Query 024803
Match_columns 262
No_of_seqs 195 out of 1634
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 07:31:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024803.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024803hhsearch_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 6.4E-36 1.4E-40 270.8 12.8 175 81-255 17-233 (307)
2 PF01529 zf-DHHC: DHHC palmito 100.0 3.5E-34 7.7E-39 240.6 8.4 139 117-255 2-174 (174)
3 KOG1311 DHHC-type Zn-finger pr 100.0 3.2E-31 6.9E-36 241.7 11.7 130 125-254 79-241 (299)
4 KOG1314 DHHC-type Zn-finger pr 100.0 1.2E-30 2.5E-35 235.2 9.8 147 105-253 51-225 (414)
5 COG5273 Uncharacterized protei 100.0 5.2E-29 1.1E-33 227.7 13.1 155 102-256 56-234 (309)
6 KOG1313 DHHC-type Zn-finger pr 99.9 3.3E-26 7.1E-31 200.8 7.3 128 115-253 81-244 (309)
7 KOG0509 Ankyrin repeat and DHH 99.9 1.6E-24 3.6E-29 208.2 7.6 112 82-193 346-469 (600)
8 KOG1312 DHHC-type Zn-finger pr 99.9 6.8E-24 1.5E-28 187.2 8.6 82 111-192 107-196 (341)
9 PF13240 zinc_ribbon_2: zinc-r 87.7 0.34 7.4E-06 27.2 1.3 21 149-169 1-21 (23)
10 PF13248 zf-ribbon_3: zinc-rib 82.8 0.84 1.8E-05 26.2 1.4 23 147-169 2-24 (26)
11 KOG1311 DHHC-type Zn-finger pr 81.7 0.67 1.5E-05 42.2 1.2 27 160-186 112-138 (299)
12 PF10571 UPF0547: Uncharacteri 79.0 1.3 2.9E-05 25.6 1.4 22 148-169 1-22 (26)
13 PTZ00303 phosphatidylinositol 78.8 1.4 2.9E-05 45.4 2.3 23 147-169 460-489 (1374)
14 PF12773 DZR: Double zinc ribb 77.1 2.4 5.3E-05 27.8 2.5 35 146-180 11-48 (50)
15 PRK04136 rpl40e 50S ribosomal 77.0 1.4 3E-05 29.3 1.2 25 145-169 12-36 (48)
16 PF01363 FYVE: FYVE zinc finge 72.1 1.8 3.9E-05 30.4 0.9 26 146-171 8-35 (69)
17 PF01529 zf-DHHC: DHHC palmito 71.2 2.1 4.6E-05 35.3 1.2 34 144-177 59-92 (174)
18 KOG1842 FYVE finger-containing 67.7 1.7 3.7E-05 41.8 -0.0 29 143-171 176-206 (505)
19 PF06906 DUF1272: Protein of u 61.7 3.3 7.1E-05 28.5 0.5 32 148-179 6-45 (57)
20 PF12773 DZR: Double zinc ribb 61.4 7.3 0.00016 25.4 2.2 25 144-168 26-50 (50)
21 smart00064 FYVE Protein presen 61.1 7.4 0.00016 27.1 2.3 25 147-171 10-36 (68)
22 PF06336 Corona_5a: Coronaviru 57.8 13 0.00028 25.6 2.8 22 14-35 4-26 (65)
23 TIGR00155 pqiA_fam integral me 57.6 14 0.00031 35.4 4.2 32 147-178 215-247 (403)
24 PF00641 zf-RanBP: Zn-finger i 53.6 4.6 0.0001 23.7 0.1 21 149-169 6-26 (30)
25 COG2093 DNA-directed RNA polym 51.4 7.9 0.00017 27.2 1.0 22 148-169 5-26 (64)
26 KOG3183 Predicted Zn-finger pr 48.4 7.8 0.00017 34.4 0.8 15 168-182 35-49 (250)
27 cd00065 FYVE FYVE domain; Zinc 45.8 13 0.00029 24.7 1.5 24 148-171 3-28 (57)
28 COG1552 RPL40A Ribosomal prote 45.4 4.8 0.00011 26.9 -0.7 24 147-170 14-37 (50)
29 PF08600 Rsm1: Rsm1-like; Int 42.8 12 0.00026 28.1 1.0 12 174-185 54-65 (91)
30 COG5273 Uncharacterized protei 42.1 40 0.00087 31.1 4.4 115 143-258 119-248 (309)
31 PF07010 Endomucin: Endomucin; 41.9 52 0.0011 29.2 4.8 27 107-133 199-225 (259)
32 PRK15103 paraquat-inducible me 41.8 81 0.0018 30.4 6.6 32 147-178 221-252 (419)
33 smart00661 RPOL9 RNA polymeras 37.3 24 0.00051 23.0 1.6 22 148-169 1-28 (52)
34 PF01020 Ribosomal_L40e: Ribos 37.2 15 0.00032 24.9 0.6 26 145-170 15-42 (52)
35 PF09297 zf-NADH-PPase: NADH p 34.9 24 0.00052 20.9 1.2 23 147-169 3-29 (32)
36 PRK14559 putative protein seri 32.2 38 0.00081 34.6 2.8 17 163-179 29-45 (645)
37 PRK00432 30S ribosomal protein 31.8 34 0.00075 22.8 1.7 24 146-169 19-45 (50)
38 smart00547 ZnF_RBZ Zinc finger 31.8 27 0.00059 19.4 1.1 21 149-169 4-24 (26)
39 PRK03681 hypA hydrogenase nick 31.1 22 0.00047 27.9 0.7 25 145-169 68-95 (114)
40 KOG1819 FYVE finger-containing 30.4 17 0.00037 35.9 -0.0 22 148-169 902-925 (990)
41 PRK12286 rpmF 50S ribosomal pr 28.4 36 0.00078 23.4 1.4 21 147-169 27-48 (57)
42 PF02150 RNA_POL_M_15KD: RNA p 28.2 17 0.00038 22.3 -0.2 8 148-155 2-9 (35)
43 PF01437 PSI: Plexin repeat; 28.1 13 0.00029 24.5 -0.8 17 165-181 6-22 (51)
44 PF03107 C1_2: C1 domain; Int 28.0 49 0.0011 19.3 1.7 20 149-168 2-22 (30)
45 PF13842 Tnp_zf-ribbon_2: DDE_ 27.8 51 0.0011 19.8 1.8 20 149-168 2-23 (32)
46 KOG3611 Semaphorins [Signal tr 27.5 21 0.00046 37.0 0.1 26 160-185 490-521 (737)
47 KOG4399 C2HC-type Zn-finger pr 26.9 9.9 0.00021 34.3 -2.0 22 155-176 285-306 (325)
48 PF07649 C1_3: C1-like domain; 26.9 33 0.00071 20.0 0.8 21 149-169 2-23 (30)
49 TIGR01031 rpmF_bact ribosomal 26.0 40 0.00087 22.9 1.3 21 147-169 26-47 (55)
50 smart00423 PSI domain found in 25.9 22 0.00048 22.8 -0.1 17 165-181 5-21 (46)
51 PF07282 OrfB_Zn_ribbon: Putat 25.8 42 0.0009 23.3 1.4 25 146-170 27-55 (69)
52 KOG1315 Predicted DHHC-type Zn 25.2 34 0.00074 31.7 1.0 26 160-185 108-133 (307)
53 PRK14559 putative protein seri 24.5 47 0.001 33.9 2.0 22 149-170 3-24 (645)
54 KOG1818 Membrane trafficking a 23.9 31 0.00066 35.0 0.5 23 147-169 165-189 (634)
55 PRK15103 paraquat-inducible me 23.3 60 0.0013 31.3 2.3 30 148-177 11-46 (419)
56 COG0833 LysP Amino acid transp 23.1 1E+02 0.0022 30.9 3.8 48 18-65 451-501 (541)
57 COG4640 Predicted membrane pro 22.7 49 0.0011 31.7 1.6 26 147-172 1-26 (465)
58 PF00130 C1_1: Phorbol esters/ 22.6 75 0.0016 20.6 2.1 33 146-178 10-50 (53)
59 PF14319 Zn_Tnp_IS91: Transpos 22.5 41 0.00089 26.2 0.9 23 147-169 42-68 (111)
60 PF10497 zf-4CXXC_R1: Zinc-fin 22.3 70 0.0015 24.7 2.1 29 145-173 5-39 (105)
61 KOG1710 MYND Zn-finger and ank 21.8 37 0.00081 31.4 0.6 21 147-169 319-339 (396)
62 PF12172 DUF35_N: Rubredoxin-l 20.9 36 0.00079 20.7 0.2 23 146-168 10-32 (37)
