Query 021625
Match_columns 310
No_of_seqs 224 out of 1579
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 04:26:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1315 Predicted DHHC-type Zn 100.0 1.6E-43 3.6E-48 324.2 12.4 225 64-304 7-257 (307)
2 KOG1314 DHHC-type Zn-finger pr 100.0 1.3E-41 2.9E-46 308.0 11.2 235 66-305 8-263 (414)
3 PF01529 zf-DHHC: DHHC palmito 100.0 8.4E-40 1.8E-44 280.6 11.8 157 117-273 2-174 (174)
4 KOG1311 DHHC-type Zn-finger pr 100.0 1.1E-38 2.4E-43 296.5 16.9 169 125-301 79-262 (299)
5 KOG1313 DHHC-type Zn-finger pr 100.0 2.7E-36 5.9E-41 265.8 11.7 175 115-304 81-275 (309)
6 COG5273 Uncharacterized protei 100.0 5.1E-35 1.1E-39 271.3 17.0 188 87-276 41-236 (309)
7 KOG0509 Ankyrin repeat and DHH 100.0 6.5E-32 1.4E-36 262.0 15.5 213 82-301 346-581 (600)
8 KOG1312 DHHC-type Zn-finger pr 100.0 5.8E-30 1.3E-34 226.9 8.4 105 110-215 106-215 (341)
9 COG5273 Uncharacterized protei 95.0 0.094 2E-06 49.2 7.7 148 143-301 119-276 (309)
10 PF01529 zf-DHHC: DHHC palmito 93.1 1.4 3.1E-05 37.1 10.8 53 143-206 58-110 (174)
11 KOG1311 DHHC-type Zn-finger pr 89.4 1.3 2.9E-05 41.1 7.3 42 160-201 112-164 (299)
12 PF13240 zinc_ribbon_2: zinc-r 87.4 0.35 7.7E-06 27.1 1.3 21 149-169 1-21 (23)
13 PF13248 zf-ribbon_3: zinc-rib 84.5 0.62 1.3E-05 26.9 1.4 22 148-169 3-24 (26)
14 PRK04136 rpl40e 50S ribosomal 81.5 0.85 1.9E-05 30.3 1.2 25 145-169 12-36 (48)
15 PF06906 DUF1272: Protein of u 81.0 0.6 1.3E-05 32.1 0.4 36 149-187 7-50 (57)
16 PTZ00303 phosphatidylinositol 79.2 1.2 2.7E-05 46.1 2.1 22 148-169 461-489 (1374)
17 PF10571 UPF0547: Uncharacteri 74.7 2.1 4.5E-05 24.8 1.4 22 148-169 1-22 (26)
18 KOG1314 DHHC-type Zn-finger pr 73.5 87 0.0019 30.0 13.0 70 119-199 70-146 (414)
19 PF12773 DZR: Double zinc ribb 62.6 5.9 0.00013 26.2 1.9 33 147-179 12-47 (50)
20 KOG0509 Ankyrin repeat and DHH 61.1 3.3 7.2E-05 41.9 0.6 81 116-198 291-375 (600)
21 PF01363 FYVE: FYVE zinc finge 61.1 4.5 9.7E-05 28.7 1.1 26 147-172 9-36 (69)
22 COG1552 RPL40A Ribosomal prote 59.5 1.9 4E-05 28.8 -1.0 24 146-169 13-36 (50)
23 PF12773 DZR: Double zinc ribb 59.1 8.5 0.00018 25.4 2.2 25 144-168 26-50 (50)
24 PF07010 Endomucin: Endomucin; 56.4 17 0.00037 32.4 4.1 28 108-135 200-227 (259)
25 KOG3814 Signaling protein van 53.5 86 0.0019 30.4 8.5 24 18-42 116-139 (531)
26 COG0348 NapH Polyferredoxin [E 53.2 1.2E+02 0.0027 29.2 10.0 14 163-176 246-259 (386)
27 smart00064 FYVE Protein presen 52.0 12 0.00025 26.4 2.1 25 147-171 10-36 (68)
28 KOG1842 FYVE finger-containing 49.8 5.6 0.00012 38.8 0.1 29 143-171 176-206 (505)
29 PF01020 Ribosomal_L40e: Ribos 49.2 5.8 0.00013 26.9 0.1 24 147-170 17-42 (52)
30 PF00641 zf-RanBP: Zn-finger i 46.9 6.9 0.00015 23.1 0.1 21 149-169 6-26 (30)
31 COG2995 PqiA Uncharacterized p 46.2 95 0.0021 30.2 7.6 29 142-170 215-244 (418)
32 KOG3183 Predicted Zn-finger pr 39.8 12 0.00026 33.6 0.6 13 170-182 37-49 (250)
33 COG2093 DNA-directed RNA polym 38.8 16 0.00034 25.8 0.9 23 147-169 4-26 (64)
34 PF07649 C1_3: C1-like domain; 35.5 18 0.0004 21.2 0.8 21 149-169 2-23 (30)
35 TIGR00155 pqiA_fam integral me 34.2 4.5E+02 0.0098 25.6 17.6 33 147-179 215-248 (403)
36 PF05052 MerE: MerE protein; 32.7 2E+02 0.0043 21.0 5.8 40 26-65 33-72 (75)
37 PF03107 C1_2: C1 domain; Int 29.9 43 0.00094 19.7 1.7 20 149-168 2-22 (30)
38 KOG1819 FYVE finger-containing 29.8 19 0.00041 35.8 0.2 22 148-169 902-925 (990)
39 PF09297 zf-NADH-PPase: NADH p 29.6 34 0.00074 20.4 1.3 23 147-169 3-29 (32)
40 PF09889 DUF2116: Uncharacteri 28.7 24 0.00051 24.7 0.5 23 147-169 3-26 (59)
41 KOG2927 Membrane component of 27.5 80 0.0017 30.2 3.9 16 14-30 186-201 (372)
42 PF02077 SURF4: SURF4 family; 27.3 4.9E+02 0.011 23.9 11.6 111 8-133 149-261 (267)
43 smart00661 RPOL9 RNA polymeras 27.2 43 0.00093 22.0 1.6 22 148-169 1-28 (52)
44 KOG1729 FYVE finger containing 27.0 22 0.00048 33.1 0.1 27 147-173 168-197 (288)
45 PF08600 Rsm1: Rsm1-like; Int 26.7 34 0.00073 26.0 1.1 13 174-186 54-66 (91)
46 PF07282 OrfB_Zn_ribbon: Putat 26.1 62 0.0014 22.7 2.4 25 146-170 27-55 (69)
47 KOG1313 DHHC-type Zn-finger pr 25.9 3.5E+02 0.0076 25.1 7.5 50 144-204 113-162 (309)
48 PRK14559 putative protein seri 25.7 67 0.0014 33.4 3.3 17 163-179 29-45 (645)
49 PRK00432 30S ribosomal protein 25.5 48 0.001 22.2 1.6 24 146-169 19-45 (50)
50 cd00065 FYVE FYVE domain; Zinc 25.3 32 0.00069 23.1 0.7 24 148-171 3-28 (57)
51 KOG1398 Uncharacterized conser 24.9 30 0.00065 33.4 0.6 29 157-191 10-38 (460)
52 PF02150 RNA_POL_M_15KD: RNA p 24.6 21 0.00044 22.1 -0.4 8 148-155 2-9 (35)
53 KOG3611 Semaphorins [Signal tr 24.5 24 0.00051 37.2 -0.2 37 161-197 491-535 (737)
54 KOG1315 Predicted DHHC-type Zn 24.5 6E+02 0.013 23.9 10.0 48 143-201 119-166 (307)
55 smart00547 ZnF_RBZ Zinc finger 24.4 43 0.00093 18.7 1.0 21 149-169 4-24 (26)
56 PF11023 DUF2614: Protein of u 24.3 2.6E+02 0.0055 22.3 5.6 7 150-156 72-78 (114)
57 PRK03681 hypA hydrogenase nick 24.2 32 0.0007 27.2 0.6 24 146-169 69-95 (114)
58 smart00423 PSI domain found in 23.6 22 0.00047 23.0 -0.4 17 165-181 5-21 (46)
59 PRK15103 paraquat-inducible me 23.3 7.1E+02 0.015 24.4 23.0 33 147-179 221-253 (419)
60 PRK14559 putative protein seri 23.1 48 0.001 34.4 1.7 21 149-169 3-23 (645)
61 PF01437 PSI: Plexin repeat; 23.0 14 0.0003 24.6 -1.5 17 165-181 6-22 (51)
62 PF14015 DUF4231: Protein of u 21.1 3.8E+02 0.0081 20.3 7.8 20 259-278 77-96 (112)
63 PF13842 Tnp_zf-ribbon_2: DDE_ 21.0 75 0.0016 19.1 1.6 19 150-168 3-23 (32)
64 KOG4399 C2HC-type Zn-finger pr 20.9 14 0.0003 33.6 -2.3 19 158-176 288-306 (325)
65 KOG1841 Smad anchor for recept 20.8 41 0.00089 36.8 0.7 37 149-197 559-597 (1287)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.6e-43 Score=324.17 Aligned_cols=225 Identities=18% Similarity=0.223 Sum_probs=161.9
Q ss_pred HhHhHhhcccccchhHHHHHHHHHHHhhhhhhhccch--------hhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCC
Q 021625 64 CGWCRRLLGVCASAPAFVFFNILFIWGFYIAVVRQAV--------SSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFP 135 (310)
Q Consensus 64 ~~~~~~~~~~~~~~p~~v~~~~~~~~~~~~~v~~~~~--------~~~~~iif~~l~~~~~~~~~~~~~~dPG~vp~~~~ 135 (310)
.++++| | .|+ +++.....|.+|+++..... .....+.++.+.++..|+|++++++|||.+|..+.
