Query 018898
Match_columns 349
No_of_seqs 254 out of 1694
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 04:58:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018898.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018898hhsearch_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 2.6E-50 5.6E-55 382.8 20.3 271 8-302 1-278 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 3.2E-44 6.9E-49 335.6 18.0 209 66-291 47-259 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 4.8E-40 1.1E-44 288.2 10.7 172 80-266 2-173 (174)
4 KOG1314 DHHC-type Zn-finger pr 100.0 2E-38 4.4E-43 292.7 12.3 194 64-290 47-263 (414)
5 COG5273 Uncharacterized protei 100.0 2.5E-34 5.5E-39 272.3 12.0 168 74-266 65-232 (309)
6 KOG1313 DHHC-type Zn-finger pr 100.0 5.8E-34 1.2E-38 255.8 11.0 152 142-294 103-280 (309)
7 KOG1312 DHHC-type Zn-finger pr 100.0 3E-31 6.5E-36 239.4 9.1 168 73-266 106-290 (341)
8 KOG0509 Ankyrin repeat and DHH 99.9 1.4E-28 3E-33 243.6 6.9 138 142-287 421-582 (600)
9 COG5273 Uncharacterized protei 93.5 0.25 5.4E-06 47.4 7.4 142 138-290 120-280 (309)
10 KOG1311 DHHC-type Zn-finger pr 92.4 0.59 1.3E-05 44.4 8.2 41 155-195 113-164 (299)
11 PF01529 zf-DHHC: DHHC palmito 91.2 1.5 3.3E-05 37.7 8.9 60 137-207 58-117 (174)
12 KOG0509 Ankyrin repeat and DHH 82.4 0.81 1.8E-05 47.1 2.1 55 140-195 324-379 (600)
13 PRK04136 rpl40e 50S ribosomal 77.9 1.3 2.7E-05 30.1 1.2 24 140-163 13-36 (48)
14 PF13240 zinc_ribbon_2: zinc-r 75.9 1.5 3.3E-05 25.0 1.1 21 143-163 1-21 (23)
15 PF13248 zf-ribbon_3: zinc-rib 65.4 3.3 7.2E-05 24.2 0.9 22 142-163 3-24 (26)
16 KOG1398 Uncharacterized conser 60.6 6.4 0.00014 38.5 2.4 25 151-181 10-34 (460)
17 PTZ00303 phosphatidylinositol 57.9 5.2 0.00011 42.5 1.4 22 142-163 461-489 (1374)
18 PF12773 DZR: Double zinc ribb 54.3 7.5 0.00016 26.2 1.3 34 141-174 12-48 (50)
19 COG1552 RPL40A Ribosomal prote 52.2 3.1 6.7E-05 28.3 -0.9 24 140-163 13-36 (50)
20 PF01020 Ribosomal_L40e: Ribos 50.8 8.4 0.00018 26.6 1.1 25 140-164 16-42 (52)
21 KOG1315 Predicted DHHC-type Zn 46.3 1.4E+02 0.0031 28.6 9.0 32 154-185 108-139 (307)
22 PF00641 zf-RanBP: Zn-finger i 46.2 7 0.00015 23.5 0.1 21 143-163 6-26 (30)
23 PRK15103 paraquat-inducible me 45.1 2.5E+02 0.0054 28.1 10.9 32 141-172 221-252 (419)
24 PF06906 DUF1272: Protein of u 44.9 11 0.00025 26.4 1.0 36 143-181 7-50 (57)
25 PF10571 UPF0547: Uncharacteri 44.2 12 0.00026 22.1 0.8 22 142-163 1-22 (26)
26 KOG1842 FYVE finger-containing 42.1 7.4 0.00016 38.7 -0.4 26 140-165 179-206 (505)
27 TIGR00155 pqiA_fam integral me 41.7 3E+02 0.0065 27.4 10.9 32 141-172 215-247 (403)
28 PF01363 FYVE: FYVE zinc finge 35.7 12 0.00025 27.1 -0.1 25 142-166 10-36 (69)
29 PF10864 DUF2663: Protein of u 35.5 1.5E+02 0.0032 24.8 6.3 16 186-201 23-38 (130)
30 KOG3183 Predicted Zn-finger pr 33.7 20 0.00043 32.9 1.0 14 163-176 36-49 (250)
31 PF08600 Rsm1: Rsm1-like; Int 29.9 26 0.00056 27.2 1.0 13 168-180 54-66 (91)
32 PF07649 C1_3: C1-like domain; 29.7 21 0.00047 21.4 0.4 21 143-163 2-23 (30)
33 TIGR00155 pqiA_fam integral me 28.3 5.3E+02 0.011 25.7 10.1 32 141-172 13-50 (403)
34 PF07010 Endomucin: Endomucin; 26.9 1.3E+02 0.0028 27.5 4.9 16 81-96 210-225 (259)
