Query 021324
Match_columns 314
No_of_seqs 235 out of 1495
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 09:20:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021324.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021324hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1311 DHHC-type Zn-finger pr 100.0 4.1E-45 8.9E-50 346.2 13.7 180 14-193 97-279 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 1.6E-36 3.4E-41 287.2 15.7 154 21-180 100-258 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 7.9E-36 1.7E-40 259.9 10.1 137 19-156 37-173 (174)
4 KOG1313 DHHC-type Zn-finger pr 100.0 2E-34 4.4E-39 264.5 6.7 161 22-183 94-279 (309)
5 COG5273 Uncharacterized protei 100.0 1.9E-30 4.2E-35 247.4 9.7 127 23-155 102-231 (309)
6 KOG1314 DHHC-type Zn-finger pr 100.0 1.4E-30 3E-35 245.9 6.4 153 28-180 89-263 (414)
7 KOG1312 DHHC-type Zn-finger pr 99.9 1.1E-28 2.3E-33 228.0 6.2 127 30-156 148-290 (341)
8 KOG0509 Ankyrin repeat and DHH 99.9 2.9E-25 6.4E-30 223.1 3.0 141 31-178 421-583 (600)
9 KOG1311 DHHC-type Zn-finger pr 95.8 0.05 1.1E-06 51.7 8.9 42 43-84 112-164 (299)
10 COG5273 Uncharacterized protei 94.8 0.086 1.9E-06 50.9 7.3 52 26-88 119-170 (309)
11 PF01529 zf-DHHC: DHHC palmito 94.3 0.21 4.6E-06 43.1 7.8 34 40-73 44-77 (174)
12 KOG0509 Ankyrin repeat and DHH 83.5 0.45 9.7E-06 49.5 0.8 54 30-84 325-379 (600)
13 PF13240 zinc_ribbon_2: zinc-r 75.5 1.7 3.6E-05 25.9 1.1 21 32-52 1-21 (23)
14 PRK04136 rpl40e 50S ribosomal 68.6 3.1 6.8E-05 29.3 1.4 24 29-52 13-36 (48)
15 PF13248 zf-ribbon_3: zinc-rib 68.0 3 6.5E-05 25.3 1.1 22 31-52 3-24 (26)
16 PRK15103 paraquat-inducible me 67.1 71 0.0015 32.2 11.3 33 29-61 220-252 (419)
17 TIGR00155 pqiA_fam integral me 64.6 55 0.0012 32.8 10.0 32 30-61 13-50 (403)
18 PF12773 DZR: Double zinc ribb 64.6 5.8 0.00013 27.3 2.2 35 29-63 11-48 (50)
19 KOG1313 DHHC-type Zn-finger pr 62.9 12 0.00025 35.9 4.4 70 10-90 91-165 (309)
20 KOG1315 Predicted DHHC-type Zn 59.4 78 0.0017 30.7 9.6 32 43-74 108-139 (307)
21 TIGR00155 pqiA_fam integral me 57.6 1.4E+02 0.003 30.0 11.3 33 29-61 214-247 (403)
22 PF10571 UPF0547: Uncharacteri 54.1 7.9 0.00017 23.7 1.2 22 31-52 1-22 (26)
23 PTZ00303 phosphatidylinositol 49.8 9 0.0002 41.5 1.6 22 31-52 461-489 (1374)
24 PHA02680 ORF090 IMV phosphoryl 46.1 90 0.0019 24.8 6.2 23 132-154 59-81 (91)
25 PF00641 zf-RanBP: Zn-finger i 45.4 9.9 0.00021 23.5 0.7 22 31-52 5-26 (30)
26 PF12773 DZR: Double zinc ribb 45.0 15 0.00033 25.1 1.7 24 28-51 27-50 (50)
27 PF01020 Ribosomal_L40e: Ribos 42.2 18 0.00039 25.9 1.7 24 30-53 17-42 (52)
28 PF10864 DUF2663: Protein of u 41.9 1E+02 0.0022 26.3 6.4 15 75-89 23-37 (130)
29 COG1552 RPL40A Ribosomal prote 35.0 8.4 0.00018 27.3 -0.9 25 29-53 13-37 (50)
30 PRK15103 paraquat-inducible me 34.7 1.7E+02 0.0038 29.5 8.0 29 32-60 12-46 (419)
31 PF05478 Prominin: Prominin; 33.8 1.7E+02 0.0037 31.9 8.4 17 72-88 411-427 (806)
32 KOG1842 FYVE finger-containing 32.1 13 0.00028 37.7 -0.5 25 30-54 180-206 (505)
33 PF07649 C1_3: C1-like domain; 31.5 17 0.00038 22.4 0.2 23 31-53 1-24 (30)
34 PF06906 DUF1272: Protein of u 31.0 21 0.00046 26.0 0.6 36 32-70 7-50 (57)
35 PF01363 FYVE: FYVE zinc finge 30.8 19 0.00042 26.3 0.4 25 30-54 9-35 (69)
36 KOG1314 DHHC-type Zn-finger pr 29.5 1.1E+02 0.0023 30.6 5.2 48 24-82 98-146 (414)
37 TIGR02484 CitB CitB domain pro 29.2 1.7E+02 0.0038 29.2 6.8 15 45-63 48-62 (372)
38 PRK13743 conjugal transfer pro 28.8 3.3E+02 0.0073 23.3 7.4 21 73-93 38-58 (141)
39 PF08600 Rsm1: Rsm1-like; Int 28.3 30 0.00066 27.3 1.1 15 55-69 52-66 (91)
40 PF09889 DUF2116: Uncharacteri 27.4 41 0.00089 24.7 1.6 23 30-52 3-26 (59)
41 PRK14559 putative protein seri 24.1 53 0.0011 35.1 2.3 33 21-53 18-50 (645)
42 KOG3183 Predicted Zn-finger pr 24.0 37 0.0008 31.8 1.0 14 52-65 36-49 (250)
43 smart00064 FYVE Protein presen 22.9 57 0.0012 23.6 1.7 25 30-54 10-36 (68)
44 PRK15033 tricarballylate utili 22.7 2.3E+02 0.005 28.5 6.4 14 46-63 68-81 (389)
45 PRK06231 F0F1 ATP synthase sub 22.4 2.1E+02 0.0046 25.8 5.6 24 109-132 40-63 (205)
46 PRK13130 H/ACA RNA-protein com 21.9 62 0.0013 23.5 1.6 23 28-52 3-25 (56)
47 cd01995 ExsB ExsB is a transcr 21.6 29 0.00062 29.6 -0.2 24 31-57 141-164 (169)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=4.1e-45 Score=346.17 Aligned_cols=180 Identities=40% Similarity=0.652 Sum_probs=156.1
Q ss_pred CCCCcceeeecCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHH
Q 021324 14 QFPRTKEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSM 93 (314)
Q Consensus 14 ~~p~~k~v~vng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~ 93 (314)
+.|+.+++.+||..++++||.+|+.+||||||||++||+||+||||||||+|||||++|||||++|++++++++++.+++
T Consensus 97 ~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~ 176 (299)
T KOG1311|consen 97 RAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAF 176 (299)