T Consensus 7 ~~~~~r---~---~~~-~~i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~ 79 (307)
T KOG1315|consen 7 FSKCLR---W---IPV-LIILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYR 79 (307)
T ss_pred chhhhc---c---hhh-eeeeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccC
Confidence 345555 5 666 56667888888887776432 23466678899999999999999999999998754
Q ss_pred Cchhhh------------------cCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHH
Q 021625 136 HLDKLV------------------EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLL 197 (310)
Q Consensus 136 ~~~~~~------------------~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL 197 (310)
.+.++. ..++..++|++|+.+||+||||||.|+|||+||||||||+|||||.+|||+|++|+
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl 159 (307)
T KOG1315|consen 80 PSVEDEDSLENGSDNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFL 159 (307)
T ss_pred CCcCccccccccCcccccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHH
Confidence 332211 11235689999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCCcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhHHHhhhccCccc
Q 021625 198 VGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWKKYPE 277 (310)
Q Consensus 198 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~ll~~hl~lI~~n~TT~E~~~~~r~~~ 277 (310)
+|..+.+...+.............+ ....+.......+.++.+...++.+..++++|+++|++|+||+|..+.+.+..
T Consensus 160 ~y~~l~~~~~lv~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~ 237 (307)
T KOG1315|consen 160 FYTNLYSIYVLVTTLIGFTKYFQGG--AGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRS 237 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc--ccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccc
Confidence 9999977665554444444433221 11122112223334455666667777899999999999999999887553332
Q ss_pred cccccCCCCCCCCCHHHHHHHHHHhCc
Q 021625 278 FQVIESEPGKYFLQHAVVSKCKLFTLW 304 (310)
Q Consensus 278 ~~~~~~~~~~~~y~~G~~~N~~~f~~~ 304 (310)
. +.+++.+|. .+|++|.+++
T Consensus 238 ~-----~~~~~~~~~--~~n~~~vfg~ 257 (307)
T KOG1315|consen 238 G-----LHNKNGFNL--YVNFREVFGS 257 (307)
T ss_pred c-----ccccCCcce--eecHHHHhCC
Confidence 1 133444555 7788887554
No 2
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.3e-41 Score=307.95 Aligned_cols=235 Identities=14% Similarity=0.068 Sum_probs=163.4
Q ss_pred HhHhhcccccchhHHHHHHH-HHHH-hhhh---hhhcc--chhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCch
Q 021625 66 WCRRLLGVCASAPAFVFFNI-LFIW-GFYI---AVVRQ--AVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLD 138 (310)
Q Consensus 66 ~~~~~~~~~~~~p~~v~~~~-~~~~-~~~~---~v~~~--~~~~~~~iif~~l~~~~~~~~~~~~~~dPG~vp~~~~~~~ 138 (310)
..+|++.| .|+..+.++ ++++ ..|. ++.+. ..+...++.|.+...|.+++|+.+++++||++|.++.++.
T Consensus 8 ~~rr~~hw---Gpi~alsiit~i~~~~~~~n~lww~p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~ 84 (414)
T KOG1314|consen 8 KFRRFLHW---GPITALSIITIITSTTGYMNSLWWFPLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPEN 84 (414)
T ss_pred hhhheecc---ccHHHHHHHHHHHHHHHHhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Confidence 37889999 887654433 2222 2222 22221 2345578888889999999999999999999999976643
Q ss_pred hhhcCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHHHHH----HHHHHHH
Q 021625 139 KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASY----VACSAQF 214 (310)
Q Consensus 139 ~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~~~~----~~~~~~~ 214 (310)
. .++.-.++|.+|+.+|+||||||+.|||||.+|||||||+|||||..||.+|..||++..+++.-. ....+.-
T Consensus 85 ~--~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~ 162 (414)
T KOG1314|consen 85 P--KDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRG 162 (414)
T ss_pred C--hhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHH
Confidence 2 222345799999999999999999999999999999999999999999999999999988753211 1111111
Q ss_pred hhhhc----CCCC--CcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhHHHhhhcc----CccccccccCC
Q 021625 215 VGKSQ----NFDK--SQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWK----KYPEFQVIESE 284 (310)
Q Consensus 215 ~~~~~----~~~~--~~~~~~~~~~~~i~~~l~~~~~~l~~~~ll~~hl~lI~~n~TT~E~~~~~----r~~~~~~~~~~ 284 (310)
+...+ .... .........+..++.+-+++...+.++.|+..|+..|.+|+|.+|.+.-+ |.+++.....+
T Consensus 163 Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~ 242 (414)
T KOG1314|consen 163 IYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEG 242 (414)
T ss_pred HHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCC
Confidence 11111 1111 11122333444444556667778888999999999999999999987622 22222221123
Q ss_pred CCCCCCCHHHHHHHHHHhCcc
Q 021625 285 PGKYFLQHAVVSKCKLFTLWL 305 (310)
Q Consensus 285 ~~~~~y~~G~~~N~~~f~~~~ 305 (310)
+=.+|||.|++.|.++++.+.
