+
T Consensus 4 l~~iii~~i~l~~~~~~~~~rRR~r~-G~~P 33 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHNRRRRRR-GLQP 33 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHhhc-CCCC
Confidence 45555666666666666655544333 5544
No 41
>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=21.57 E-value=1.7e+02 Score=30.70 Aligned_cols=9 Identities=33% Similarity=0.508 Sum_probs=5.8
Q ss_pred CccccCCCc
Q 005293 174 DKCVDGFDH 182 (704)
Q Consensus 174 nrCVlrfDH 182 (704)
.+|+.|||+
T Consensus 65 ~~C~ykFd~ 73 (211)
T PF07062_consen 65 LHCTYKFDY 73 (211)
T ss_pred ceEEEEcCc
Confidence 456777774
No 42
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=21.29 E-value=4.8e+02 Score=23.39 Aligned_cols=19 Identities=11% Similarity=-0.172 Sum_probs=13.8
Q ss_pred HHhcCcchHHHHHHHhhhc
Q 005293 276 LIRKGITTYEYVVAMRAMS 294 (704)
Q Consensus 276 LI~~N~TTyE~l~~~R~~~ 294 (704)
....+++|-|.++..+...
T Consensus 77 ~W~~~r~tae~lk~e~~~~ 95 (112)
T PF14015_consen 77 RWIRYRATAESLKREKWLY 95 (112)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3467889999988766543
No 43
>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=21.17 E-value=78 Score=28.37 Aligned_cols=27 Identities=22% Similarity=0.378 Sum_probs=15.8
Q ss_pred cccchhhHHHHHHHHHHHHHHHhhhhhccc
Q 005293 11 TSGNMLCLLLIHQWYALLVFILYVRCTAIN 40 (704)
Q Consensus 11 ~~G~~ia~~~lY~~l~~~V~~lYiRc~~~~ 40 (704)
+-|+++|++++ |.+...+|-|||+-|-
T Consensus 26 eqkt~faFV~~---L~~fL~~liVRCfrIl 52 (81)
T PF11057_consen 26 EQKTAFAFVGL---LCLFLGLLIVRCFRIL 52 (81)
T ss_pred ccceeehHHHH---HHHHHHHHHHHHHHHH
Confidence 34555665554 3334456678999763
No 44
>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=20.51 E-value=7.3e+02 Score=28.35 Aligned_cols=32 Identities=13% Similarity=0.293 Sum_probs=19.9
Q ss_pred ccccccccccc-ccCCCcCCccCCccccCCCcc
Q 005293 152 DALFCTLCNAE-VRRFSKHCRSCDKCVDGFDHH 183 (704)
Q Consensus 152 ~~~fC~tC~~~-KPpRShHCsvCnrCVlrfDHH 183 (704)
...-|..|+.. .+....||..|+.-..+..++
T Consensus 214 ~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 214 KLRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 45569999974 344455677777766554443
No 45
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.49 E-value=44 Score=38.01 Aligned_cols=30 Identities=17% Similarity=0.455 Sum_probs=24.6
Q ss_pred ccccccccccccCCCcCCccCCccccCCCc
Q 005293 153 ALFCTLCNAEVRRFSKHCRSCDKCVDGFDH 182 (704)
Q Consensus 153 ~~fC~tC~~~KPpRShHCsvCnrCVlrfDH 182 (704)
++||..|...+-..+..|..||.=+-.+--
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~t~~~s 30 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKFTSRQS 30 (465)
T ss_pred CCcccccccccccccccccccCCcCCchhh
Confidence 579999999999999999999986665443
Done!