63 COG0348 NapH Polyferredoxin [E 20.8 1.4E+02 0.003 28.4 4.3 18 117-134 167-184 (386)
64 PLN00186 ribosomal protein S26 20.8 43 0.00093 26.2 0.7 22 159-180 18-39 (109)
65 KOG1841 Smad anchor for recept 20.6 43 0.00093 36.2 0.8 34 149-191 559-594 (1287)
66 PRK09335 30S ribosomal protein 20.2 47 0.001 25.4 0.7 23 159-181 18-40 (95)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=6.4e-36 Score=270.76 Aligned_cols=175 Identities=18% Similarity=0.302 Sum_probs=122.9
Q ss_pred HHhhhhhheeeeeeeeecch--------hhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCcchh----h-------
Q 024803 81 VFFNILFIWGFYIAVVRQAV--------SSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKL----V------- 141 (262)
Q Consensus 81 v~~~~~~~~~~y~~~l~~~~--------~~~~~i~~~~~~~~~l~~~~~~~~~dPG~vp~~~~~~~~~----~------- 141 (262)
+++.....|++|+++..-.. .....+.++.+.+|..|+|+++.++|||.+|.....+.++ +
T Consensus 17 ~~i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~~~~~ 96 (307)
T KOG1315|consen 17 LIILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGSDNER 96 (307)
T ss_pred eeeeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccCcccc
Confidence 44555678888887755332 2334478888999999999999999999999865321110 0
Q ss_pred -------cCCCCCCCCCCCCccCCCCcccccccCCccCCCCccccccccch---hhhHHHHHHHHHh------------h
Q 024803 142 -------EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI---EASYVACSAQFVG------------K 199 (262)
Q Consensus 142 -------~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV---~~~yFl~~~~~~~------------~ 199 (262)
..+...++|++|+.+|||||||||+|+|||+||||||||+|||| |+|||+..+.|.. .
T Consensus 97 ~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~ 176 (307)
T KOG1315|consen 97 DLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIG 176 (307)
T ss_pred cceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 01235689999999999999999999999999999999999999 6888875444330 0
Q ss_pred h-hccCCccCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhhhhhcch
Q 024803 200 S-QNFDKSQSENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVSPQ 255 (262)
Q Consensus 200 ~-~~~~~~~~~~~~~~~~~i~~~i~~~l~~l~~~~Ll~~hlyLi~~n~TT~E~~~~~ 255 (262)
. ....................++.+..+.+.+..++++|++||++|+||+|..+.+
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~ 233 (307)
T KOG1315|consen 177 FTKYFQGGAGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSP 233 (307)
T ss_pred HHHHHhccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccc
Confidence 0 0111111111211222233445555666666779999999999999999999875
No 2
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=100.00 E-value=3.5e-34 Score=240.57 Aligned_cols=139 Identities=19% Similarity=0.375 Sum_probs=98.9
Q ss_pred HHHHHHhhcCCCcCCCCCCCc---------c-------hhhcCCCCCCCCCCCCccCCCCcccccccCCccCCCCccccc
Q 024803 117 IGLCSIMSKDPGLITNEFPHL---------D-------KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPA 180 (262)
Q Consensus 117 ~~~~~~~~~dPG~vp~~~~~~---------~-------~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpW 180 (262)
++|+++..+|||++|++...+ + ...+++...++|.+|+..||+|||||+.||+||.|+||||||
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 578999999999999981100 0 001123446799999999999999999999999999999999
Q ss_pred cccch---hhhHHHHHHHHH---------hhhh----ccCCccCCCchHH-HH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024803 181 FGNCI---EASYVACSAQFV---------GKSQ----NFDKSQSENDWVV-NL-ATSTMLFSILQLLWQAVFFMWHIYCV 242 (262)
Q Consensus 181 v~nCV---~~~yFl~~~~~~---------~~~~----~~~~~~~~~~~~~-~~-~i~~~i~~~l~~l~~~~Ll~~hlyLi 242 (262)
+|||| |++||+..+.+. .... ............. .. .+.+++.+++..++++.++++|++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i 161 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLI 161 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999 588885432211 0010 1111111111111 11 14566777888999999999999999
Q ss_pred HhCchhhhhhcch
Q 024803 243 CFNVRTDEWVSPQ 255 (262)
Q Consensus 243 ~~n~TT~E~~~~~ 255 (262)
++|+||+|.+|+|
T Consensus 162 ~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 162 LRNITTYERIKRK 174 (174)
T ss_pred HcCCcHHHHHHcC
Confidence 9999999999876
No 3
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=3.2e-31 Score=241.65 Aligned_cols=130 Identities=24% Similarity=0.270 Sum_probs=90.7
Q ss_pred cCCCcCCCCC--CCcc---hhhc-------CCCCCCCCCCCCccCCCCcccccccCCccCCCCccccccccch---hhhH
Q 024803 125 KDPGLITNEF--PHLD---KLVE-------GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI---EASY 189 (262)
Q Consensus 125 ~dPG~vp~~~--~~~~---~~~~-------~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV---~~~y 189 (262)
+|||.+|+++ ..+. .+.+ .+...++|++|+..||||||||++||+||+||||||||+|||| ||+|
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 4999999952 1111 1111 1223689999999999999999999999999999999999999 5788
Q ss_pred HHHHHHHH---------hhhh----ccC--C-ccC--CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhhhh
Q 024803 190 VACSAQFV---------GKSQ----NFD--K-SQS--ENDWVVNLATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEW 251 (262)
Q Consensus 190 Fl~~~~~~---------~~~~----~~~--~-~~~--~~~~~~~~~i~~~i~~~l~~l~~~~Ll~~hlyLi~~n~TT~E~ 251 (262)
|+.++.+. ..+. ..+ + ... ..+......+.+.+++++....++.|+.+|++++.+|+||+|+
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 86433322 1111 111 1 001 1112222334455678888888888999999999999999999
Q ss_pred hcc
Q 024803 252 VSP 254 (262)
Q Consensus 252 ~~~ 254 (262)
++.