T Consensus 243 ~f~ypydlgWr~n~r~vf~~~ 263 (414)
T KOG1314|consen 243 EFTYPYDLGWRINLREVFFQN 263 (414)
T ss_pred ceeeeccccccccHHHHhhhc
Confidence 346789999999999986654
No 3
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=100.00 E-value=8.4e-40 Score=280.63 Aligned_cols=157 Identities=20% Similarity=0.301 Sum_probs=117.6
Q ss_pred HHHHHHHhcCCCCCCCCCCCch----------------hhhcCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccc
Q 021625 117 IGLCSIMSKDPGLITNEFPHLD----------------KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPA 180 (310)
Q Consensus 117 ~~~~~~~~~dPG~vp~~~~~~~----------------~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~W 180 (310)
++|+++..+|||++|+....++ +..+.+...++|.+|+..||+|||||+.||+||.|+||||||
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w 81 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPW 81 (174)
T ss_pred EEehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchh
Confidence 5789999999999998811000 011223457899999999999999999999999999999999
Q ss_pred cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021625 181 FGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCV 260 (310)
Q Consensus 181 i~nCIG~~N~r~FilfL~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~ll~~hl~lI 260 (310)
+|||||++|||+|++|+++..++.+......+..+....................++.++++++..++++.++++|++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i 161 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLI 161 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999987766666544444333222211111111111124456667888889999999999999
Q ss_pred hcChhHHHhhhcc
Q 021625 261 CFNVRTDEWVNWK 273 (310)
Q Consensus 261 ~~n~TT~E~~~~~ 273 (310)
++|+||+|.+|+|
T Consensus 162 ~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 162 LRNITTYERIKRK 174 (174)
T ss_pred HcCCcHHHHHHcC
Confidence 9999999999754
No 4
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=1.1e-38 Score=296.53 Aligned_cols=169 Identities=20% Similarity=0.197 Sum_probs=119.8
Q ss_pred cCCCCCCCCCCCchhh---h---------cCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHH
Q 021625 125 KDPGLITNEFPHLDKL---V---------EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFL 192 (310)
Q Consensus 125 ~dPG~vp~~~~~~~~~---~---------~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~ 192 (310)
+|||.+|++.+...+. . ..+.+.++|++|+..||+|||||+.||+||.||||||||+|||||++|||+
T Consensus 79 sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~ 158 (299)
T KOG1311|consen 79 SDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRY 158 (299)
T ss_pred CCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHH
Confidence 4999999952111111 0 011246899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCc-C--CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhHHHh
Q 021625 193 FIVLLVGFLATEASYVACSAQFVGKSQNFDKSQ-S--ENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEW 269 (310)
Q Consensus 193 FilfL~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~i~~~l~~~~~~l~~~~ll~~hl~lI~~n~TT~E~ 269 (310)
|+.|+++..++...........+.......... . ..+......+.+.+++++.....+.++.+|++++.+|+||+|+
T Consensus 159 F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~ 238 (299)
T KOG1311|consen 159 FVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYES 238 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhh
Confidence 999999777655443333333322211111111 1 1222223344445678888888899999999999999999998
Q ss_pred hhccCccccccccCCCCCCCCCHHHHHHHHHH
Q 021625 270 VNWKKYPEFQVIESEPGKYFLQHAVVSKCKLF 301 (310)
Q Consensus 270 ~~~~r~~~~~~~~~~~~~~~y~~G~~~N~~~f 301 (310)
++. ++. ..+.++||+|.++|+++.
T Consensus 239 ~~~--~~~------~~~~~~~~~g~~~n~~~~ 262 (299)
T KOG1311|consen 239 IKS--LDF------VSRSNPYDLGLLKNLQEV 262 (299)
T ss_pred hhc--ccc------ccccCCCchhHHHHHHHH
Confidence 864 111 122468999999999976
No 5
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2.7e-36 Score=265.76 Aligned_cols=175 Identities=16% Similarity=0.140 Sum_probs=123.0
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCchhhhcCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHH
Q 021625 115 IIIGLCSIMSKDPGLITNEFPHLDKLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFI 194 (310)
Q Consensus 115 ~~~~~~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~Fi 194 (310)
..+.|+++..+.|--.| ..+...+|.+|+.+||||+||||.|||||+||||||||+|||||.+|||||+
T Consensus 81 vi~hy~ka~t~pPvgn~-----------~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFF 149 (309)
T KOG1313|consen 81 VIFHYYKARTKPPVGNP-----------GLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFF 149 (309)
T ss_pred HHHhheeecccCCcCCC-----------CCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHH
Confidence 34456777766651111 2234579999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCC--------CCCcCCchh----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021625 195 VLLVGFLATEASYVACSAQFVGKSQNF--------DKSQSENDW----------VVNLATSTMLFSILQLLWQAVFFMWH 256 (310)
Q Consensus 195 lfL~~~~l~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~----------~~~~~i~~~l~~~~~~l~~~~ll~~h 256 (310)
+|++|+.+++....+...+.+.+.... ++.....|- ...-.....+.+....+.++.+..+|
T Consensus 150 lFl~~ltlat~~~~i~~~~~w~~~le~~~~~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~ 229 (309)
T KOG1313|consen 150 LFLFYLTLATSYAAIMCVYTWIDHLEPIEEITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWH 229 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHhhcccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999998776655433333222211 110011110 00112224455666777888999999
Q ss_pred HHHHhcChhHHHhhhc--cCccccccccCCCCCCCCCHHHHHHHHHHhCc
Q 021625 257 IYCVCFNVRTDEWVNW--KKYPEFQVIESEPGKYFLQHAVVSKCKLFTLW 304 (310)
Q Consensus 257 l~lI~~n~TT~E~~~~--~r~~~~~~~~~~~~~~~y~~G~~~N~~~f~~~ 304 (310)
.++|.+|.|++|.... .+-++.+ ...++|+|.|.++|||+|++-
T Consensus 230 ~vlI~~G~tsi~~~~~~~e~k~~~a----~~R~~~~n~g~k~nWr~fLg~ 275 (309)
T KOG1313|consen 230 AVLISRGETSIEQLINIKERKRYLA----HLRSNPTNFGGKANWRNFLGL 275 (309)
T ss_pred heeeehhhhhHHHHHHHHHhHhHHH----hccCCCcccchHHHHHHhhcc
Confidence 9999999999998752 2222222 234789999999999999553
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=5.1e-35 Score=271.31 Aligned_cols=188 Identities=18% Similarity=0.293 Sum_probs=133.5
Q ss_pred HHHhhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCc--hh------hhcCCCCCCCCCCCCCCCC
Q 021625 87 FIWGFYIAVVRQAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHL--DK------LVEGSELGVDPDNENSLSR 158 (310)
Q Consensus 87 ~~~~~~~~v~~~~~~~~~~iif~~l~~~~~~~~~~~~~~dPG~vp~~~~~~--~~------~~~~~~~~~~C~~C~~~kP 158 (310)
..|.....+..........+.+.+...+....+++...+|||+.+++.... ++ +......+++|.+|+.+||
T Consensus 41 ~~~~~~~~~~~~~~~~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP 120 (309)
T COG5273 41 VVYTLLVIVKSLSLVVLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKP 120 (309)
T ss_pred HHHhhhheeeeccchhhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccC
Confidence 344433333233334455666777777888999999999999998552211 11 1223456899999999999
Q ss_pred CCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCcCCchhHHHHHHHH
Q 021625 159 KRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVVNLATST 238 (310)
Q Consensus 159 ~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 238 (310)
+|||||+.||+||+||||||||+|||||.+|||+|+.|+++....+...+.....++......... ...+...++...
T Consensus 121 ~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~li~~~ 198 (309)
T COG5273 121 PRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHD--TSLAICFLIFGC 198 (309)
T ss_pred CCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCC--hHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999876666655555555443322211 112212222223
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcChhHHHhhhccCcc
Q 021625 239 MLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWKKYP 276 (310)
Q Consensus 239 ~l~~~~~~l~~~~ll~~hl~lI~~n~TT~E~~~~~r~~ 276 (310)
..++...++.+..++.++.+++..|+||+|..+..|..
T Consensus 199 ~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~ 236 (309)
T COG5273 199 SLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGG 236 (309)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccce
Confidence 45555566777889999999999999999988754443
No 7
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.98 E-value=6.5e-32 Score=262.00 Aligned_cols=213 Identities=23% Similarity=0.379 Sum_probs=144.9
Q ss_pred HHHHHHHHhhhhhhhc--cchhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCchhhh----c--CCCCC-CCCCC
Q 021625 82 FFNILFIWGFYIAVVR--QAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLV----E--GSELG-VDPDN 152 (310)
Q Consensus 82 ~~~~~~~~~~~~~v~~--~~~~~~~~iif~~l~~~~~~~~~~~~~~dPG~vp~~~~~~~~~~----~--~~~~~-~~C~~ 152 (310)
+..+...|.++.|... +...+.....+.+..+..++++.+...+|||++|...+...+.- + +-..+ ++|.+
T Consensus 346 ~~~~~~fw~~~~w~~~i~~~~~~~~~~~~i~~~l~~~~~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~en~FC~~ 425 (600)
T KOG0509|consen 346 FFLSTLFWFYYFWFSKITPYTLFDFHYCFIISVLAYFITFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLENRFCLT 425 (600)
T ss_pred HHHHHHHHHHHhhheeccchhhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCchhhHHHHHHHhhccccccccccceee
Confidence 4456667777766551 22334455556666667777888888899999998876554321 1 11234 69999
Q ss_pred CCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCcCCchhHH
Q 021625 153 ENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSENDWVV 232 (310)
Q Consensus 153 C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (310)
|.++||.|||||+.|||||.||||||||++||||.+|||+|+.|++.....+.+++.....|+....... ..+..