T ss_pred ccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHH
Confidence 68889999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHHHHhccccchh--hhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCceeEEeeee-ccCCCCCCCchhHH
Q 021324 94 SALYIKILMEDHHGTVW--RAMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY-RADNRLNVYDRGCV 170 (314)
Q Consensus 94 ~~~~i~~~~~~~~~~~w--~~~~~~~~~vi~~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k~-~~~~~~Npyd~G~~ 170 (314)
++.++...........+ .........++++++++++++++++|+.||+|+|.+|+||+|.++. +.+...++|++|.+
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~ 256 (299)
T KOG1311|consen 177 LFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLL 256 (299)
T ss_pred HHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhccccccccCCCchhHH
Confidence 88887655444333333 2233445566677788889999999999999999999999999884 44444699999999
Q ss_pred HhHHHhcCCCCCCCccccccccc
Q 021324 171 NNFLEVFCTKVKTSRNNFRAFVQ 193 (314)
Q Consensus 171 ~N~~evfg~~~~ps~~~fr~~v~ 193 (314)
+|++++||.+.++++...+....
T Consensus 257 ~n~~~~~~~~~~~~~~~p~~~~~ 279 (299)
T KOG1311|consen 257 KNLQEVFGGPLPLSWLSPFARSG 279 (299)
T ss_pred HHHHHHhCCCCCcccccccccCC
Confidence 99999999999999998887664
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.6e-36 Score=287.22 Aligned_cols=154 Identities=33% Similarity=0.636 Sum_probs=116.5
Q ss_pred eeecCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021324 21 VMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKI 100 (314)
Q Consensus 21 v~vng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~i~~ 100 (314)
+...+...+.|||.+|+.+||+|||||++|++||+||||||||+|||||.+|||||++|++|+++.+++.++.....+..
T Consensus 100 ~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~ 179 (307)
T KOG1315|consen 100 GYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTK 179 (307)
T ss_pred eeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33345556889999999999999999999999999999999999999999999999999999999999887776666554
Q ss_pred HHhccccchhhhcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCceeEEeeeec----cCCCCCCCchhHHHhHHH
Q 021324 101 LMEDHHGTVWRAMK-ASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRYR----ADNRLNVYDRGCVNNFLE 175 (314)
Q Consensus 101 ~~~~~~~~~w~~~~-~~~~~vi~~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k~~----~~~~~Npyd~G~~~N~~e 175 (314)
.... . +.... .....+++++..+.+.+.+++|+++|++||+.|+||+|.++.. .....|.|+. ..|+.+
T Consensus 180 ~~~~-~---~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~~n~~~ 253 (307)
T KOG1315|consen 180 YFQG-G---AGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--YVNFRE 253 (307)
T ss_pred HHhc-c---ccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--eecHHH
Confidence 4411 1 00000 0112233333344444556679999999999999999987653 1234556666 789999
Q ss_pred hcCCC
Q 021324 176 VFCTK 180 (314)
Q Consensus 176 vfg~~ 180 (314)
+||++
T Consensus 254 vfg~~ 258 (307)
T KOG1315|consen 254 VFGSN 258 (307)
T ss_pred HhCCC
Confidence 99986
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=7.9e-36 Score=259.92 Aligned_cols=137 Identities=39% Similarity=0.798 Sum_probs=108.9
Q ss_pred ceeeecCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021324 19 KEVMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYI 98 (314)
Q Consensus 19 k~v~vng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~i 98 (314)
.+...++...+.++|.+|+++||+|||||+.||+||+||||||||+|||||++|||+|++|+++.++++++.++.++.++
T Consensus 37 ~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~ 116 (174)
T PF01529_consen 37 IDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYL 116 (174)
T ss_pred hhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667778899999999999999999999999999999999999999999999999999999999998887776666
Q ss_pred HHHHhccccchhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCceeEEeeee
Q 021324 99 KILMEDHHGTVWRAMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY 156 (314)
Q Consensus 99 ~~~~~~~~~~~w~~~~~~~~~vi~~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k~ 156 (314)
...........+... .....+++++++++.+++++.|+++|+++|++|+||+|.+++
T Consensus 117 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 117 VRYIPSISFSSFWIF-SNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHhhcccccccccc-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 544333222111111 111125566667777888999999999999999999998764
No 4
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2e-34 Score=264.50 Aligned_cols=161 Identities=30% Similarity=0.468 Sum_probs=120.4
Q ss_pred eecCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021324 22 MVNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKIL 101 (314)
Q Consensus 22 ~vng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~i~~~ 101 (314)
..|+..-...+|.+|..+||||+|||++||+||++|||||||+|||||..|||||++|++|+++.+.|+.+++...+...