T Consensus 239 ~~~ 241 (299)
T KOG1311|consen 239 IKS 241 (299)
T ss_pred hhc
Confidence 885
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.97 E-value=1.2e-30 Score=235.21 Aligned_cols=147 Identities=16% Similarity=0.185 Sum_probs=103.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCcchhhcCCCCCCCCCCCCccCCCCcccccccCCccCCCCccccccccc
Q 024803 105 GGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNC 184 (262)
Q Consensus 105 ~i~~~~~~~~~l~~~~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nC 184 (262)
.+.|.....|.+++|+.++++.||++|..+..+.. .++.-.+||.+|+.+|+||||||+.|||||.||||||||+|||
T Consensus 51 ~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~--~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnC 128 (414)
T KOG1314|consen 51 QITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENP--KDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNC 128 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC--hhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhc
Confidence 35677778888999999999999999998864321 1222357999999999999999999999999999999999999
Q ss_pred h---hhhHHHHHHHH-Hh-------------------hhh--ccCCccCCCchH-HHH--HHHHHHHHHHHHHHHHHHHH
Q 024803 185 I---EASYVACSAQF-VG-------------------KSQ--NFDKSQSENDWV-VNL--ATSTMLFSILQLLWQAVFFM 236 (262)
Q Consensus 185 V---~~~yFl~~~~~-~~-------------------~~~--~~~~~~~~~~~~-~~~--~i~~~i~~~l~~l~~~~Ll~ 236 (262)
| ||-||+-++.+ +. +|. +-.......... .++ .+..+.+++...+.++.|+.
T Consensus 129 VG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~ 208 (414)
T KOG1314|consen 129 VGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFF 208 (414)
T ss_pred ccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 9 46666432222 11 110 000111111111 111 22233445556677778889
Q ss_pred HHHHHHHhCchhhhhhc
Q 024803 237 WHIYCVCFNVRTDEWVS 253 (262)
Q Consensus 237 ~hlyLi~~n~TT~E~~~ 253 (262)
.|+..|.+|+|.+|...
T Consensus 209 ~qlk~Il~nrt~IE~wi 225 (414)
T KOG1314|consen 209 IQLKQILNNRTGIESWI 225 (414)
T ss_pred HHHHHHHcCCcchHHHH
Confidence 99999999999999865
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.96 E-value=5.2e-29 Score=227.67 Aligned_cols=155 Identities=17% Similarity=0.284 Sum_probs=104.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCc---chh-----hcCCCCCCCCCCCCccCCCCcccccccCCccCC
Q 024803 102 SLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHL---DKL-----VEGSELGVDPDNENSLSRKRVRYCKICKAHVEG 173 (262)
Q Consensus 102 ~~~~i~~~~~~~~~l~~~~~~~~~dPG~vp~~~~~~---~~~-----~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r 173 (262)
....+.+.....+...++++..++|||+.+++.... +.. ...+...++|.+|+.+||+|||||+.||+||+|
T Consensus 56 ~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k 135 (309)
T COG5273 56 VLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLK 135 (309)
T ss_pred hhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcchhhc
Confidence 333344555566777799999999999998664221 111 123456789999999999999999999999999
Q ss_pred CCccccccccch---hhhHHHHHHHHH---------hhhhccCC---ccCC-CchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024803 174 FDHHCPAFGNCI---EASYVACSAQFV---------GKSQNFDK---SQSE-NDWVVNLATSTMLFSILQLLWQAVFFMW 237 (262)
Q Consensus 174 ~DHHCpWv~nCV---~~~yFl~~~~~~---------~~~~~~~~---~~~~-~~~~~~~~i~~~i~~~l~~l~~~~Ll~~ 237 (262)
|||||||+|||| |||+|...+.+. ..+..... .... ..+...++.+....+...++.+..++.+
T Consensus 136 ~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~ 215 (309)
T COG5273 136 FDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLIFGCSLLGVVFFIITTLLLLF 215 (309)
T ss_pred cCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 999999999999 578875432222 11111111 1111 1111112232234455556777778899
Q ss_pred HHHHHHhCchhhhhhcchh
Q 024803 238 HIYCVCFNVRTDEWVSPQV 256 (262)
Q Consensus 238 hlyLi~~n~TT~E~~~~~r 256 (262)
|.+++..|+||+|..+..|
T Consensus 216 ~~~~~~~~~t~~e~~~~~~ 234 (309)
T COG5273 216 LIYLILNNLTTIEFIQISR 234 (309)
T ss_pred HHHHHHhhHHHHHHHHhcc
Confidence 9999999999999876544
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.93 E-value=3.3e-26 Score=200.77 Aligned_cols=128 Identities=20% Similarity=0.284 Sum_probs=85.7
Q ss_pred HHHHHHHHhhcCCCcCCCCCCCcchhhcCCCCCCCCCCCCccCCCCcccccccCCccCCCCccccccccch---hhhHHH
Q 024803 115 IIIGLCSIMSKDPGLITNEFPHLDKLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI---EASYVA 191 (262)
Q Consensus 115 ~l~~~~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV---~~~yFl 191 (262)
..+.|+++....| +-. ...+...+|.+|+.+||||+||||+|||||+||||||||+|||| ||+||.
T Consensus 81 vi~hy~ka~t~pP--vgn---------~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFF 149 (309)
T KOG1313|consen 81 VIFHYYKARTKPP--VGN---------PGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFF 149 (309)
T ss_pred HHHhheeecccCC--cCC---------CCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHH
Confidence 3456677766665 111 12344679999999999999999999999999999999999999 588875
Q ss_pred HHHHHH------------hhhhcc-------CCccCC-----CchHHH---------HHHHHHHHHHHHHHHHHHHHHHH
Q 024803 192 CSAQFV------------GKSQNF-------DKSQSE-----NDWVVN---------LATSTMLFSILQLLWQAVFFMWH 238 (262)
Q Consensus 192 ~~~~~~------------~~~~~~-------~~~~~~-----~~~~~~---------~~i~~~i~~~l~~l~~~~Ll~~h 238 (262)
..+.|. ..|... ....++ .+...+ -+...++.++...+.++.+..||
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 332222 011100 000000 011110 12335555666777888888999
Q ss_pred HHHHHhCchhhhhhc
Q 024803 239 IYCVCFNVRTDEWVS 253 (262)
Q Consensus 239 lyLi~~n~TT~E~~~ 253 (262)
.++|++|.|.+|+..
T Consensus 230 ~vlI~~G~tsi~~~~ 244 (309)
T KOG1313|consen 230 AVLISRGETSIEQLI 244 (309)
T ss_pred heeeehhhhhHHHHH
Confidence 999999999999863
No 7
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.90 E-value=1.6e-24 Score=208.15 Aligned_cols=112 Identities=23% Similarity=0.361 Sum_probs=79.0
Q ss_pred Hhhhhhheeeeeeeee--cchhhHHHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCCcch-hh---c--CCCCC-CCCCC
Q 024803 82 FFNILFIWGFYIAVVR--QAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDK-LV---E--GSELG-VDPDN 152 (262)
Q Consensus 82 ~~~~~~~~~~y~~~l~--~~~~~~~~i~~~~~~~~~l~~~~~~~~~dPG~vp~~~~~~~~-~~---~--~~~~~-~~C~~ 152 (262)
++.+..+|.++++... +.........+.+.....++++.+...+|||++|.+.+...+ .. + +.... ++|.+
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 3445556655555442 222222334455555556668888888999999998754321 11 1 11223 79999
Q ss_pred CCccCCCCcccccccCCccCCCCccccccccch---hhhHHHHH
Q 024803 153 ENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI---EASYVACS 193 (262)
Q Consensus 153 C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV---~~~yFl~~ 193 (262)
|..+||.|||||++|||||.||||||||++||| ||++|++.