35 PF02532 PsbI: Photosystem II 26.0 1.8E+02 0.0039 18.5 4.0 13 84-96 22-34 (36)
36 smart00064 FYVE Protein presen 25.4 30 0.00066 24.7 0.6 24 142-165 11-36 (68)
37 PF01437 PSI: Plexin repeat; 24.4 20 0.00043 24.4 -0.5 21 159-179 6-29 (51)
38 PRK13743 conjugal transfer pro 23.7 4.3E+02 0.0093 22.0 7.6 27 182-208 36-62 (141)
39 PF15086 UPF0542: Uncharacteri 22.4 40 0.00086 25.0 0.7 24 28-51 18-41 (74)
40 PF11014 DUF2852: Protein of u 21.8 1.6E+02 0.0034 24.0 4.1 29 226-256 8-36 (115)
41 PF09889 DUF2116: Uncharacteri 20.6 1.2E+02 0.0026 21.6 2.8 23 141-163 3-26 (59)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2.6e-50 Score=382.82 Aligned_cols=271 Identities=37% Similarity=0.594 Sum_probs=210.9
Q ss_pred eeeecCCCEEEeCceEEecCCCChhhhHHHhhhhheeeehhhcchhhhhhhccccchhHHHHHHHHHHHHHHHHHHhhhc
Q 018898 8 YQVWKGRNKFMFNGRLIFGPDAKSIVVTLLLILVPIVTFCSNVARNLLHEVSTYTTGYAIMGVAIMLTVYVLVLLFLTSA 87 (349)
Q Consensus 8 ~~~~~g~~~f~~~Gr~~~g~~~~~~~~t~~li~~~~~~f~~~~~~~l~~~~~~~~~~~~~~~i~~~l~~~~l~~~~~t~~ 87 (349)
++.+.|++.+.+.|+...+++....++++++++++.. ++++..+.+.+ ....+.+.++.+++.++.++.++.+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~l~~----~~~~~~~~~~~~if~~~~~~~~~~~~~ 75 (299)
T KOG1311|consen 1 FADFLGNRIPRRGGRILDPPVALPVLVTYVLLVGSET-FFVFLPPLLPR----GGVSPAVLVLGAIFFLLNILNLMLACF 75 (299)
T ss_pred CCcCccccccCCCceeeccccchhHHHHHHHHhhheE-EEEEEeeecCC----cccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678999999999999999999999999999888775 54554444433 112234555556666666666666655
Q ss_pred c---CCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceeeccccCCcCCCCCccccccccc
Q 018898 88 R---DPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKYCDTCKLYRPPRCSHCSVCDNC 164 (349)
Q Consensus 88 ~---DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~C~tC~~~rP~Rs~HC~~C~~C 164 (349)
+ |||++|++.++..+.. .+.++.++...+| ..++.+||.+|+.+||||||||++||+|
T Consensus 76 ~~~sdpg~~p~~~~~~~~~~------------------~~~~~~~~~~~~~-~~~~~~~C~~C~~~rPpRs~HCsvC~~C 136 (299)
T KOG1311|consen 76 RMLSDPGIVPRADDEQIEDP------------------ERAPLYKNVDVNG-IQVEWKYCDTCQLYRPPRSSHCSVCNNC 136 (299)
T ss_pred cccCCCceecCcccCCCCCc------------------cccccCCCcccCC-cccceEEcCcCcccCCCCcccchhhccc
Confidence 5 9999999741111100 1235567777888 8899999999999999999999999999
Q ss_pred cccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-cccch--hhhccchhHHHHHHHHHHHHH
Q 018898 165 VERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDY-YGNVW--KAIKESPASVILMAYCFFFLW 241 (349)
Q Consensus 165 V~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~ 241 (349)
|+||||||||+|||||+||||+|++|++++++.+++.++++...+...... ....+ ........++++.++++++++
T Consensus 137 V~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 216 (299)
T KOG1311|consen 137 VLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLA 216 (299)
T ss_pred ccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999998888876554433 22222 222334456677778889999
Q ss_pred HHHHHHHHHHHHHHhCCceeeeeec-ccCCCCCCCChhHHHHHHHhcCCCCCCCcccccccc
Q 018898 242 FVGGLACFHLYLISTNQTTYENFRY-RREDGVRLYDRGCLNNFLEVFCTKIKPSRNNFRTYA 302 (349)
Q Consensus 242 ~~~~l~~~h~~li~~n~TT~E~~~~-~~~~~~n~y~~G~~~N~~~v~~~~~~p~~~~~~~~~ 302 (349)
+++.|+++|+++|++|+||+|.++. +.+...++||+|.++|++++||.+.++++.......