T Consensus 426 clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~-----~~~~~ 500 (600)
T KOG0509|consen 426 CLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS-----TIYVG 500 (600)
T ss_pred eeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH-----HHHHH
Confidence 9999999999999999999999999999999999999999999999988877777765555543311100 11111
Q ss_pred HHHHHHHHHHH-------------HHHHHHHHHH-HHHHHHHhcChhHHHhhhccCccccccccCCCCCCCCCHHHHHHH
Q 021625 233 NLATSTMLFSI-------------LQLLWQAVFF-MWHIYCVCFNVRTDEWVNWKKYPEFQVIESEPGKYFLQHAVVSKC 298 (310)
Q Consensus 233 ~~~i~~~l~~~-------------~~~l~~~~ll-~~hl~lI~~n~TT~E~~~~~r~~~~~~~~~~~~~~~y~~G~~~N~ 298 (310)
.+.. +..+.. +.-.+..... ..|-..++.+.||+|.++.+|+++++..+ ...++|++.|+.+|+
T Consensus 501 ~l~~-~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~-~~~~~~~s~g~~~Nl 578 (600)
T KOG0509|consen 501 FLIA-VQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKR-GPTRSPFSPGPIRNL 578 (600)
T ss_pred HHHH-HHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhcccccc-CcCCCCCCchhhhcc
Confidence 1100 000000 0001222222 23334579999999999999999988633 335778999999999
Q ss_pred HHH
Q 021625 299 KLF 301 (310)
Q Consensus 299 ~~f 301 (310)
.||
T Consensus 579 ~df 581 (600)
T KOG0509|consen 579 VDF 581 (600)
T ss_pred hhe
Confidence 998
No 8
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.96 E-value=5.8e-30 Score=226.90 Aligned_cols=105 Identities=27% Similarity=0.442 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCCCCch-hhhcCC----CCCCCCCCCCCCCCCCcccccccCeEEecccccccccccc
Q 021625 110 IEVAMIIIGLCSIMSKDPGLITNEFPHLD-KLVEGS----ELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNC 184 (310)
Q Consensus 110 ~l~~~~~~~~~~~~~~dPG~vp~~~~~~~-~~~~~~----~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nC 184 (310)
...++-.++++.++.+|||.+.++..... +.-+.| .....|+||+..||.||||||.||+||.||||||.|+|||
T Consensus 106 l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNC 185 (341)
T KOG1312|consen 106 LLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNC 185 (341)
T ss_pred HHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccceEeeecc
Confidence 33445566788899999999987754322 111111 2347899999999999999999999999999999999999
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 021625 185 IGQNNYFLFIVLLVGFLATEASYVACSAQFV 215 (310)
Q Consensus 185 IG~~N~r~FilfL~~~~l~~~~~~~~~~~~~ 215 (310)
||++|.|||++|+.+... .+.+......++
T Consensus 186 IG~~N~ryF~lFLL~~i~-l~~yaivrlgfi 215 (341)
T KOG1312|consen 186 IGAWNIRYFLLFLLTLIS-LATYAIVRLGFI 215 (341)
T ss_pred cccchHHHHHHHHHHHHH-HHHHHHHHHHhe
Confidence 999999999999998843 455554444333
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=94.99 E-value=0.094 Score=49.20 Aligned_cols=148 Identities=12% Similarity=-0.021 Sum_probs=89.3
Q ss_pred CCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 021625 143 GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFD 222 (310)
Q Consensus 143 ~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~~~~~~~~~~~~~~~~~~~ 222 (310)
++.+.++|+.|+.=....-|||.-=|+||.+..| +=.-.|++++....+..................+.
T Consensus 119 KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 (309)
T COG5273 119 KPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDT 187 (309)
T ss_pred cCCCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCh
Confidence 4567899999999999999999999999998665 45667887775555444433332222221111111
Q ss_pred CCc------CCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhHHHhhhccCcc--ccccc-cCCCCCCCCCH
Q 021625 223 KSQ------SENDWVV-NLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVNWKKYP--EFQVI-ESEPGKYFLQH 292 (310)
Q Consensus 223 ~~~------~~~~~~~-~~~i~~~l~~~~~~l~~~~ll~~hl~lI~~n~TT~E~~~~~r~~--~~~~~-~~~~~~~~y~~ 292 (310)
... ....... .+.+...++...+..+.......+.+.+.++.++-|.....+.+ .++.. ++++...|++.
T Consensus 188 ~~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~ 267 (309)
T COG5273 188 SLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDL 267 (309)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCcccccccc
Confidence 111 1111111 12222333444455666677888899999999999987655544 12222 22345667888
Q ss_pred HHHHHHHHH
Q 021625 293 AVVSKCKLF 301 (310)
Q Consensus 293 G~~~N~~~f 301 (310)
|.-+|++..
T Consensus 268 ~~~~~~~~i 276 (309)
T COG5273 268 GIGQNLSTI 276 (309)
T ss_pred Cccccceee
Confidence 888887665
No 10
>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=93.14 E-value=1.4 Score=37.07 Aligned_cols=53 Identities=11% Similarity=0.037 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHHHH
Q 021625 143 GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEAS 206 (310)
Q Consensus 143 ~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~~~ 206 (310)
++.+.++|+.|+.-...+-|||.--|.||.+..| +.+=.|+.+.....+....
T Consensus 58 kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~ 110 (174)
T PF01529_consen 58 KPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFI 110 (174)
T ss_pred CCCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHH
Confidence 4456789999999999999999999999998776 3455676666544444443
No 11
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=89.39 E-value=1.3 Score=41.08 Aligned_cols=42 Identities=17% Similarity=0.414 Sum_probs=35.3
Q ss_pred CcccccccCeEEecccccccccccccccchH-----------HHHHHHHHHHH
Q 021625 160 RVRYCKICKAHVEGFDHHCPAFGNCIGQNNY-----------FLFIVLLVGFL 201 (310)
Q Consensus 160 Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~-----------r~FilfL~~~~ 201 (310)
+.|+|..|+..+.++-|||..=|+||-+.=| |.+-.|+.++.
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 3799999999999999999999999988654 67778885554
No 12
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=87.40 E-value=0.35 Score=27.14 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCcccccccCe
Q 021625 149 DPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 589999999999999999985
No 13
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.50 E-value=0.62 Score=26.85 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=19.3
Q ss_pred CCCCCCCCCCCCCcccccccCe
Q 021625 148 VDPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
.+|+.|...-++.++.|+.||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 6799999988999999999985
No 14
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=81.48 E-value=0.85 Score=30.33 Aligned_cols=25 Identities=16% Similarity=-0.001 Sum_probs=22.1
Q ss_pred CCCCCCCCCCCCCCCCcccccccCe
Q 021625 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
....+|..|...-|+|+..|+.||.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 3457899999999999999999886
No 15
>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=80.96 E-value=0.6 Score=32.12 Aligned_cols=36 Identities=22% Similarity=0.444 Sum_probs=28.9
Q ss_pred CCCCCCCCCCCCc-------ccccccCeEEecc-ccccccccccccc
Q 021625 149 DPDNENSLSRKRV-------RYCKICKAHVEGF-DHHCPAFGNCIGQ 187 (310)
Q Consensus 149 ~C~~C~~~kP~Rs-------~HC~~C~~CV~r~-DHHC~Wi~nCIG~ 187 (310)
-|+.|+.--|+.| +-|..|..|+..+ +++|| ||=|.