T Consensus 94 vgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~ 173 (309)
T KOG1313|consen 94 VGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDH 173 (309)
T ss_pred cCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34554456789999999999999999999999999999999999999999999999999999999999877755433222
Q ss_pred Hhc------cccc---hhh---------hcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCceeEEeeeec------
Q 021324 102 MED------HHGT---VWR---------AMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRYR------ 157 (314)
Q Consensus 102 ~~~------~~~~---~w~---------~~~~~~~~vi~~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k~~------ 157 (314)
... ..++ .|. .+..+ -.+...+++...++.+++|+.+|.++|..+.|.+|...+.
T Consensus 174 le~~~~~tay~~d~~h~~Pp~~i~r~~~~i~~t-~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~ 252 (309)
T KOG1313|consen 174 LEPIEEITAYASDVAHVAPPPSILRVYKNITRT-SIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRY 252 (309)
T ss_pred cchHhhcccccCcccccCCChhhhhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhH
Confidence 110 0000 110 00000 0112344455667778999999999999999999865432
Q ss_pred -cCCCCCCCchhHHHhHHHhcCCCCCC
Q 021324 158 -ADNRLNVYDRGCVNNFLEVFCTKVKT 183 (314)
Q Consensus 158 -~~~~~Npyd~G~~~N~~evfg~~~~p 183 (314)
.+.+.||++.|..+||+.++|-..-|
T Consensus 253 ~a~~R~~~~n~g~k~nWr~fLg~~~~r 279 (309)
T KOG1313|consen 253 LAHLRSNPTNFGGKANWRNFLGLFRGR 279 (309)
T ss_pred HHhccCCCcccchHHHHHHhhccccCC
Confidence 24568999999999999999875544
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.96 E-value=1.9e-30 Score=247.44 Aligned_cols=127 Identities=37% Similarity=0.760 Sum_probs=98.2
Q ss_pred ecCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021324 23 VNGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILM 102 (314)
Q Consensus 23 vng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~i~~~~ 102 (314)
..|...+.+||.+|+.+||+|||||+.||+||+||||||||+|||||.+|||+|++|+++.....+++++.++.++....
T Consensus 102 ~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~ 181 (309)
T COG5273 102 DDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIF 181 (309)
T ss_pred hcCccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34556678999999999999999999999999999999999999999999999999999998888888877777765543
Q ss_pred hcccc-chhhhcccchhHHHH--HHHHHHHHHHHHHHHHHHHHHHHcCceeEEeee
Q 021324 103 EDHHG-TVWRAMKASPASVLL--MAYCFISLWFVGGLTGFHLYLIGTNQTTYENFR 155 (314)
Q Consensus 103 ~~~~~-~~w~~~~~~~~~vi~--~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k 155 (314)
..... ..+ ...++. ..+....++++..++.+|.+++..|+||+|.+.
T Consensus 182 ~~~~~~~~~------~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~ 231 (309)
T COG5273 182 SIRHDTSLA------ICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQ 231 (309)
T ss_pred cccCChHHH------HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 32211 111 011111 122233455677889999999999999999654
No 6
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.96 E-value=1.4e-30 Score=245.89 Aligned_cols=153 Identities=29% Similarity=0.510 Sum_probs=107.6
Q ss_pred ccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHH--HHHHHHHHHHH----
Q 021324 28 VRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYV--FSMSALYIKIL---- 101 (314)
Q Consensus 28 ~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~--~~~~~~~i~~~---- 101 (314)
....||..|+-||+||||||+.||+||.+|||||||+|||||..||.||+.||++..+.|+-. +.+++.|-.+.
T Consensus 89 ~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~ 168 (414)
T KOG1314|consen 89 MFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWY 168 (414)
T ss_pred HHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHH
Confidence 457899999999999999999999999999999999999999999999999999999877642 12223222111
Q ss_pred Hhccc---cchhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCceeEEeeee---------c--c--CCCCCCC
Q 021324 102 MEDHH---GTVWRAMKASPASVLLMAYCFISLWFVGGLTGFHLYLIGTNQTTYENFRY---------R--A--DNRLNVY 165 (314)
Q Consensus 102 ~~~~~---~~~w~~~~~~~~~vi~~i~~~i~~~fvg~L~~fhlyLI~~N~TT~E~~k~---------~--~--~~~~Npy 165 (314)
..... +.+.......++.++.+-+.+..++.++.|++.|+..|.+|+|.+|.+-- . . +...-||
T Consensus 169 ~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypy 248 (414)
T KOG1314|consen 169 IKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPY 248 (414)
T ss_pred hhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeec
Confidence 11111 11111111112223333333444555678889999999999999997521 1 1 2345799
Q ss_pred chhHHHhHHHhcCCC
Q 021324 166 DRGCVNNFLEVFCTK 180 (314)
Q Consensus 166 d~G~~~N~~evfg~~ 180 (314)
|+|+..|+++||...