T Consensus 426 clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~F 469 (600)
T KOG0509|consen 426 CLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFF 469 (600)
T ss_pred eeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHH
Confidence 999999999999999999999999999999999 58888653
No 8
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.90 E-value=6.8e-24 Score=187.18 Aligned_cols=82 Identities=27% Similarity=0.403 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHhhcCCCcCCCCCCCc-chhhcCC----CCCCCCCCCCccCCCCcccccccCCccCCCCccccccccch
Q 024803 111 EVAMIIIGLCSIMSKDPGLITNEFPHL-DKLVEGS----ELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI 185 (262)
Q Consensus 111 ~~~~~l~~~~~~~~~dPG~vp~~~~~~-~~~~~~~----~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV 185 (262)
..++-.+++..+..+|||.+.++.+.. .+.-+.| ...+.|+||+..||.||||||.||+||.|+||||.|+||||
T Consensus 107 ~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCI 186 (341)
T KOG1312|consen 107 LVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCI 186 (341)
T ss_pred HHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccceEeeeccc
Confidence 444555688999999999998864321 1111111 23479999999999999999999999999999999999999
Q ss_pred ---hhhHHHH
Q 024803 186 ---EASYVAC 192 (262)
Q Consensus 186 ---~~~yFl~ 192 (262)
|.+||+.
T Consensus 187 G~~N~ryF~l 196 (341)
T KOG1312|consen 187 GAWNIRYFLL 196 (341)
T ss_pred ccchHHHHHH
Confidence 4788853
No 9
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=87.73 E-value=0.34 Score=27.18 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=18.9
Q ss_pred CCCCCCccCCCCcccccccCC
Q 024803 149 DPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 699999999999999999985
No 10
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=82.82 E-value=0.84 Score=26.21 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=19.3
Q ss_pred CCCCCCCCccCCCCcccccccCC
Q 024803 147 GVDPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
.++|+.|...-++.++.|+.||.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcCCcccccChhhCC
Confidence 36799999888888999998885
No 11
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=81.73 E-value=0.67 Score=42.22 Aligned_cols=27 Identities=26% Similarity=0.685 Sum_probs=25.4
Q ss_pred CcccccccCCccCCCCccccccccchh
Q 024803 160 RVRYCKICKAHVEGFDHHCPAFGNCIE 186 (262)
Q Consensus 160 Rs~HC~~C~~CV~r~DHHCpWv~nCV~ 186 (262)
+-|+|..|+.-+.++-|||+.=|+||.
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~ 138 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVL 138 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhccccc
Confidence 479999999999999999999999993
No 12
>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=79.03 E-value=1.3 Score=25.59 Aligned_cols=22 Identities=9% Similarity=0.229 Sum_probs=19.0
Q ss_pred CCCCCCCccCCCCcccccccCC
Q 024803 148 VDPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
+.|+.|+..-|.-++-|+.||-
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4699999999999999998874
No 13
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=78.85 E-value=1.4 Score=45.37 Aligned_cols=23 Identities=13% Similarity=0.164 Sum_probs=18.3
Q ss_pred CCCCCCCCccCC-------CCcccccccCC
Q 024803 147 GVDPDNENSLSR-------KRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP-------~Rs~HC~~C~~ 169 (262)
.+.|..|+..-. .|.||||.||+
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCcc
Confidence 357999987664 39999999876
No 14
>PF12773 DZR: Double zinc ribbon
Probab=77.11 E-value=2.4 Score=27.78 Aligned_cols=35 Identities=14% Similarity=0.152 Sum_probs=23.8
Q ss_pred CCCCCCCCCccCC---CCcccccccCCccCCCCccccc
Q 024803 146 LGVDPDNENSLSR---KRVRYCKICKAHVEGFDHHCPA 180 (262)
Q Consensus 146 ~~~~C~~C~~~kP---~Rs~HC~~C~~CV~r~DHHCpW 180 (262)
..++|+.|...-+ .....|+.|++=+...+.+|+.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 3567888876555 3456788888777777777763
No 15
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=77.02 E-value=1.4 Score=29.28 Aligned_cols=25 Identities=16% Similarity=-0.001 Sum_probs=22.2
Q ss_pred CCCCCCCCCCccCCCCcccccccCC
Q 024803 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
.....|..|...-|+|+..|+.||.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 3467999999999999999998886
No 16
>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=72.13 E-value=1.8 Score=30.41 Aligned_cols=26 Identities=15% Similarity=0.085 Sum_probs=12.4
Q ss_pred CCCCCCCCCc--cCCCCcccccccCCcc
Q 024803 146 LGVDPDNENS--LSRKRVRYCKICKAHV 171 (262)
Q Consensus 146 ~~~~C~~C~~--~kP~Rs~HC~~C~~CV 171 (262)
....|..|+. ---.|-|||+.||+-|
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEE
Confidence 3456788864 2247899999998854
No 17
>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=71.18 E-value=2.1 Score=35.26 Aligned_cols=34 Identities=9% Similarity=-0.060 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCccCCCCcccccccCCccCCCCcc
Q 024803 144 SELGVDPDNENSLSRKRVRYCKICKAHVEGFDHH 177 (262)
Q Consensus 144 ~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHH 177 (262)
....++|+.|+.-...+-|||..-|.||.+..|.
T Consensus 59 p~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~ 92 (174)
T PF01529_consen 59 PPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHR 92 (174)
T ss_pred CCcceeccccccccccccccchhhccccccccHH
Confidence 3456688888888888888888888888888774
No 18
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=67.70 E-value=1.7 Score=41.79 Aligned_cols=29 Identities=10% Similarity=0.116 Sum_probs=21.9
Q ss_pred CCCCCCCCCCCCcc--CCCCcccccccCCcc
Q 024803 143 GSELGVDPDNENSL--SRKRVRYCKICKAHV 171 (262)
Q Consensus 143 ~~~~~~~C~~C~~~--kP~Rs~HC~~C~~CV 171 (262)
++....+|+.|... -..|-|||+.||+-+
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 45567899999753 346899999999843
No 19
>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=61.74 E-value=3.3 Score=28.49 Aligned_cols=32 Identities=16% Similarity=0.282 Sum_probs=25.2
Q ss_pred CCCCCCCccCCCCc-------ccccccCCccCCC-Ccccc
Q 024803 148 VDPDNENSLSRKRV-------RYCKICKAHVEGF-DHHCP 179 (262)
Q Consensus 148 ~~C~~C~~~kP~Rs-------~HC~~C~~CV~r~-DHHCp 179 (262)
.-|..|+.--|+-| .-|..|..|+..+ +++||
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP 45 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP 45 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc
Confidence 35778877666553 6688999999998 99998
No 20
>PF12773 DZR: Double zinc ribbon
Probab=61.45 E-value=7.3 Score=25.42 Aligned_cols=25 Identities=12% Similarity=0.206 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCccCCCCcccccccC
Q 024803 144 SELGVDPDNENSLSRKRVRYCKICK 168 (262)
Q Consensus 144 ~~~~~~C~~C~~~kP~Rs~HC~~C~ 168 (262)
+....+|+.|....++.++.|..||
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 4456799999999999999999986
No 21
>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 PF06336 Corona_5a: Coronavirus 5a protein; InterPro: IPR009404 This family consists of several Coronavirus 5a proteins. The function of this family is unknown [].