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 4777877666654 6688999999998 99999 88775
No 16
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=79.24 E-value=1.2 Score=46.10 Aligned_cols=22 Identities=14% Similarity=0.166 Sum_probs=18.3
Q ss_pred CCCCCCCCCCC-------CCcccccccCe
Q 021625 148 VDPDNENSLSR-------KRVRYCKICKA 169 (310)
Q Consensus 148 ~~C~~C~~~kP-------~Rs~HC~~C~~ 169 (310)
..|..|+..-. .|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 57999998764 39999999877
No 17
>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=74.67 E-value=2.1 Score=24.79 Aligned_cols=22 Identities=9% Similarity=0.229 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCCcccccccCe
Q 021625 148 VDPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
+.|+.|....|.-++-|+.||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 3699999999999999998874
No 18
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=73.47 E-value=87 Score=29.95 Aligned_cols=70 Identities=10% Similarity=-0.064 Sum_probs=49.2
Q ss_pred HHHHHhcCCCCCCCCCCCchh-------hhcCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHH
Q 021625 119 LCSIMSKDPGLITNEFPHLDK-------LVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYF 191 (310)
Q Consensus 119 ~~~~~~~dPG~vp~~~~~~~~-------~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r 191 (310)
+.---+..||.-|+++.+..- .+-+.+..+.|.+|+.=.-.--|||+--|.||--..|- -.-
T Consensus 70 ~~gPG~vp~~wkPe~~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~-----------~F~ 138 (414)
T KOG1314|consen 70 FTGPGFVPLGWKPENPKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHA-----------YFL 138 (414)
T ss_pred hcCCCCCCCCCCCCCChhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccH-----------HHH
Confidence 344456788988876554221 12344567899999987777789999999999876663 356
Q ss_pred HHHHHHHH
Q 021625 192 LFIVLLVG 199 (310)
Q Consensus 192 ~FilfL~~ 199 (310)
+|++|...
T Consensus 139 ~FLlf~iv 146 (414)
T KOG1314|consen 139 RFLLFSIV 146 (414)
T ss_pred HHHHHHHH
Confidence 77777765
No 19
>PF12773 DZR: Double zinc ribbon
Probab=62.56 E-value=5.9 Score=26.17 Aligned_cols=33 Identities=15% Similarity=0.205 Sum_probs=19.0
Q ss_pred CCCCCCCCCCCC---CCcccccccCeEEeccccccc
Q 021625 147 GVDPDNENSLSR---KRVRYCKICKAHVEGFDHHCP 179 (310)
Q Consensus 147 ~~~C~~C~~~kP---~Rs~HC~~C~~CV~r~DHHC~ 179 (310)
.++|..|...-+ .....|+.|++=+...+.+|+
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~ 47 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCP 47 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccC
Confidence 456666665544 234556666665555555555
No 20
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=61.12 E-value=3.3 Score=41.90 Aligned_cols=81 Identities=15% Similarity=-0.148 Sum_probs=56.1
Q ss_pred HHHHHHHHhcCCCCCCCCCCCchhhh----cCCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHH
Q 021625 116 IIGLCSIMSKDPGLITNEFPHLDKLV----EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYF 191 (310)
Q Consensus 116 ~~~~~~~~~~dPG~vp~~~~~~~~~~----~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r 191 (310)
+...+.++..+||++-.... .--.. ..-.....|.+|....+.+..++..+-.+...+++||+|+. +|+.+|-.
T Consensus 291 ~~~~~~~~~~~~g~i~~~~~-~w~i~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~ 368 (600)
T KOG0509|consen 291 LGLFYFISSWLPGVIFLINS-LWLIKGLALGKLVLTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLF 368 (600)
T ss_pred HHHHHHHHhhccchhhhhhh-HHHHhhhhhhhhhhheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhh
Confidence 33455556667776654422 11000 01112456888999999999999999999999999999999 99999987
Q ss_pred HHHHHHH
Q 021625 192 LFIVLLV 198 (310)
Q Consensus 192 ~FilfL~ 198 (310)
.+-...+
T Consensus 369 ~~~~~~i 375 (600)
T KOG0509|consen 369 DFHYCFI 375 (600)
T ss_pred hhHHHHH
Confidence 5544433
No 21
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=61.08 E-value=4.5 Score=28.70 Aligned_cols=26 Identities=15% Similarity=0.083 Sum_probs=12.9
Q ss_pred CCCCCCCCCC--CCCCcccccccCeEEe
Q 021625 147 GVDPDNENSL--SRKRVRYCKICKAHVE 172 (310)
Q Consensus 147 ~~~C~~C~~~--kP~Rs~HC~~C~~CV~ 172 (310)
...|..|+.. --.|-|||+.||+-+=
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 3568888753 2478999999998654
No 22
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=59.54 E-value=1.9 Score=28.82 Aligned_cols=24 Identities=13% Similarity=0.058 Sum_probs=21.1
Q ss_pred CCCCCCCCCCCCCCCcccccccCe
Q 021625 146 LGVDPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
...+|..|...-|+|+.-|+.|+.
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 456899999999999999998865
No 23
>PF12773 DZR: Double zinc ribbon
Probab=59.14 E-value=8.5 Score=25.39 Aligned_cols=25 Identities=12% Similarity=0.206 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCCCCCCCcccccccC
Q 021625 144 SELGVDPDNENSLSRKRVRYCKICK 168 (310)
Q Consensus 144 ~~~~~~C~~C~~~kP~Rs~HC~~C~ 168 (310)
+....+|+.|....++.++.|..||
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 3445789999999999999999986
No 24
>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=56.37 E-value=17 Score=32.41 Aligned_cols=28 Identities=18% Similarity=0.120 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCC
Q 021625 108 FNIEVAMIIIGLCSIMSKDPGLITNEFP 135 (310)
Q Consensus 108 f~~l~~~~~~~~~~~~~~dPG~vp~~~~ 135 (310)
..++.+.++-.|..|..+|||...+...
T Consensus 200 itl~vf~LvgLyr~C~k~dPg~p~~g~~ 227 (259)
T PF07010_consen 200 ITLSVFTLVGLYRMCWKTDPGTPENGPD 227 (259)
T ss_pred HHHHHHHHHHHHHHhhcCCCCCcccCCC
Confidence 3344455666788899999997766543
No 25
>KOG3814 consensus Signaling protein van gogh/strabismus [Signal transduction mechanisms]
Probab=53.50 E-value=86 Score=30.40 Aligned_cols=24 Identities=13% Similarity=0.351 Sum_probs=12.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHhh
Q 021625 18 CRCIISCILVLLTQLTLSLVPRFFA 42 (310)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (310)
...+.+|+ ..++-++.+.+|-+++
T Consensus 116 ~~slL~~~-sf~sp~am~~lP~~~P 139 (531)
T KOG3814|consen 116 ASSLLGLL-SFLSPPAMCLLPIIAP 139 (531)
T ss_pred HHHHHHHH-HHhchhHHHhcccccc
Confidence 34444444 4445556666664444
No 26
>COG0348 NapH Polyferredoxin [Energy production and conversion]
Probab=53.22 E-value=1.2e+02 Score=29.24 Aligned_cols=14 Identities=21% Similarity=0.508 Sum_probs=10.4
Q ss_pred cccccCeEEecccc
Q 021625 163 YCKICKAHVEGFDH 176 (310)
Q Consensus 163 HC~~C~~CV~r~DH 176 (310)
-|-.|++|+.--||
T Consensus 246 ~CI~C~~CidaCd~ 259 (386)
T COG0348 246 ECIGCGRCIDACDD 259 (386)
T ss_pred ccccHhhHhhhCCH
Confidence 38888888887555
No 27
>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 KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=49.85 E-value=5.6 Score=38.77 Aligned_cols=29 Identities=10% Similarity=0.116 Sum_probs=21.9
Q ss_pred CCCCCCCCCCCCCC--CCCCcccccccCeEE
Q 021625 143 GSELGVDPDNENSL--SRKRVRYCKICKAHV 171 (310)
Q Consensus 143 ~~~~~~~C~~C~~~--kP~Rs~HC~~C~~CV 171 (310)
++....+|+.|... -..|-|||+.||+-+
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHH
Confidence 44556899999864 346899999999843
No 29
>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=49.22 E-value=5.8 Score=26.89 Aligned_cols=24 Identities=13% Similarity=0.137 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCCcccccc--cCeE
Q 021625 147 GVDPDNENSLSRKRVRYCKI--CKAH 170 (310)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~--C~~C 170 (310)
..+|..|...-|+|+..|+. ||.+
T Consensus 17 k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 17 KMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp -EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ceecccccCcCCCCccceecccCCCC
Confidence 46799999999999999998 8765
No 30
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=46.89 E-value=6.9 Score=23.07 Aligned_cols=21 Identities=14% Similarity=0.192 Sum_probs=14.6
Q ss_pred CCCCCCCCCCCCcccccccCe
Q 021625 149 DPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
.|..|...-++++.+|..|+.