T Consensus 249 dlgWr~n~r~vf~~~ 263 (414)
T KOG1314|consen 249 DLGWRINLREVFFQN 263 (414)
T ss_pred cccccccHHHHhhhc
Confidence 999777999999654
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.95 E-value=1.1e-28 Score=227.98 Aligned_cols=127 Identities=36% Similarity=0.699 Sum_probs=86.7
Q ss_pred ceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhccc--
Q 021324 30 VKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALY-IKILMEDHH-- 106 (314)
Q Consensus 30 ~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~-i~~~~~~~~-- 106 (314)
.+-|+||++.||+|||||++||+||+||||||.|+|||||++|+|||++||++...++.|.+.-..+. +....+..+
T Consensus 148 ~~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v 227 (341)
T KOG1312|consen 148 NVKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEV 227 (341)
T ss_pred CCccccccCCCccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchhe
Confidence 35799999999999999999999999999999999999999999999999999987777765433322 111111110
Q ss_pred ---cchhhhcccchhHHHHHH---------HHHH-HHHHHHHHHHHHHHHHHcCceeEEeeee
Q 021324 107 ---GTVWRAMKASPASVLLMA---------YCFI-SLWFVGGLTGFHLYLIGTNQTTYENFRY 156 (314)
Q Consensus 107 ---~~~w~~~~~~~~~vi~~i---------~~~i-~~~fvg~L~~fhlyLI~~N~TT~E~~k~ 156 (314)
...|...+.....+-.++ +++. .+.++++-..|-+|+-++|+||.|+++.
T Consensus 228 ~ilt~~~g~~ks~~~L~~yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~ 290 (341)
T KOG1312|consen 228 YILTLGHGHVKSTVFLIQYLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRG 290 (341)
T ss_pred eeeeeeecchhhHHHHHHHHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhcc
Confidence 011111111111111111 1111 2234667778889999999999998764
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.90 E-value=2.9e-25 Score=223.06 Aligned_cols=141 Identities=29% Similarity=0.676 Sum_probs=100.3
Q ss_pred eecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchh
Q 021324 31 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCIYVFSMSALYIKILMEDHHGTVW 110 (314)
Q Consensus 31 k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i~~~~~~~~~i~~~~~~~~~~~w 110 (314)
+||.+|.+.||.|+|||++||+||.||||||||++||||.+||++|+.|+++....+.+++..+..|+....... ..|
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~--~~~ 498 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS--TIY 498 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH--HHH
Confidence 699999999999999999999999999999999999999999999999999998888887777777765443221 111
Q ss_pred hhcccchhHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHcCceeEEeeeec--------cCCCCCCCchh
Q 021324 111 RAMKASPASVLLMAYCF--------------ISLWFVGGLTGFHLYLIGTNQTTYENFRYR--------ADNRLNVYDRG 168 (314)
Q Consensus 111 ~~~~~~~~~vi~~i~~~--------------i~~~fvg~L~~fhlyLI~~N~TT~E~~k~~--------~~~~~Npyd~G 168 (314)
... ...+..+.. ...|........|...++.+.||+|.+... .....+|++.|
T Consensus 499 ~~~-----l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~~s~g 573 (600)
T KOG0509|consen 499 VGF-----LIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSPFSPG 573 (600)
T ss_pred HHH-----HHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhccccccCcCCCCCCch
Confidence 110 000000000 001111222334555688899999976432 12347899999
Q ss_pred HHHhHHHhcC
Q 021324 169 CVNNFLEVFC 178 (314)
Q Consensus 169 ~~~N~~evfg 178 (314)
+.+|+.+||-
T Consensus 574 ~~~Nl~df~~ 583 (600)
T KOG0509|consen 574 PIRNLVDFFL 583 (600)
T ss_pred hhhcchheee
Confidence 9999999984
No 9
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=95.77 E-value=0.05 Score=51.73 Aligned_cols=42 Identities=19% Similarity=0.293 Sum_probs=36.8
Q ss_pred CCCCCccCCccccCCCccccccCccccccch-----------HHHHHHHHHHH
Q 021324 43 RCSHCSICNNCVERFDHHCPWVGQCIGLRNY-----------RFFFMFVSSST 84 (314)
Q Consensus 43 Rs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~-----------r~FllFL~~~~ 84 (314)
+-++|..|+..+...-|||..-++||-+.-| |-+-.|+.++.
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 3899999999999999999999999998866 66778986555
No 10
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=94.85 E-value=0.086 Score=50.89 Aligned_cols=52 Identities=25% Similarity=0.427 Sum_probs=40.2
Q ss_pred ccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHHHHHH
Q 021324 26 VPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSSTLLCI 88 (314)
Q Consensus 26 ~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~l~~i 88 (314)
+|-+.++|.+|+.=-...=|||..=|+||.+--| |=.-.|++++.+..+..+
T Consensus 119 KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~ 170 (309)
T COG5273 119 KPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVL 170 (309)
T ss_pred cCCCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHH
Confidence 4567899999999999999999999999997544 445678877755444433
No 11
>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=94.27 E-value=0.21 Score=43.07 Aligned_cols=34 Identities=21% Similarity=0.365 Sum_probs=18.9
Q ss_pred cCCCCCCCccCCccccCCCccccccCccccccch
Q 021324 40 RPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNY 73 (314)
Q Consensus 40 rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~ 73 (314)
.....++|..|+.=....-|||...+.||-+..|
T Consensus 44 ~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DH 77 (174)
T PF01529_consen 44 ENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDH 77 (174)
T ss_pred cCCCCEECcccCCcCCCcceeccccccccccccc
Confidence 3344555555555555555666666666655554
No 12
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=83.45 E-value=0.45 Score=49.54 Aligned_cols=54 Identities=15% Similarity=-0.051 Sum_probs=46.3
Q ss_pred ceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHH-HHHHHHH
Q 021324 30 VKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFF-MFVSSST 84 (314)
Q Consensus 30 ~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~Fl-lFL~~~~ 84 (314)
.-.|.+|.+..+.+..+|..|-.|+..|++||+|+. ||+.+|-..|. .|+++..