Probab=57.84 E-value=13 Score=25.59 Aligned_cols=22 Identities=45% Similarity=0.615 Sum_probs=17.3
Q ss_pred hhhhhHHHHHHHH-HHHHHhhhh
Q 024803 14 LPLICRCIISCIL-VLLTQLTLS 35 (262)
Q Consensus 14 ~~~~~~~~~~~~~-~~~~~~~~~ 35 (262)
|..++|+.|||+= +||||+-|.
T Consensus 4 ltsfgra~iscyksllltqlrvl 26 (65)
T PF06336_consen 4 LTSFGRAFISCYKSLLLTQLRVL 26 (65)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHH
Confidence 5678999999995 567888764
No 23
>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=57.58 E-value=14 Score=35.40 Aligned_cols=32 Identities=6% Similarity=0.020 Sum_probs=24.7
Q ss_pred CCCCCCCCc-cCCCCcccccccCCccCCCCccc
Q 024803 147 GVDPDNENS-LSRKRVRYCKICKAHVEGFDHHC 178 (262)
Q Consensus 147 ~~~C~~C~~-~kP~Rs~HC~~C~~CV~r~DHHC 178 (262)
..-|+.|+. .+|....||+.||.-..+.+++.
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 446999997 55666778999999887777764
No 24
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=53.64 E-value=4.6 Score=23.71 Aligned_cols=21 Identities=14% Similarity=0.192 Sum_probs=15.4
Q ss_pred CCCCCCccCCCCcccccccCC
Q 024803 149 DPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
.|+.|...-++++.+|..|+.
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 588888888888889988874
No 25
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=51.38 E-value=7.9 Score=27.24 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=19.7
Q ss_pred CCCCCCCccCCCCcccccccCC
Q 024803 148 VDPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
+-|..|+...|+.+.-|+.||.
T Consensus 5 kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 5 KACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred HHHhhccccCCCCCccCCCCCC
Confidence 4589999999999999999986
No 26
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=48.39 E-value=7.8 Score=34.43 Aligned_cols=15 Identities=33% Similarity=0.352 Sum_probs=11.3
Q ss_pred CCccCCCCccccccc
Q 024803 168 KAHVEGFDHHCPAFG 182 (262)
Q Consensus 168 ~~CV~r~DHHCpWv~ 182 (262)
-.-..+.||||||..
T Consensus 35 ~eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 35 LEHRSYESHHCPKGL 49 (250)
T ss_pred hccchHhhcCCCccc
Confidence 345677899999975
No 27
>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=45.84 E-value=13 Score=24.67 Aligned_cols=24 Identities=13% Similarity=0.149 Sum_probs=15.9
Q ss_pred CCCCCCCc--cCCCCcccccccCCcc
Q 024803 148 VDPDNENS--LSRKRVRYCKICKAHV 171 (262)
Q Consensus 148 ~~C~~C~~--~kP~Rs~HC~~C~~CV 171 (262)
+-|..|+. -.-.|.|||+.||+-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 34666653 2346789999998753
No 28
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=45.42 E-value=4.8 Score=26.85 Aligned_cols=24 Identities=13% Similarity=0.108 Sum_probs=21.1
Q ss_pred CCCCCCCCccCCCCcccccccCCc
Q 024803 147 GVDPDNENSLSRKRVRYCKICKAH 170 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~C 170 (262)
...|..|...-|+|+..|+.|+.=
T Consensus 14 kkIC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 14 KKICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred HHHHHHhcCCCCcchhHHhhccCC
Confidence 468999999999999999988753
No 29
>PF08600 Rsm1: Rsm1-like; InterPro: IPR013909 This entry contains Nuclear-interacting partner of ALK (NIPA) and NIPA like proteins, as well as mRNA export factor Rsm1, all of which contain a C3HC-type zinc finger. The domain represented in this entry is found C-terminal to the zinc-finger like domain IPR012935 from INTERPRO. Rsm1 is involved in mRNA export from the nucleus []. NIPA is an essential component of an SCF-type E3 ligase complex, SCF(NIPA), a complex that controls mitotic entry by mediating ubiquitination and subsequent degradation of cyclin B1 (CCNB1). Its cell-cycle-dependent phosphorylation regulates the assembly of the SCF(NIPA) complex, restricting CCNB1 ubiquitination activity to interphase. Its inactivation results in nuclear accumulation of CCNB1 in interphase and premature mitotic entry [].
Probab=42.81 E-value=12 Score=28.11 Aligned_cols=12 Identities=17% Similarity=0.346 Sum_probs=8.8
Q ss_pred CCccccccccch
Q 024803 174 FDHHCPAFGNCI 185 (262)
Q Consensus 174 ~DHHCpWv~nCV 185 (262)
+-.||||+|.-.
T Consensus 54 Hr~~CPwv~~~~ 65 (91)
T PF08600_consen 54 HREYCPWVNPST 65 (91)
T ss_pred ccccCCccCCcc
Confidence 336899998655
No 30
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=42.14 E-value=40 Score=31.13 Aligned_cols=115 Identities=12% Similarity=-0.042 Sum_probs=64.5
Q ss_pred CCCCCCCCCCCCccCCCCcccccccCCccCCCCccccccccch--h-hh-HHHHHHH-HHhhhh--ccCC-------ccC
Q 024803 143 GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCI--E-AS-YVACSAQ-FVGKSQ--NFDK-------SQS 208 (262)
Q Consensus 143 ~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV--~-~~-yFl~~~~-~~~~~~--~~~~-------~~~ 208 (262)
+.++...|+.|+.=-...-|||.-=|+||.+..|-= +.-=.. . +. .++.... ++.... ..+. ...
T Consensus 119 KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~-F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~ 197 (309)
T COG5273 119 KPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRF-FYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLIFG 197 (309)
T ss_pred cCCCCccchhhcchhhccCccCcccccccCcchHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHh
Confidence 456678999999999999999999999999877631 111111 0 00 0111111 221111 0000 000
Q ss_pred CCchHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchhhhhhcchhhh
Q 024803 209 ENDWVVN-LATSTMLFSILQLLWQAVFFMWHIYCVCFNVRTDEWVSPQVKQ 258 (262)
Q Consensus 209 ~~~~~~~-~~i~~~i~~~l~~l~~~~Ll~~hlyLi~~n~TT~E~~~~~r~~ 258 (262)
....... ..+..++.......+.......+.+.+.++.++-|.....|.+
T Consensus 198 ~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~ 248 (309)
T COG5273 198 CSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRES 248 (309)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccC
Confidence 1111111 2233334445555666667788999999999999987655544
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=41.86 E-value=52 Score=29.19 Aligned_cols=27 Identities=19% Similarity=0.202 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCcCCCC
Q 024803 107 LFNIEVAMIIIGLCSIMSKDPGLITNE 133 (262)
Q Consensus 107 ~~~~~~~~~l~~~~~~~~~dPG~vp~~ 133 (262)
++.+..+.++-.|..|..+|||...+.