T Consensus 6 ~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 6 KCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EETTTTEEEESSSSB-TTT--
T ss_pred cCCCCcCCchHHhhhhhCcCC
Confidence 378888888888888888864
No 31
>COG2995 PqiA Uncharacterized paraquat-inducible protein A [Function unknown]
Probab=46.16 E-value=95 Score=30.16 Aligned_cols=29 Identities=10% Similarity=-0.040 Sum_probs=20.1
Q ss_pred cCCCCCCCCCCCCCCCCCC-cccccccCeE
Q 021625 142 EGSELGVDPDNENSLSRKR-VRYCKICKAH 170 (310)
Q Consensus 142 ~~~~~~~~C~~C~~~kP~R-s~HC~~C~~C 170 (310)
..+++.+.|..|+...|.+ .-+|..|+.=
T Consensus 215 ~~~~~~~~C~~C~~~~~~~~~~~CpRC~~~ 244 (418)
T COG2995 215 GAREGLRSCLCCHYILPHDAEPRCPRCGSK 244 (418)
T ss_pred CCcccceecccccccCCHhhCCCCCCCCCh
Confidence 3445678899999988874 4456666653
No 32
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=39.81 E-value=12 Score=33.56 Aligned_cols=13 Identities=38% Similarity=0.460 Sum_probs=9.4
Q ss_pred EEecccccccccc
Q 021625 170 HVEGFDHHCPAFG 182 (310)
Q Consensus 170 CV~r~DHHC~Wi~ 182 (310)
=..+.+|||||..
T Consensus 37 Hrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 37 HRSYESHHCPKGL 49 (250)
T ss_pred cchHhhcCCCccc
Confidence 4567788888864
No 33
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=38.82 E-value=16 Score=25.84 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=20.1
Q ss_pred CCCCCCCCCCCCCCcccccccCe
Q 021625 147 GVDPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
.+-|..|+...|+.+.-|+.|+.
T Consensus 4 ~kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 4 EKACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred hHHHhhccccCCCCCccCCCCCC
Confidence 35699999999999999999986
No 34
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=35.53 E-value=18 Score=21.20 Aligned_cols=21 Identities=14% Similarity=0.105 Sum_probs=9.1
Q ss_pred CCCCCCCCCCC-CcccccccCe
Q 021625 149 DPDNENSLSRK-RVRYCKICKA 169 (310)
Q Consensus 149 ~C~~C~~~kP~-Rs~HC~~C~~ 169 (310)
.|..|+..... ...+|+.|+-
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf 23 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDF 23 (30)
T ss_dssp --TTTS----S--EEE-TTT--
T ss_pred cCCcCCCcCCCCceEECccCCC
Confidence 47788877766 7888988874
No 35
>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=34.15 E-value=4.5e+02 Score=25.61 Aligned_cols=33 Identities=6% Similarity=-0.004 Sum_probs=24.0
Q ss_pred CCCCCCCCC-CCCCCcccccccCeEEeccccccc
Q 021625 147 GVDPDNENS-LSRKRVRYCKICKAHVEGFDHHCP 179 (310)
Q Consensus 147 ~~~C~~C~~-~kP~Rs~HC~~C~~CV~r~DHHC~ 179 (310)
-.-|+.|+. .+|....||..|+.-..|.+++..
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s~ 248 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRNSL 248 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCCCH
Confidence 345999997 456666789999888777666543
No 36
>PF05052 MerE: MerE protein; InterPro: IPR007746 The prokaryotic MerE (or URF-1) protein is part of the mercury resistance operon often located on plasmids or transposons [, ]. It has been suggested that MerE is a broad mercury transporter mediating transport across the bacterial membrane [].
Probab=32.70 E-value=2e+02 Score=21.01 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhHHhhhhhHHHHHHHHHHHHHHHHHHHh
Q 021625 26 LVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLLVQTLCG 65 (310)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 65 (310)
+++++.++=-..-++++..=.++.+.+.+++.+.+....|
T Consensus 33 pil~~vLaGTaaGafl~e~w~iaal~l~~LF~lsl~~~lR 72 (75)
T PF05052_consen 33 PILAPVLAGTAAGAFLGEHWVIAALTLTGLFVLSLTRALR 72 (75)
T ss_pred HHHHHHHccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444333333444555555555555555555555444443
No 37
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=29.92 E-value=43 Score=19.68 Aligned_cols=20 Identities=15% Similarity=-0.056 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCC-cccccccC
Q 021625 149 DPDNENSLSRKR-VRYCKICK 168 (310)
Q Consensus 149 ~C~~C~~~kP~R-s~HC~~C~ 168 (310)
.|..|+...... ..||+.|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 477787766666 78888777
No 38
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=29.77 E-value=19 Score=35.77 Aligned_cols=22 Identities=14% Similarity=0.104 Sum_probs=15.8
Q ss_pred CCCCCCCCCC--CCCcccccccCe
Q 021625 148 VDPDNENSLS--RKRVRYCKICKA 169 (310)
Q Consensus 148 ~~C~~C~~~k--P~Rs~HC~~C~~ 169 (310)
..|..|+..- -.|-|||+.||.
T Consensus 902 ~~cmacq~pf~afrrrhhcrncgg 925 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGG 925 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCc
Confidence 4577777542 358899999887
No 39
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=29.55 E-value=34 Score=20.39 Aligned_cols=23 Identities=13% Similarity=0.060 Sum_probs=12.1
Q ss_pred CCCCCCCCCC----CCCCcccccccCe
Q 021625 147 GVDPDNENSL----SRKRVRYCKICKA 169 (310)
Q Consensus 147 ~~~C~~C~~~----kP~Rs~HC~~C~~ 169 (310)
.+||..|... ...++..|..|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 4788888643 3346777777764
No 40
>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=28.66 E-value=24 Score=24.72 Aligned_cols=23 Identities=9% Similarity=0.141 Sum_probs=18.4
Q ss_pred CCCCCCCCCCCCCCccccc-ccCe
Q 021625 147 GVDPDNENSLSRKRVRYCK-ICKA 169 (310)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~-~C~~ 169 (310)
.+.|..|...-|+.-..|| .|+.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 4679999998888888886 6665
No 41
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.49 E-value=80 Score=30.15 Aligned_cols=16 Identities=31% Similarity=0.669 Sum_probs=7.3
Q ss_pred hhhhhHHHHHHHHHHHH
Q 021625 14 LPLICRCIISCILVLLT 30 (310)
Q Consensus 14 ~~~~~~~~~~~~~~~~~ 30 (310)
.|.++-.+ +.++|+++
T Consensus 186 ~~~~~~vl-~~~fvl~t 201 (372)
T KOG2927|consen 186 RPLMWQVL-GVLFVLVT 201 (372)
T ss_pred CchhHHHH-HHHHHHHH
Confidence 45555443 33444443
No 42
>PF02077 SURF4: SURF4 family; InterPro: IPR002995 The surfeit locus gene SURF4 (or surf-4) encodes a conserved integral eukaryotic membrane protein of about 270 to 300 amino-acid residues that seems to be located in the endoplasmic reticulum [].; GO: 0016021 integral to membrane
Probab=27.35 E-value=4.9e+02 Score=23.92 Aligned_cols=111 Identities=14% Similarity=0.144 Sum_probs=50.6
Q ss_pred hhhccchhhhhHHHHHHHHHHHHHHHHHHHhHHhhhhhHHHHHHHHHHHHHHHHHHHhHhHhhcccccchhHHHHHHHHH
Q 021625 8 RKLSASLPLICRCIISCILVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLLVQTLCGWCRRLLGVCASAPAFVFFNILF 87 (310)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~~~~ 87 (310)
+|....+-+.||.++..+.+-+..... ...-+...+.|+.+.....++..++- .+ .+.+......