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l 379 (600)
T KOG0509|consen 325 TCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVL 379 (600)
T ss_pred heeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHH
Confidence 457999999999999999999999999999999999 99999987544 4444443
No 13
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=75.46 E-value=1.7 Score=25.86 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=18.3
Q ss_pred ecccCCcccCCCCCCCccCCc
Q 021324 32 YCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 32 ~C~tC~~~rPpRs~HCs~C~~ 52 (314)
||+.|...-++-+..|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 689999999999999998874
No 14
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=68.65 E-value=3.1 Score=29.28 Aligned_cols=24 Identities=29% Similarity=0.634 Sum_probs=21.6
Q ss_pred cceecccCCcccCCCCCCCccCCc
Q 021324 29 RVKYCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 29 ~~k~C~tC~~~rPpRs~HCs~C~~ 52 (314)
..+.|..|...-|+|+.-|+.|+.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 456899999999999999998876
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=67.99 E-value=3 Score=25.29 Aligned_cols=22 Identities=23% Similarity=0.674 Sum_probs=18.6
Q ss_pred eecccCCcccCCCCCCCccCCc
Q 021324 31 KYCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 31 k~C~tC~~~rPpRs~HCs~C~~ 52 (314)
++|+.|...-++-++.|..|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5799999988888999988874
No 16
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=67.07 E-value=71 Score=32.23 Aligned_cols=33 Identities=15% Similarity=0.343 Sum_probs=24.5
Q ss_pred cceecccCCcccCCCCCCCccCCccccCCCccc
Q 021324 29 RVKYCDTCMLYRPPRCSHCSICNNCVERFDHHC 61 (314)
Q Consensus 29 ~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHC 61 (314)
...-|+.|....|....||..|+.-..+..++.
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 345699999988777778888888776555544
No 17
>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=64.64 E-value=55 Score=32.82 Aligned_cols=32 Identities=16% Similarity=0.341 Sum_probs=19.8
Q ss_pred ceecccCCccc--C----CCCCCCccCCccccCCCccc
Q 021324 30 VKYCDTCMLYR--P----PRCSHCSICNNCVERFDHHC 61 (314)
Q Consensus 30 ~k~C~tC~~~r--P----pRs~HCs~C~~CV~rfDHHC 61 (314)
..-|+.|...- | ...-+|..|+.-..+.+++.
T Consensus 13 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~~ 50 (403)
T TIGR00155 13 HILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDWS 50 (403)
T ss_pred eeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCCC
Confidence 44599997433 2 23346888887776655554
No 18
>PF12773 DZR: Double zinc ribbon
Probab=64.57 E-value=5.8 Score=27.30 Aligned_cols=35 Identities=23% Similarity=0.468 Sum_probs=25.3
Q ss_pred cceecccCCcccC---CCCCCCccCCccccCCCccccc
Q 021324 29 RVKYCDTCMLYRP---PRCSHCSICNNCVERFDHHCPW 63 (314)
Q Consensus 29 ~~k~C~tC~~~rP---pRs~HCs~C~~CV~rfDHHCpW 63 (314)
..+||..|...-+ .....|..|+.=+...+.+|+.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 3568888877776 3466788888877777777765
No 19
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=62.88 E-value=12 Score=35.90 Aligned_cols=70 Identities=20% Similarity=0.388 Sum_probs=48.6
Q ss_pred CCCCCCCCcceeee-----cCccccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHHHH
Q 021324 10 TPSLQFPRTKEVMV-----NGVPVRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSSST 84 (314)
Q Consensus 10 ~p~~~~p~~k~v~v-----ng~~~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~~~ 84 (314)
+|++--|-+..+-. +.++-+.+.|++|+.=.-.=-|||..=|+||.-..|-= .-.|+.++.-++
T Consensus 91 ~pPvgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHry-----------FFlFl~~ltlat 159 (309)
T KOG1313|consen 91 KPPVGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRY-----------FFLFLFYLTLAT 159 (309)
T ss_pred cCCcCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchh-----------HHHHHHHHHHHH
Confidence 44455555554443 34566778899998777777899999999999877743 456887776666
Q ss_pred HHHHHH
Q 021324 85 LLCIYV 90 (314)
Q Consensus 85 l~~i~~ 90 (314)
.++.+.
T Consensus 160 ~~~~i~ 165 (309)
T KOG1313|consen 160 SYAAIM 165 (309)
T ss_pred HHHHHH
Confidence 555554
No 20
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=59.38 E-value=78 Score=30.72 Aligned_cols=32 Identities=19% Similarity=0.423 Sum_probs=29.2
Q ss_pred CCCCCccCCccccCCCccccccCccccccchH
Q 021324 43 RCSHCSICNNCVERFDHHCPWVGQCIGLRNYR 74 (314)
Q Consensus 43 Rs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r 74 (314)
+.+.|..|+.-....-|||.-.+.||.+.-|.