T Consensus 199 Vitl~vf~LvgLyr~C~k~dPg~p~~g 225 (259)
T PF07010_consen 199 VITLSVFTLVGLYRMCWKTDPGTPENG 225 (259)
T ss_pred HHHHHHHHHHHHHHHhhcCCCCCcccC
Confidence 444455555567888999999965543
No 32
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=41.79 E-value=81 Score=30.43 Aligned_cols=32 Identities=6% Similarity=-0.051 Sum_probs=26.2
Q ss_pred CCCCCCCCccCCCCcccccccCCccCCCCccc
Q 024803 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHHC 178 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC 178 (262)
..-|+.|+...|....||+.||.-..+.+++.
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 44699999988877789999999887777764
No 33
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=37.25 E-value=24 Score=23.01 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=12.8
Q ss_pred CCCCCCCccCCCC------cccccccCC
Q 024803 148 VDPDNENSLSRKR------VRYCKICKA 169 (262)
Q Consensus 148 ~~C~~C~~~kP~R------s~HC~~C~~ 169 (262)
++|+.|+....++ ...|+.||.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~ 28 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGY 28 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCC
Confidence 4788886544332 344777763
No 34
>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=37.20 E-value=15 Score=24.88 Aligned_cols=26 Identities=12% Similarity=0.037 Sum_probs=17.1
Q ss_pred CCCCCCCCCCccCCCCcccccc--cCCc
Q 024803 145 ELGVDPDNENSLSRKRVRYCKI--CKAH 170 (262)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~--C~~C 170 (262)
.....|.+|...-|+|+..|+- ||.+
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 3456899999999999999998 7754
No 35
>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=34.94 E-value=24 Score=20.94 Aligned_cols=23 Identities=13% Similarity=0.076 Sum_probs=11.2
Q ss_pred CCCCCCCCc----cCCCCcccccccCC
Q 024803 147 GVDPDNENS----LSRKRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~----~kP~Rs~HC~~C~~ 169 (262)
.+||..|.. ..-.+++.|+.|+.
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 468888864 22346677777664
No 36
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=32.15 E-value=38 Score=34.63 Aligned_cols=17 Identities=35% Similarity=0.772 Sum_probs=7.7
Q ss_pred cccccCCccCCCCcccc
Q 024803 163 YCKICKAHVEGFDHHCP 179 (262)
Q Consensus 163 HC~~C~~CV~r~DHHCp 179 (262)
.|..||.=+..-..+||
T Consensus 29 ~Cp~CG~~~~~~~~fC~ 45 (645)
T PRK14559 29 PCPQCGTEVPVDEAHCP 45 (645)
T ss_pred cCCCCCCCCCccccccc
Confidence 44444444444444443
No 37
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=31.83 E-value=34 Score=22.79 Aligned_cols=24 Identities=13% Similarity=-0.007 Sum_probs=15.3
Q ss_pred CCCCCCCCCc-c--CCCCcccccccCC
Q 024803 146 LGVDPDNENS-L--SRKRVRYCKICKA 169 (262)
Q Consensus 146 ~~~~C~~C~~-~--kP~Rs~HC~~C~~ 169 (262)
..++|+.|.. . .-....||..||.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 3569999976 2 2234667777763
No 38
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=31.75 E-value=27 Score=19.39 Aligned_cols=21 Identities=19% Similarity=0.165 Sum_probs=17.0
Q ss_pred CCCCCCccCCCCcccccccCC
Q 024803 149 DPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
.|+.|.....+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 588888888888888888874
No 39
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=31.05 E-value=22 Score=27.86 Aligned_cols=25 Identities=12% Similarity=0.138 Sum_probs=18.2
Q ss_pred CCCCCCCCCCccCCCCccc---ccccCC
Q 024803 145 ELGVDPDNENSLSRKRVRY---CKICKA 169 (262)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~H---C~~C~~ 169 (262)
....+|..|+..-|...++ |+.||.
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred CcEEEcccCCCeeecCCccCCcCcCcCC
Confidence 3456899999877765444 888875
No 40
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=30.40 E-value=17 Score=35.86 Aligned_cols=22 Identities=14% Similarity=0.163 Sum_probs=15.0
Q ss_pred CCCCCCCcc--CCCCcccccccCC
Q 024803 148 VDPDNENSL--SRKRVRYCKICKA 169 (262)
Q Consensus 148 ~~C~~C~~~--kP~Rs~HC~~C~~ 169 (262)
..|-.|+.. .-.|-|||+-||.
T Consensus 902 ~~cmacq~pf~afrrrhhcrncgg 925 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGG 925 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCc
Confidence 356677642 2358899999886
No 41
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=28.40 E-value=36 Score=23.38 Aligned_cols=21 Identities=19% Similarity=0.148 Sum_probs=14.8
Q ss_pred CCCCCCCCccCCCCccc-ccccCC
Q 024803 147 GVDPDNENSLSRKRVRY-CKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~H-C~~C~~ 169 (262)
...|+.|...+. .|| |..||.
T Consensus 27 l~~C~~CG~~~~--~H~vC~~CG~ 48 (57)
T PRK12286 27 LVECPNCGEPKL--PHRVCPSCGY 48 (57)
T ss_pred ceECCCCCCccC--CeEECCCCCc
Confidence 457999996554 466 888874
No 42
>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=28.25 E-value=17 Score=22.32 Aligned_cols=8 Identities=0% Similarity=-0.459 Sum_probs=5.3
Q ss_pred CCCCCCCc
Q 024803 148 VDPDNENS 155 (262)
Q Consensus 148 ~~C~~C~~ 155 (262)
++|++|+.