T Consensus 149 ~~~~~yl~LaGRill~~mFi~~~~~~~---------s~~~ii~~~~g~~l~i~v~vGyktk~-~A-----~~Lv~~L~~~ 213 (267)
T PF02077_consen 149 NKPKSYLQLAGRILLVLMFITLLHFEW---------SFLRIILSIVGLALCILVVVGYKTKL-SA-----LLLVLWLSIY 213 (267)
T ss_pred CCcchHHHHHhHHHHHHHHHHHHHHhc---------cHHHHHHHHHHHHHHHHHHHhHhHHH-HH-----HHHHHHHHHH
Confidence 444555667788777766665543331 22233455566666555556554432 22 1112222222
Q ss_pred HHhhhhhhhccchhhHHH-HHHHHHHH-HHHHHHHHHHhcCCCCCCCC
Q 021625 88 IWGFYIAVVRQAVSSLIG-GLFNIEVA-MIIIGLCSIMSKDPGLITNE 133 (310)
Q Consensus 88 ~~~~~~~v~~~~~~~~~~-iif~~l~~-~~~~~~~~~~~~dPG~vp~~ 133 (310)
-+...-|+..+..++... .-+.+.-. ..+-.....+..+||-++-|
T Consensus 214 n~~~n~fW~~~~~~~~~dflkydFfq~lSviGGLLllv~~GpG~~S~D 261 (267)
T PF02077_consen 214 NVFVNNFWFYPSDSPMRDFLKYDFFQTLSVIGGLLLLVNLGPGGLSLD 261 (267)
T ss_pred HHHhhhhhcCCCCchHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccHH
Confidence 222222333222222111 11222211 12334667778899987654
No 43
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=27.15 E-value=43 Score=21.99 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCC------cccccccCe
Q 021625 148 VDPDNENSLSRKR------VRYCKICKA 169 (310)
Q Consensus 148 ~~C~~C~~~kP~R------s~HC~~C~~ 169 (310)
++|+.|.....++ -..|+.|+.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~ 28 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGY 28 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCC
Confidence 3677776443222 234777763
No 44
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=27.03 E-value=22 Score=33.05 Aligned_cols=27 Identities=15% Similarity=0.133 Sum_probs=18.1
Q ss_pred CCCCCCCCCC-C--CCCcccccccCeEEec
Q 021625 147 GVDPDNENSL-S--RKRVRYCKICKAHVEG 173 (310)
Q Consensus 147 ~~~C~~C~~~-k--P~Rs~HC~~C~~CV~r 173 (310)
...|..|... . -.|-|||+.||+-|-.
T Consensus 168 a~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 168 ATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred ceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 4567777763 2 3578888888875543
No 45
>PF08600 Rsm1: Rsm1-like; InterPro: IPR013909 This entry contains Nuclear-interacting partner of ALK (NIPA) and NIPA like proteins, as well as mRNA export factor Rsm1, all of which contain a C3HC-type zinc finger. The domain represented in this entry is found C-terminal to the zinc-finger like domain IPR012935 from INTERPRO. Rsm1 is involved in mRNA export from the nucleus []. NIPA is an essential component of an SCF-type E3 ligase complex, SCF(NIPA), a complex that controls mitotic entry by mediating ubiquitination and subsequent degradation of cyclin B1 (CCNB1). Its cell-cycle-dependent phosphorylation regulates the assembly of the SCF(NIPA) complex, restricting CCNB1 ubiquitination activity to interphase. Its inactivation results in nuclear accumulation of CCNB1 in interphase and premature mitotic entry [].
Probab=26.66 E-value=34 Score=25.95 Aligned_cols=13 Identities=15% Similarity=0.294 Sum_probs=9.3
Q ss_pred ccccccccccccc
Q 021625 174 FDHHCPAFGNCIG 186 (310)
Q Consensus 174 ~DHHC~Wi~nCIG 186 (310)
+-.||||++.-..
T Consensus 54 Hr~~CPwv~~~~q 66 (91)
T PF08600_consen 54 HREYCPWVNPSTQ 66 (91)
T ss_pred ccccCCccCCccc
Confidence 3368999987653
No 46
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.12 E-value=62 Score=22.66 Aligned_cols=25 Identities=16% Similarity=0.113 Sum_probs=18.7
Q ss_pred CCCCCCCCCCCC----CCCcccccccCeE
Q 021625 146 LGVDPDNENSLS----RKRVRYCKICKAH 170 (310)
Q Consensus 146 ~~~~C~~C~~~k----P~Rs~HC~~C~~C 170 (310)
..+.|+.|.... ..|.++|+.||.-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCE
Confidence 567799997543 4578889998875
No 47
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=25.88 E-value=3.5e+02 Score=25.09 Aligned_cols=50 Identities=20% Similarity=0.156 Sum_probs=37.1
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHHHHH
Q 021625 144 SELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATE 204 (310)
Q Consensus 144 ~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~l~~ 204 (310)
......|+.|+.=.-.--|||.-=|+||--..| +=.-.|+.++.......
T Consensus 113 ~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryFFlFl~~ltlat~~~ 162 (309)
T KOG1313|consen 113 SPRTHHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYFFLFLFYLTLATSYA 162 (309)
T ss_pred CCCcchhhHHhhHhhccccCCchhhcccccccc-----------hhHHHHHHHHHHHHHHH
Confidence 345578999988777788999999999998777 34556777776444333
No 48
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=25.71 E-value=67 Score=33.41 Aligned_cols=17 Identities=35% Similarity=0.772 Sum_probs=7.7
Q ss_pred cccccCeEEeccccccc
Q 021625 163 YCKICKAHVEGFDHHCP 179 (310)
Q Consensus 163 HC~~C~~CV~r~DHHC~ 179 (310)
.|..||.=+..-..+|+
T Consensus 29 ~Cp~CG~~~~~~~~fC~ 45 (645)
T PRK14559 29 PCPQCGTEVPVDEAHCP 45 (645)
T ss_pred cCCCCCCCCCccccccc
Confidence 34444444444444444
No 49
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.52 E-value=48 Score=22.23 Aligned_cols=24 Identities=13% Similarity=-0.007 Sum_probs=15.0
Q ss_pred CCCCCCCCCC-C--CCCCcccccccCe
Q 021625 146 LGVDPDNENS-L--SRKRVRYCKICKA 169 (310)
Q Consensus 146 ~~~~C~~C~~-~--kP~Rs~HC~~C~~ 169 (310)
..++|+.|.. . .-....+|..|+.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 4568999976 2 1224567777763
No 50
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=25.29 E-value=32 Score=23.06 Aligned_cols=24 Identities=13% Similarity=0.149 Sum_probs=16.4
Q ss_pred CCCCCCCC--CCCCCcccccccCeEE
Q 021625 148 VDPDNENS--LSRKRVRYCKICKAHV 171 (310)
Q Consensus 148 ~~C~~C~~--~kP~Rs~HC~~C~~CV 171 (310)
..|..|.. ..-.|.|||+.|++-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 34666654 2356889999998743
No 51
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.88 E-value=30 Score=33.42 Aligned_cols=29 Identities=31% Similarity=0.433 Sum_probs=20.4
Q ss_pred CCCCcccccccCeEEecccccccccccccccchHH
Q 021625 157 SRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYF 191 (310)
Q Consensus 157 kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r 191 (310)
+-.|-.||..|+. +|| +|..||||.-=.-
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga~~~~ 38 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGALCQS 38 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHHHHHH
Confidence 3455667777764 788 6899999984443
No 52
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=24.63 E-value=21 Score=22.09 Aligned_cols=8 Identities=0% Similarity=-0.459 Sum_probs=5.0
Q ss_pred CCCCCCCC
Q 021625 148 VDPDNENS 155 (310)
Q Consensus 148 ~~C~~C~~ 155 (310)
+||++|..