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHH 139 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHH 139 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccC
Confidence 77899999999999999999999999998664
No 21
>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=57.61 E-value=1.4e+02 Score=30.04 Aligned_cols=33 Identities=15% Similarity=0.440 Sum_probs=22.1
Q ss_pred cceecccCCc-ccCCCCCCCccCCccccCCCccc
Q 021324 29 RVKYCDTCML-YRPPRCSHCSICNNCVERFDHHC 61 (314)
Q Consensus 29 ~~k~C~tC~~-~rPpRs~HCs~C~~CV~rfDHHC 61 (314)
...-|+.|.. ..|....+|..|+.-..+..++.
T Consensus 214 ~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 214 KLRSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CCCcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 3456999998 45555667888877766555543
No 22
>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=54.13 E-value=7.9 Score=23.69 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=18.5
Q ss_pred eecccCCcccCCCCCCCccCCc
Q 021324 31 KYCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 31 k~C~tC~~~rPpRs~HCs~C~~ 52 (314)
|.|+.|....|.-++-|..|+.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 5699999999998888888874
No 23
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=49.76 E-value=9 Score=41.52 Aligned_cols=22 Identities=27% Similarity=0.582 Sum_probs=18.3
Q ss_pred eecccCCcccC-------CCCCCCccCCc
Q 021324 31 KYCDTCMLYRP-------PRCSHCSICNN 52 (314)
Q Consensus 31 k~C~tC~~~rP-------pRs~HCs~C~~ 52 (314)
+.|..|+..-. -|-|||+.|++
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 57999988875 39999999876
No 24
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=46.10 E-value=90 Score=24.84 Aligned_cols=23 Identities=26% Similarity=0.449 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHcCceeEEee
Q 021324 132 FVGGLTGFHLYLIGTNQTTYENF 154 (314)
Q Consensus 132 fvg~L~~fhlyLI~~N~TT~E~~ 154 (314)
.+.++++|..|--|+..+++|.+
T Consensus 59 l~lGilifs~y~~C~~~~~~~r~ 81 (91)
T PHA02680 59 LLLGLFVFSMYRKCSGSMPYERL 81 (91)
T ss_pred HHHHHHHHHHhcccCCCceeecc
Confidence 34457788888777777777755
No 25
>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=45.38 E-value=9.9 Score=23.54 Aligned_cols=22 Identities=27% Similarity=0.747 Sum_probs=17.1
Q ss_pred eecccCCcccCCCCCCCccCCc
Q 021324 31 KYCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 31 k~C~tC~~~rPpRs~HCs~C~~ 52 (314)
-.|..|...-+++..+|..|+.
T Consensus 5 W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 5 WKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EEETTTTEEEESSSSB-TTT--
T ss_pred ccCCCCcCCchHHhhhhhCcCC
Confidence 4699999999999999999874
No 26
>PF12773 DZR: Double zinc ribbon
Probab=44.99 E-value=15 Score=25.11 Aligned_cols=24 Identities=29% Similarity=0.719 Sum_probs=21.1
Q ss_pred ccceecccCCcccCCCCCCCccCC
Q 021324 28 VRVKYCDTCMLYRPPRCSHCSICN 51 (314)
Q Consensus 28 ~~~k~C~tC~~~rPpRs~HCs~C~ 51 (314)
...++|..|....++.+.+|..|+
T Consensus 27 ~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 27 QSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCCcCCcCCCcCCcCccCccc
Confidence 446799999999999999999986
No 27
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=42.20 E-value=18 Score=25.94 Aligned_cols=24 Identities=29% Similarity=0.820 Sum_probs=16.2
Q ss_pred ceecccCCcccCCCCCCCcc--CCcc
Q 021324 30 VKYCDTCMLYRPPRCSHCSI--CNNC 53 (314)
Q Consensus 30 ~k~C~tC~~~rPpRs~HCs~--C~~C 53 (314)
...|..|...-|||+-.|+. |+.+
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 8754
No 28
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=41.89 E-value=1e+02 Score=26.32 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHH
Q 021324 75 FFFMFVSSSTLLCIY 89 (314)
Q Consensus 75 ~FllFL~~~~l~~i~ 89 (314)
+.++++++.++.++|
T Consensus 23 ~~~~~l~~~~~~~~y 37 (130)
T PF10864_consen 23 WQWLFLFSLFLFFIY 37 (130)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555544444
No 29
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=34.96 E-value=8.4 Score=27.29 Aligned_cols=25 Identities=32% Similarity=0.801 Sum_probs=21.5
Q ss_pred cceecccCCcccCCCCCCCccCCcc
Q 021324 29 RVKYCDTCMLYRPPRCSHCSICNNC 53 (314)
Q Consensus 29 ~~k~C~tC~~~rPpRs~HCs~C~~C 53 (314)
..+.|..|...-|+|+--|+.|+.=