T Consensus 217 ~~~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~ 278 (299)
T KOG1311|consen 217 FTSALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARS 278 (299)
T ss_pred HHHHHHHhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCCCCcccccccccC
Confidence 9999999999999999999999874 333335999999999999999999998877666654
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.2e-44 Score=335.55 Aligned_cols=209 Identities=31% Similarity=0.554 Sum_probs=150.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceeecc
Q 018898 66 AIMGVAIMLTVYVLVLLFLTSARDPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKYCD 145 (349)
Q Consensus 66 ~~~~i~~~l~~~~l~~~~~t~~~DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~C~ 145 (349)
..++++.++.++.+++++++.++|||.+|..+.++.++....... . ..++.+.....+ ...+.|+|.
T Consensus 47 ~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~-------~-----~~~~~~~~~~~~-~~g~~R~C~ 113 (307)
T KOG1315|consen 47 LLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENG-------S-----DNERDLPGYTRT-SDGAVRYCD 113 (307)
T ss_pred HHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCcccccccc-------C-----cccccceeeEec-CCCCceeec
Confidence 445556677777888999999999999999987755443221110 0 001122222222 344789999
Q ss_pred ccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhcc
Q 018898 146 TCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDYYGNVWKAIKE 225 (349)
Q Consensus 146 tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (349)
+|+.+||+|||||++|++||+||||||||+|||||.+|||+|++|++|+.+++++.++.....+.......... .-..
T Consensus 114 kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~~~~~~~--~~~~ 191 (307)
T KOG1315|consen 114 KCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYFQGGAGP--SSLL 191 (307)
T ss_pred ccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC--chhH
Confidence 99999999999999999999999999999999999999999999999999999888777666543332111000 0001
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeeeeeccc----CCCCCCCChhHHHHHHHhcCCCC
Q 018898 226 SPASVILMAYCFFFLWFVGGLACFHLYLISTNQTTYENFRYRR----EDGVRLYDRGCLNNFLEVFCTKI 291 (349)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~~----~~~~n~y~~G~~~N~~~v~~~~~ 291 (349)
....+++++.++.+.+.+++|+++|++||++|+||+|.++... ....|.|+. ..|+.|+||+++
T Consensus 192 ~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~~n~~~vfg~~~ 259 (307)
T KOG1315|consen 192 LFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--YVNFREVFGSNL 259 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--eecHHHHhCCCc
Confidence 1234445555666667777799999999999999999876531 134566665 789999999885
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=4.8e-40 Score=288.20 Aligned_cols=172 Identities=41% Similarity=0.738 Sum_probs=122.5
Q ss_pred HHHHhhhccCCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceeeccccCCcCCCCCcccc
Q 018898 80 VLLFLTSARDPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKYCDTCKLYRPPRCSHCS 159 (349)
Q Consensus 80 ~~~~~t~~~DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~C~tC~~~rP~Rs~HC~ 159 (349)
++|+++.++|||++|+.....++... .. +. ......+...++ ...+.++|.+|++.||+|||||+
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~-~~----~~---------~~~~~~~~~~~~-~~~~~~~C~~C~~~kp~Rs~HC~ 66 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQE-EK----EE---------EQNQSIDSPEDD-ENGELKYCSTCKIIKPPRSHHCR 66 (174)
T ss_pred EEehhhheECCcccCCcccccccccc-cc----cc---------ccchhhhhhccc-cCCCCEECcccCCcCCCcceecc
Confidence 45788999999999998211111100 00 00 000111111222 45577999999999999999999
Q ss_pred ccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhccchhHHHHHHHHHHH
Q 018898 160 VCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDYYGNVWKAIKESPASVILMAYCFFF 239 (349)
Q Consensus 160 ~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (349)
.||+||+|+||||||+|||||.+|||+|++|+++..+++++.++.++..+....................++++++++++
T Consensus 67 ~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (174)
T PF01529_consen 67 VCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFF 146 (174)
T ss_pred ccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999988887776665433322111100000111125667777888
Q ss_pred HHHHHHHHHHHHHHHHhCCceeeeeec
Q 018898 240 LWFVGGLACFHLYLISTNQTTYENFRY 266 (349)
Q Consensus 240 ~~~~~~l~~~h~~li~~n~TT~E~~~~ 266 (349)
+++++.|+++|+++|++|+||+|.+++
T Consensus 147 ~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 147 FIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 889999999999999999999998864
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2e-38 Score=292.67 Aligned_cols=194 Identities=27% Similarity=0.443 Sum_probs=135.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceee
Q 018898 64 GYAIMGVAIMLTVYVLVLLFLTSARDPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKY 143 (349)
Q Consensus 64 ~~~~~~i~~~l~~~~l~~~~~t~~~DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~ 143 (349)
|..-.+.+.+.+.+.+++|+.+++++||++|.+|+|.... .....+|
T Consensus 47 g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~---------------------------------D~~~lqf 93 (414)
T KOG1314|consen 47 GVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPK---------------------------------DEMFLQF 93 (414)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCh---------------------------------hHHHHHH
Confidence 4455566667778889999999999999999999873211 1224589
Q ss_pred ccccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHH---HHH----HHHHHHhhhc-
Q 018898 144 CDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIF---AMS----ALHLKYQIDY- 215 (349)
Q Consensus 144 C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~---~~~----~~~~~~~~~~- 215 (349)
|..|+-||+||||||+.|||||.+|||||||++||||..||-+|+.||++..+.|+-.. +.+ ++..+.+...