T Consensus 2 ~FCp~C~n 9 (35)
T PF02150_consen 2 RFCPECGN 9 (35)
T ss_dssp -BETTTTS
T ss_pred eeCCCCCc
Confidence 46788864
No 53
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=24.48 E-value=24 Score=37.21 Aligned_cols=37 Identities=22% Similarity=0.301 Sum_probs=27.7
Q ss_pred ccccc---ccCeEEecccccccccc---ccc--ccchHHHHHHHH
Q 021625 161 VRYCK---ICKAHVEGFDHHCPAFG---NCI--GQNNYFLFIVLL 197 (310)
Q Consensus 161 s~HC~---~C~~CV~r~DHHC~Wi~---nCI--G~~N~r~FilfL 197 (310)
-|+|. .|..|++..|-||.|-+ .|+ +..|.|.+..=+
T Consensus 491 l~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~~Qd~ 535 (737)
T KOG3611|consen 491 LARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSVIQDV 535 (737)
T ss_pred hhHhhcccchhhhhhccCCCccccCCCCcceECCCCcccchhhhh
Confidence 57788 89998888999999998 687 344555555433
No 54
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=24.47 E-value=6e+02 Score=23.90 Aligned_cols=48 Identities=13% Similarity=0.016 Sum_probs=35.0
Q ss_pred CCCCCCCCCCCCCCCCCCcccccccCeEEecccccccccccccccchHHHHHHHHHHHH
Q 021625 143 GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFL 201 (310)
Q Consensus 143 ~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL~~~~ 201 (310)
++.+.+.|+.|++=.-..-|||.-=|+||.-.++ +=.-.|+.+.....
T Consensus 119 KPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~ 166 (307)
T KOG1315|consen 119 KPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYS 166 (307)
T ss_pred cCCccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHH
Confidence 3456788999988777889999999999987664 33455665555444
No 55
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=24.44 E-value=43 Score=18.66 Aligned_cols=21 Identities=19% Similarity=0.165 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCcccccccCe
Q 021625 149 DPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
.|..|...-.+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 488888888888888888864
No 56
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=24.35 E-value=2.6e+02 Score=22.26 Aligned_cols=7 Identities=14% Similarity=-0.192 Sum_probs=4.1
Q ss_pred CCCCCCC
Q 021625 150 PDNENSL 156 (310)
Q Consensus 150 C~~C~~~ 156 (310)
|++|+..
T Consensus 72 CP~C~K~ 78 (114)
T PF11023_consen 72 CPNCGKQ 78 (114)
T ss_pred CCCCCCh
Confidence 6666644
No 57
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=24.20 E-value=32 Score=27.22 Aligned_cols=24 Identities=8% Similarity=0.094 Sum_probs=16.8
Q ss_pred CCCCCCCCCCCCCCCccc---ccccCe
Q 021625 146 LGVDPDNENSLSRKRVRY---CKICKA 169 (310)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~H---C~~C~~ 169 (310)
..-+|..|+..-|...++ |+.|+.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 69 AECWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred cEEEcccCCCeeecCCccCCcCcCcCC
Confidence 345799998877765444 888774
No 58
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=23.56 E-value=22 Score=23.03 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=10.1
Q ss_pred cccCeEEeccccccccc
Q 021625 165 KICKAHVEGFDHHCPAF 181 (310)
Q Consensus 165 ~~C~~CV~r~DHHC~Wi 181 (310)
+.|..|+...|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 34666666666666664
No 59
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=23.27 E-value=7.1e+02 Score=24.38 Aligned_cols=33 Identities=6% Similarity=-0.073 Sum_probs=25.7
Q ss_pred CCCCCCCCCCCCCCcccccccCeEEeccccccc
Q 021625 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHHCP 179 (310)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC~ 179 (310)
-..|+.|+...|....||..|+.-..+.+++..
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s~ 253 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRNSL 253 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCCH
Confidence 345999999888777799999988777666543
No 60
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=23.06 E-value=48 Score=34.45 Aligned_cols=21 Identities=14% Similarity=0.252 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCCcccccccCe
Q 021625 149 DPDNENSLSRKRVRYCKICKA 169 (310)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (310)
.|+.|...-|+.++.|..||.
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~ 23 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGT 23 (645)
T ss_pred cCCCCCCcCCCCCccccccCC
Confidence 355555555555555555544
No 61
>PF01437 PSI: Plexin repeat; InterPro: IPR002165 This is a cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found in plexin (P70206 from SWISSPROT) []. Two copies of the repeat are found in mahogany protein. A related Caenorhabditis elegans protein (Q19981 from SWISSPROT) contains four copies of the repeat, while the Met receptor contains a single copy of the repeat.; GO: 0016020 membrane; PDB: 3NVQ_B 3NVN_B 3OL2_B 3OKT_A 3AL8_A 3OKW_A 3OKY_B 3AFC_B 1OLZ_B 1SHY_B ....
Probab=23.03 E-value=14 Score=24.64 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=9.4
Q ss_pred cccCeEEeccccccccc
Q 021625 165 KICKAHVEGFDHHCPAF 181 (310)
Q Consensus 165 ~~C~~CV~r~DHHC~Wi 181 (310)
..|+.|+.-.|-+|.|=
T Consensus 6 ~sC~~Cl~~~dp~CgWc 22 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWC 22 (51)
T ss_dssp SSHHHHHHSTCTTEEEE
T ss_pred CcHHHHHcCCCcCcccc
Confidence 45555555555555553
No 62
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=21.05 E-value=3.8e+02 Score=20.32 Aligned_cols=20 Identities=15% Similarity=-0.066 Sum_probs=15.5
Q ss_pred HHhcChhHHHhhhccCcccc
Q 021625 259 CVCFNVRTDEWVNWKKYPEF 278 (310)
Q Consensus 259 lI~~n~TT~E~~~~~r~~~~ 278 (310)
.-.++++|-|.++..++.+.
T Consensus 77 ~W~~~r~tae~lk~e~~~~~ 96 (112)
T PF14015_consen 77 RWIRYRATAESLKREKWLYL 96 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34789999999987776654
No 63
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=20.98 E-value=75 Score=19.14 Aligned_cols=19 Identities=16% Similarity=0.366 Sum_probs=9.6
Q ss_pred CCCCCCCCCCC-c-ccccccC
Q 021625 150 PDNENSLSRKR-V-RYCKICK 168 (310)
Q Consensus 150 C~~C~~~kP~R-s-~HC~~C~ 168 (310)
|..|...+..+ | .-|+.|+
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CeECCcCCccceeEEEccCCC
Confidence 55555544433 3 3366665
No 64
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=20.92 E-value=14 Score=33.61 Aligned_cols=19 Identities=11% Similarity=0.279 Sum_probs=12.7
Q ss_pred CCCcccccccCeEEecccc
Q 021625 158 RKRVRYCKICKAHVEGFDH 176 (310)
Q Consensus 158 P~Rs~HC~~C~~CV~r~DH 176 (310)
-..+.||..|++|+.+|.|
T Consensus 288 Q~K~N~~~~~~~~~q~~~H 306 (325)
T KOG4399|consen 288 QRKSNKMKMETTKGQSMNH 306 (325)
T ss_pred hcccchhhhhhhhhhhhHH
Confidence 3446677777777776665
No 65
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=20.77 E-value=41 Score=36.78 Aligned_cols=37 Identities=22% Similarity=0.236 Sum_probs=23.0
Q ss_pred CCCCCC--CCCCCCcccccccCeEEecccccccccccccccchHHHHHHHH
Q 021625 149 DPDNEN--SLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLL 197 (310)
Q Consensus 149 ~C~~C~--~~kP~Rs~HC~~C~~CV~r~DHHC~Wi~nCIG~~N~r~FilfL 197 (310)
-|..|+ -.--.|-||||.||+-- -+.|- |.|.++-|+
T Consensus 559 ncm~clqkft~ikrrhhcRacgkVl---------cgvcc---nek~~leyl 597 (1287)
T KOG1841|consen 559 NCMDCLQKFTPIKRRHHCRACGKVL---------CGVCC---NEKSALEYL 597 (1287)
T ss_pred hHHHHHhhcccccccccchhcccee---------ehhhc---chhhhhhhc
Confidence 355555 23456899999999922 23444 556776665
Done!