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccCC
Confidence 4568999999999999999988653
No 30
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=34.70 E-value=1.7e+02 Score=29.47 Aligned_cols=29 Identities=17% Similarity=0.445 Sum_probs=17.7
Q ss_pred ecccCCccc--C----CCCCCCccCCccccCCCcc
Q 021324 32 YCDTCMLYR--P----PRCSHCSICNNCVERFDHH 60 (314)
Q Consensus 32 ~C~tC~~~r--P----pRs~HCs~C~~CV~rfDHH 60 (314)
-|+.|...- | ...-+|..|+.-..+.+++
T Consensus 12 ~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 46 (419)
T PRK15103 12 LCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWDE 46 (419)
T ss_pred cCCCCCceeecCCCCCCCeeECCCCCCCCcCCCCC
Confidence 499998542 2 2345677777766554443
No 31
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=33.81 E-value=1.7e+02 Score=31.94 Aligned_cols=17 Identities=29% Similarity=0.555 Sum_probs=8.0
Q ss_pred chHHHHHHHHHHHHHHH
Q 021324 72 NYRFFFMFVSSSTLLCI 88 (314)
Q Consensus 72 N~r~FllFL~~~~l~~i 88 (314)
-||++...++...++.+
T Consensus 411 ~yR~~~~lil~~~llLI 427 (806)
T PF05478_consen 411 SYRWIVGLILCCVLLLI 427 (806)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34555555444444333
No 32
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=32.06 E-value=13 Score=37.72 Aligned_cols=25 Identities=28% Similarity=0.784 Sum_probs=19.3
Q ss_pred ceecccCCccc--CCCCCCCccCCccc
Q 021324 30 VKYCDTCMLYR--PPRCSHCSICNNCV 54 (314)
Q Consensus 30 ~k~C~tC~~~r--PpRs~HCs~C~~CV 54 (314)
+.+|+.|.-.= -.|-|||+.||+-+
T Consensus 180 V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 180 VQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred ccccccccchhhhHHHhhhhhhcchHH
Confidence 57999996543 45899999999843
No 33
>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=31.55 E-value=17 Score=22.43 Aligned_cols=23 Identities=26% Similarity=0.356 Sum_probs=9.2
Q ss_pred eecccCCcccCC-CCCCCccCCcc
Q 021324 31 KYCDTCMLYRPP-RCSHCSICNNC 53 (314)
Q Consensus 31 k~C~tC~~~rPp-Rs~HCs~C~~C 53 (314)
+.|..|+..... ..++|..|+--
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~Cdf~ 24 (30)
T PF07649_consen 1 FRCDACGKPIDGGWFYRCSECDFD 24 (30)
T ss_dssp ---TTTS----S--EEE-TTT---
T ss_pred CcCCcCCCcCCCCceEECccCCCc
Confidence 358888888777 78888888753
No 34
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=30.97 E-value=21 Score=26.00 Aligned_cols=36 Identities=33% Similarity=0.922 Sum_probs=29.1
Q ss_pred ecccCCcccCCCC-------CCCccCCccccCC-CccccccCccccc
Q 021324 32 YCDTCMLYRPPRC-------SHCSICNNCVERF-DHHCPWVGQCIGL 70 (314)
Q Consensus 32 ~C~tC~~~rPpRs-------~HCs~C~~CV~rf-DHHCpWvgnCIG~ 70 (314)
-|..|...-|+-+ +-|..|..|+... +++|| ||=|.
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 5888888877765 6788999999998 99999 66554
No 35
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=30.84 E-value=19 Score=26.27 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=11.6
Q ss_pred ceecccCCccc--CCCCCCCccCCccc
Q 021324 30 VKYCDTCMLYR--PPRCSHCSICNNCV 54 (314)
Q Consensus 30 ~k~C~tC~~~r--PpRs~HCs~C~~CV 54 (314)
.+.|..|...= -.|-|||+.|+..|
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEE
Confidence 45788885443 35889999998854
No 36
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=29.49 E-value=1.1e+02 Score=30.56 Aligned_cols=48 Identities=27% Similarity=0.468 Sum_probs=36.4
Q ss_pred cCcc-ccceecccCCcccCCCCCCCccCCccccCCCccccccCccccccchHHHHHHHHH
Q 021324 24 NGVP-VRVKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVSS 82 (314)
Q Consensus 24 ng~~-~~~k~C~tC~~~rPpRs~HCs~C~~CV~rfDHHCpWvgnCIG~rN~r~FllFL~~ 82 (314)
||.. -+.+.|.+|+.=.-.=-|||..-|+||.-..|- -.-+|++|...
T Consensus 98 qgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~-----------~F~~FLlf~iv 146 (414)
T KOG1314|consen 98 QGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHA-----------YFLRFLLFSIV 146 (414)
T ss_pred cCcCCCccccchHHHHHHHhhccCCcchhhcccccccH-----------HHHHHHHHHHH
Confidence 5543 456899999887777789999999999865553 24678887766
No 37
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=29.21 E-value=1.7e+02 Score=29.18 Aligned_cols=15 Identities=33% Similarity=1.035 Sum_probs=12.9
Q ss_pred CCCccCCccccCCCccccc
Q 021324 45 SHCSICNNCVERFDHHCPW 63 (314)
Q Consensus 45 ~HCs~C~~CV~rfDHHCpW 63 (314)
..|..|++| +|+||.