T Consensus 2 ~FCp~C~n 9 (35)
T PF02150_consen 2 RFCPECGN 9 (35)
T ss_dssp -BETTTTS
T ss_pred eeCCCCCc
Confidence 57888864
No 43
>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=28.14 E-value=13 Score=24.51 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=13.1
Q ss_pred cccCCccCCCCcccccc
Q 024803 165 KICKAHVEGFDHHCPAF 181 (262)
Q Consensus 165 ~~C~~CV~r~DHHCpWv 181 (262)
..|+.|+...|-+|.|=
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 67788888888788774
No 44
>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=28.03 E-value=49 Score=19.34 Aligned_cols=20 Identities=15% Similarity=-0.056 Sum_probs=13.8
Q ss_pred CCCCCCccCCCC-cccccccC
Q 024803 149 DPDNENSLSRKR-VRYCKICK 168 (262)
Q Consensus 149 ~C~~C~~~kP~R-s~HC~~C~ 168 (262)
.|..|+...... ..||+.|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 477776666666 77787766
No 45
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=27.81 E-value=51 Score=19.80 Aligned_cols=20 Identities=25% Similarity=0.584 Sum_probs=10.6
Q ss_pred CCCCCCccCCCC-ccc-ccccC
Q 024803 149 DPDNENSLSRKR-VRY-CKICK 168 (262)
Q Consensus 149 ~C~~C~~~kP~R-s~H-C~~C~ 168 (262)
.|..|...+..+ |.. |+.|+
T Consensus 2 rC~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 2 RCKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CCeECCcCCccceeEEEccCCC
Confidence 355565544444 333 77775
No 46
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=27.47 E-value=21 Score=36.96 Aligned_cols=26 Identities=23% Similarity=0.443 Sum_probs=22.6
Q ss_pred Cccccc---ccCCccCCCCccccccc---cch
Q 024803 160 RVRYCK---ICKAHVEGFDHHCPAFG---NCI 185 (262)
Q Consensus 160 Rs~HC~---~C~~CV~r~DHHCpWv~---nCV 185 (262)
.-|+|. .|..|++.+|-||.|-+ .|+
T Consensus 490 pl~~C~~y~~C~dcclarDPYCAWd~~~~~C~ 521 (737)
T KOG3611|consen 490 PLARCSRYGSCADCCLARDPYCAWDGVNSKCS 521 (737)
T ss_pred ehhHhhcccchhhhhhccCCCccccCCCCcce
Confidence 367888 89998888999999987 798
No 47
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=26.91 E-value=9.9 Score=34.29 Aligned_cols=22 Identities=9% Similarity=0.220 Sum_probs=15.0
Q ss_pred ccCCCCcccccccCCccCCCCc
Q 024803 155 SLSRKRVRYCKICKAHVEGFDH 176 (262)
Q Consensus 155 ~~kP~Rs~HC~~C~~CV~r~DH 176 (262)
..+..++.||+.|.+|+.+|.|
T Consensus 285 ~~~Q~K~N~~~~~~~~~q~~~H 306 (325)
T KOG4399|consen 285 KQKQRKSNKMKMETTKGQSMNH 306 (325)
T ss_pred HHHhcccchhhhhhhhhhhhHH
Confidence 3445566777777888887665
No 48
>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=26.90 E-value=33 Score=19.99 Aligned_cols=21 Identities=14% Similarity=0.105 Sum_probs=8.3
Q ss_pred CCCCCCccCCC-CcccccccCC
Q 024803 149 DPDNENSLSRK-RVRYCKICKA 169 (262)
Q Consensus 149 ~C~~C~~~kP~-Rs~HC~~C~~ 169 (262)
.|..|+..... ...+|+.|+-
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 47777766655 6778888764
No 49
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=26.05 E-value=40 Score=22.93 Aligned_cols=21 Identities=24% Similarity=0.094 Sum_probs=14.2
Q ss_pred CCCCCCCCccCCCCccc-ccccCC
Q 024803 147 GVDPDNENSLSRKRVRY-CKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~H-C~~C~~ 169 (262)
...|+.|.. +-+.|| |..||.
T Consensus 26 l~~C~~cG~--~~~~H~vc~~cG~ 47 (55)
T TIGR01031 26 LVVCPNCGE--FKLPHRVCPSCGY 47 (55)
T ss_pred ceECCCCCC--cccCeeECCccCe
Confidence 346888885 445676 777773
No 50
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=25.92 E-value=22 Score=22.78 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=9.9
Q ss_pred cccCCccCCCCcccccc
Q 024803 165 KICKAHVEGFDHHCPAF 181 (262)
Q Consensus 165 ~~C~~CV~r~DHHCpWv 181 (262)
+.|..|+...|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 34566666666666653
No 51
>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=25.76 E-value=42 Score=23.28 Aligned_cols=25 Identities=16% Similarity=0.113 Sum_probs=18.2
Q ss_pred CCCCCCCCCccC----CCCcccccccCCc
Q 024803 146 LGVDPDNENSLS----RKRVRYCKICKAH 170 (262)
Q Consensus 146 ~~~~C~~C~~~k----P~Rs~HC~~C~~C 170 (262)
..+.|+.|.... ..|..+|+.||.-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCE
Confidence 467899997644 4477889888864
No 52
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=25.24 E-value=34 Score=31.65 Aligned_cols=26 Identities=38% Similarity=0.911 Sum_probs=24.4
Q ss_pred CcccccccCCccCCCCccccccccch
Q 024803 160 RVRYCKICKAHVEGFDHHCPAFGNCI 185 (262)
Q Consensus 160 Rs~HC~~C~~CV~r~DHHCpWv~nCV 185 (262)
+.+.|..|+.-...+-|||.--+.||
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCv 133 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCV 133 (307)
T ss_pred CceeecccccccCCccccchhhhhhh
Confidence 78899999999999999999999999
No 53
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.52 E-value=47 Score=33.92 Aligned_cols=22 Identities=14% Similarity=0.238 Sum_probs=13.5
Q ss_pred CCCCCCccCCCCcccccccCCc
Q 024803 149 DPDNENSLSRKRVRYCKICKAH 170 (262)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~C 170 (262)
.|+.|+...|+.++.|..||.=
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~ 24 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTS 24 (645)
T ss_pred cCCCCCCcCCCCCccccccCCC
Confidence 4666666666666666666553
No 54
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.87 E-value=31 Score=35.01 Aligned_cols=23 Identities=13% Similarity=0.148 Sum_probs=17.4
Q ss_pred CCCCCCCCcc--CCCCcccccccCC
Q 024803 147 GVDPDNENSL--SRKRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~--kP~Rs~HC~~C~~ 169 (262)
..-|.+|+.. ---|.|||+.||+
T Consensus 165 ~~~C~rCr~~F~~~~rkHHCr~CG~ 189 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTNRKHHCRNCGQ 189 (634)
T ss_pred ccccceeeeeeeeccccccccccch
Confidence 3578888752 2249999999998
No 55
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=23.26 E-value=60 Score=31.33 Aligned_cols=30 Identities=10% Similarity=0.052 Sum_probs=21.4
Q ss_pred CCCCCCCcc------CCCCcccccccCCccCCCCcc
Q 024803 148 VDPDNENSL------SRKRVRYCKICKAHVEGFDHH 177 (262)
Q Consensus 148 ~~C~~C~~~------kP~Rs~HC~~C~~CV~r~DHH 177 (262)
.-|++|+.. +|...-||+.||.-..+.+++
T Consensus 11 ~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 46 (419)
T PRK15103 11 ILCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWDE 46 (419)
T ss_pred ccCCCCCceeecCCCCCCCeeECCCCCCCCcCCCCC
Confidence 459999853 223456799999888777765
No 56
>COG0833 LysP Amino acid transporters [Amino acid transport and metabolism]
Probab=23.08 E-value=1e+02 Score=30.88 Aligned_cols=48 Identities=21% Similarity=0.292 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHHhhhhhccccccchhHH---HHHHHHHHHHHHHHHhhc
Q 024803 18 CRCIISCILVLLTQLTLSLVPRFFAASPFI---VQFALSGLVLLLVQTLCG 65 (262)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~ 65 (262)
.-+++-|+++++.|+-+++.|-.+.+..++ +.+|+.-..+.+.+...|
T Consensus 451 ~~~~~~~~li~i~q~y~af~p~~~~~~~F~~~Yl~~pi~i~~y~~yk~~~k 501 (541)
T COG0833 451 IYGLILCILILIGQGYVAFFPIGFSAGDFFAAYLGLPIFIAIYIGYKLYKK 501 (541)
T ss_pred HHHHHHHHHHHHHcchheeecCCccHHHHHHHHHHHHHHHHHHHHheeEec
Confidence 347889999999999999999999977776 444555555555554444
No 57
>COG4640 Predicted membrane protein [Function unknown]
Probab=22.73 E-value=49 Score=31.73 Aligned_cols=26 Identities=12% Similarity=-0.010 Sum_probs=21.5
Q ss_pred CCCCCCCCccCCCCcccccccCCccC
Q 024803 147 GVDPDNENSLSRKRVRYCKICKAHVE 172 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~ 172 (262)
.++|+.|...+-+.+..|..||.=+-
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~t 26 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKFT 26 (465)
T ss_pred CCcccccccccccccccccccCCcCC
Confidence 36899999999998988998887443
No 58
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=22.60 E-value=75 Score=20.61 Aligned_cols=33 Identities=15% Similarity=0.168 Sum_probs=21.7
Q ss_pred CCCCCCCCCccC---CCCcccccccC-----CccCCCCccc
Q 024803 146 LGVDPDNENSLS---RKRVRYCKICK-----AHVEGFDHHC 178 (262)
Q Consensus 146 ~~~~C~~C~~~k---P~Rs~HC~~C~-----~CV~r~DHHC 178 (262)
.+.+|..|+..- .....+|+.|+ +|..+.+.-|
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~~C 50 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPPSC 50 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSSBS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCCCC
Confidence 456899998765 55678899995 4555555544
No 59
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=22.54 E-value=41 Score=26.18 Aligned_cols=23 Identities=17% Similarity=0.236 Sum_probs=14.5
Q ss_pred CCCCCCCCccCC----CCcccccccCC
Q 024803 147 GVDPDNENSLSR----KRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP----~Rs~HC~~C~~ 169 (262)
.-.|+.|...+- =|++||+.|+.