T Consensus 48 ~lChnC~~C----~~~CPy 62 (372)
T TIGR02484 48 HLCHDCQSC----WHDCQY 62 (372)
T ss_pred HHCcCcccc----cccCcC
Confidence 789999999 578987
No 38
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=28.81 E-value=3.3e+02 Score=23.26 Aligned_cols=21 Identities=19% Similarity=0.134 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 021324 73 YRFFFMFVSSSTLLCIYVFSM 93 (314)
Q Consensus 73 ~r~FllFL~~~~l~~i~~~~~ 93 (314)
-+||-+|+++++...+.-.++
T Consensus 38 ~~Y~~LfiVFl~AG~vLw~vM 58 (141)
T PRK13743 38 DIYFDLFIVFLTAGIVLWVIM 58 (141)
T ss_pred HHHHHHHHHHHHhhHHHHHHH
Confidence 478889988877766544433
No 39
>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=28.28 E-value=30 Score=27.26 Aligned_cols=15 Identities=33% Similarity=0.826 Sum_probs=10.4
Q ss_pred cCCCccccccCcccc
Q 021324 55 ERFDHHCPWVGQCIG 69 (314)
Q Consensus 55 ~rfDHHCpWvgnCIG 69 (314)
..+-.||||++.-..
T Consensus 52 ~eHr~~CPwv~~~~q 66 (91)
T PF08600_consen 52 EEHREYCPWVNPSTQ 66 (91)
T ss_pred ccccccCCccCCccc
Confidence 334469999987653
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=27.41 E-value=41 Score=24.70 Aligned_cols=23 Identities=39% Similarity=0.703 Sum_probs=16.0
Q ss_pred ceecccCCcccCCCCCCCc-cCCc
Q 021324 30 VKYCDTCMLYRPPRCSHCS-ICNN 52 (314)
Q Consensus 30 ~k~C~tC~~~rPpRs~HCs-~C~~ 52 (314)
.|.|..|...-|+--..|| .|..
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 3568888877777777775 5544
No 41
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.14 E-value=53 Score=35.10 Aligned_cols=33 Identities=24% Similarity=0.428 Sum_probs=17.9
Q ss_pred eeecCccccceecccCCcccCCCCCCCccCCcc
Q 021324 21 VMVNGVPVRVKYCDTCMLYRPPRCSHCSICNNC 53 (314)
Q Consensus 21 v~vng~~~~~k~C~tC~~~rPpRs~HCs~C~~C 53 (314)
..-.|.+...+.|..|...-|+-+++|..|+.=
T Consensus 18 C~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 18 CQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred ccccCCCCCCCcCCCCCCCCCcccccccccCCc
Confidence 334444444445666666666666666666553
No 42
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=23.95 E-value=37 Score=31.82 Aligned_cols=14 Identities=29% Similarity=0.299 Sum_probs=10.7
Q ss_pred ccccCCCccccccC
Q 021324 52 NCVERFDHHCPWVG 65 (314)
Q Consensus 52 ~CV~rfDHHCpWvg 65 (314)
.=..+.+|||||..
T Consensus 36 eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 36 EHRSYESHHCPKGL 49 (250)
T ss_pred ccchHhhcCCCccc
Confidence 34567899999974
No 43
>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 PRK15033 tricarballylate utilization protein B; Provisional
Probab=22.75 E-value=2.3e+02 Score=28.47 Aligned_cols=14 Identities=36% Similarity=1.239 Sum_probs=11.9
Q ss_pred CCccCCccccCCCccccc
Q 021324 46 HCSICNNCVERFDHHCPW 63 (314)
Q Consensus 46 HCs~C~~CV~rfDHHCpW 63 (314)
.|..|+.|. |+||.
T Consensus 68 ~C~~Cg~C~----~~CP~ 81 (389)
T PRK15033 68 LCHNCGACL----HACQY 81 (389)
T ss_pred hCcCccccc----ccCcC
Confidence 899999994 58997
No 45
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=22.37 E-value=2.1e+02 Score=25.84 Aligned_cols=24 Identities=8% Similarity=0.025 Sum_probs=9.7
Q ss_pred hhhhcccchhHHHHHHHHHHHHHH
Q 021324 109 VWRAMKASPASVLLMAYCFISLWF 132 (314)
Q Consensus 109 ~w~~~~~~~~~vi~~i~~~i~~~f 132 (314)
++..+....+.++.-+..|+.+++
T Consensus 40 ~~~~~~~~~~~~i~qlInFlIlv~ 63 (205)
T PRK06231 40 IINELFPNFWVFIAHLIAFSILLL 63 (205)
T ss_pred HHHHhcCcHHHHHHHHHHHHHHHH
Confidence 444444443444333334443333
No 46
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=21.86 E-value=62 Score=23.54 Aligned_cols=23 Identities=22% Similarity=0.781 Sum_probs=18.0
Q ss_pred ccceecccCCcccCCCCCCCccCCc
Q 021324 28 VRVKYCDTCMLYRPPRCSHCSICNN 52 (314)
Q Consensus 28 ~~~k~C~tC~~~rPpRs~HCs~C~~ 52 (314)
.+++.|..|..|-- ...|..||.
T Consensus 3 s~mr~C~~CgvYTL--k~~CP~CG~ 25 (56)
T PRK13130 3 SKIRKCPKCGVYTL--KEICPVCGG 25 (56)
T ss_pred ccceECCCCCCEEc--cccCcCCCC
Confidence 45778999998877 777888874
No 47
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=21.61 E-value=29 Score=29.65 Aligned_cols=24 Identities=25% Similarity=0.544 Sum_probs=17.4
Q ss_pred eecccCCcccCCCCCCCccCCccccCC
Q 021324 31 KYCDTCMLYRPPRCSHCSICNNCVERF 57 (314)
Q Consensus 31 k~C~tC~~~rPpRs~HCs~C~~CV~rf 57 (314)
....+|... ...||..|..|+.|.
T Consensus 141 ~~s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 141 ELTWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred hheeeccCC---CCCCCCCCHHHHHHH
Confidence 345667665 338999999999874
Done!