T Consensus 42 ~~~C~~Cg~~~~~~~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 42 RYRCEDCGHEKIVYNSCKNRHCPSCQA 68 (111)
T ss_pred eeecCCCCceEEecCcccCcCCCCCCC
Confidence 347888876553 24566777664
No 60
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=22.29 E-value=70 Score=24.70 Aligned_cols=29 Identities=10% Similarity=0.079 Sum_probs=20.7
Q ss_pred CCCCCCCCCCccCCCCcccc------cccCCccCC
Q 024803 145 ELGVDPDNENSLSRKRVRYC------KICKAHVEG 173 (262)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC------~~C~~CV~r 173 (262)
+.+..|+.|+..+++....| +.|..|-.+
T Consensus 5 ~~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~ 39 (105)
T PF10497_consen 5 VNGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGK 39 (105)
T ss_pred CCCCCchhhcCCCCCCceEcCCCCCCCCCccCcce
Confidence 45678999999888777778 555444443
No 61
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]
Probab=21.78 E-value=37 Score=31.39 Aligned_cols=21 Identities=19% Similarity=0.170 Sum_probs=16.2
Q ss_pred CCCCCCCCccCCCCcccccccCC
Q 024803 147 GVDPDNENSLSRKRVRYCKICKA 169 (262)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~ 169 (262)
.+||++|...+| .|.|+.|+.
T Consensus 319 ~~fCstCG~~ga--~KrCs~CKa 339 (396)
T KOG1710|consen 319 CQFCSTCGHPGA--KKRCSQCKA 339 (396)
T ss_pred cccccccCCCCc--cchhhhhHH
Confidence 469999998777 567777763
No 62
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=20.88 E-value=36 Score=20.74 Aligned_cols=23 Identities=17% Similarity=0.251 Sum_probs=12.6
Q ss_pred CCCCCCCCCccCCCCcccccccC
Q 024803 146 LGVDPDNENSLSRKRVRYCKICK 168 (262)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~C~ 168 (262)
....|..|..+.-|....|+.|+
T Consensus 10 ~~~rC~~Cg~~~~pPr~~Cp~C~ 32 (37)
T PF12172_consen 10 LGQRCRDCGRVQFPPRPVCPHCG 32 (37)
T ss_dssp EEEE-TTT--EEES--SEETTTT
T ss_pred EEEEcCCCCCEecCCCcCCCCcC
Confidence 35679999876443348888776
No 63
>COG0348 NapH Polyferredoxin [Energy production and conversion]
Probab=20.85 E-value=1.4e+02 Score=28.38 Aligned_cols=18 Identities=0% Similarity=-0.138 Sum_probs=12.2
Q ss_pred HHHHHHhhcCCCcCCCCC
Q 024803 117 IGLCSIMSKDPGLITNEF 134 (262)
Q Consensus 117 ~~~~~~~~~dPG~vp~~~ 134 (262)
..|.-.....+|++++..
T Consensus 167 ~~~~~~~~~~~~~~rr~~ 184 (386)
T COG0348 167 AVFAFLLLGFGLFVRRFW 184 (386)
T ss_pred HHHHHHHHHcccccccce
Confidence 345556667888888764
No 64
>PLN00186 ribosomal protein S26; Provisional
Probab=20.82 E-value=43 Score=26.16 Aligned_cols=22 Identities=14% Similarity=0.019 Sum_probs=16.4
Q ss_pred CCcccccccCCccCCCCccccc
Q 024803 159 KRVRYCKICKAHVEGFDHHCPA 180 (262)
Q Consensus 159 ~Rs~HC~~C~~CV~r~DHHCpW 180 (262)
.+.-||..||+||.+=---+.+
T Consensus 18 v~~V~C~nCgr~vPKDKAIkrf 39 (109)
T PLN00186 18 VKRIRCSNCGKCVPKDKAIKRF 39 (109)
T ss_pred CcceeeCCCcccccccceEEEE
Confidence 3467899999999876655544
No 65
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=20.58 E-value=43 Score=36.18 Aligned_cols=34 Identities=18% Similarity=0.224 Sum_probs=21.6
Q ss_pred CCCCCC--ccCCCCcccccccCCccCCCCccccccccchhhhHHH
Q 024803 149 DPDNEN--SLSRKRVRYCKICKAHVEGFDHHCPAFGNCIEASYVA 191 (262)
Q Consensus 149 ~C~~C~--~~kP~Rs~HC~~C~~CV~r~DHHCpWv~nCV~~~yFl 191 (262)
-|-.|. -.--.|-||||.||+- .=+-|-|.|.++
T Consensus 559 ncm~clqkft~ikrrhhcRacgkV---------lcgvccnek~~l 594 (1287)
T KOG1841|consen 559 NCMDCLQKFTPIKRRHHCRACGKV---------LCGVCCNEKSAL 594 (1287)
T ss_pred hHHHHHhhcccccccccchhccce---------eehhhcchhhhh
Confidence 444444 2345689999999983 235566766654
No 66
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=20.25 E-value=47 Score=25.36 Aligned_cols=23 Identities=17% Similarity=0.208 Sum_probs=18.0
Q ss_pred CCcccccccCCccCCCCcccccc
Q 024803 159 KRVRYCKICKAHVEGFDHHCPAF 181 (262)
Q Consensus 159 ~Rs~HC~~C~~CV~r~DHHCpWv 181 (262)
.+.-+|..||+||.|----+.+.
T Consensus 18 v~~V~C~nCgr~vPKDKAIkrf~ 40 (95)
T PRK09335 18 VGYVQCDNCGRRVPRDKAVCVTK 40 (95)
T ss_pred CccEEeCCCCCcCcCCceEEEEE
Confidence 45678999999999877777554
Done!