T Consensus 94 Ck~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~~g~ 173 (414)
T KOG1314|consen 94 CKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIKYGL 173 (414)
T ss_pred HhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhhccc
Confidence 99999999999999999999999999999999999999999999999999887664321 111 1111111111
Q ss_pred --cccchhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeeeee---------ccc----CCCCCCCChhHH
Q 018898 216 --YGNVWKAIKESPASVILMAYCFFFLWFVGGLACFHLYLISTNQTTYENFR---------YRR----EDGVRLYDRGCL 280 (349)
Q Consensus 216 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~---------~~~----~~~~n~y~~G~~ 280 (349)
.+...-......+.++.+.+++..++.++.|+..|+..|++|+|.+|.+- +.. +.-..|||.|+.
T Consensus 174 ~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypydlgWr 253 (414)
T KOG1314|consen 174 RHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYDLGWR 253 (414)
T ss_pred ccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeecccccc
Confidence 11111011111122222333334455677788889999999999999753 111 112469999999
Q ss_pred HHHHHhcCCC
Q 018898 281 NNFLEVFCTK 290 (349)
Q Consensus 281 ~N~~~v~~~~ 290 (349)
.|+++||.+.
T Consensus 254 ~n~r~vf~~~ 263 (414)
T KOG1314|consen 254 INLREVFFQN 263 (414)
T ss_pred ccHHHHhhhc
Confidence 9999999654
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=2.5e-34 Score=272.28 Aligned_cols=168 Identities=31% Similarity=0.592 Sum_probs=117.5
Q ss_pred HHHHHHHHHHhhhccCCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceeeccccCCcCCC
Q 018898 74 LTVYVLVLLFLTSARDPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKYCDTCKLYRPP 153 (349)
Q Consensus 74 l~~~~l~~~~~t~~~DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~C~tC~~~rP~ 153 (349)
....+.++++...++|||+.|++......+... + .....| .....++|.+|+.+||+
T Consensus 65 i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~-------------------~---~~~~~~-~~~~~~~C~~C~~~KP~ 121 (309)
T COG5273 65 ILVLASFSYLLLLVSDPGYLGENITLSGYRETI-------------------S---RLLDDG-KFGTENFCSTCNIYKPP 121 (309)
T ss_pred hhhhHHHhhHHHhhcCCCccCccccccchhhhh-------------------h---hhhhcC-ccccceeccccccccCC
Confidence 334566678889999999998764321111000 0 011112 34467999999999999
Q ss_pred CCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhccchhHHHHH
Q 018898 154 RCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDYYGNVWKAIKESPASVILM 233 (349)
Q Consensus 154 Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (349)
|||||+.||+||+||||||||+|||||.+|||+|++|++++....+.++...+.++....+.....-.+. ........
T Consensus 122 RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~li~~~~ 199 (309)
T COG5273 122 RSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAI--CFLIFGCS 199 (309)
T ss_pred CCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHH--HHHHHhhh
Confidence 9999999999999999999999999999999999999999988888877777766544432221110000 00011112
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCceeeeeec
Q 018898 234 AYCFFFLWFVGGLACFHLYLISTNQTTYENFRY 266 (349)
Q Consensus 234 ~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~ 266 (349)
.++...++++..++.+|.+++..|+||+|..+.
T Consensus 200 ~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~ 232 (309)
T COG5273 200 LLGVVFFIITTLLLLFLIYLILNNLTTIEFIQI 232 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 344445677888899999999999999996543
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=5.8e-34 Score=255.80 Aligned_cols=152 Identities=28% Similarity=0.528 Sum_probs=117.1
Q ss_pred eeccccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc------
Q 018898 142 KYCDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDY------ 215 (349)
Q Consensus 142 k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~------ 215 (349)
.+|.+|..+||||+|||++||+||++|||||||+|||||..|||||++|++|+++.+.|..+++..........
T Consensus 103 SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~ta 182 (309)
T KOG1313|consen 103 SFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEITA 182 (309)
T ss_pred cHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhccc
Confidence 69999999999999999999999999999999999999999999999999999999999777655432211111
Q ss_pred c-cc---chh---------hhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeeeeecc-------cCCCCCCC
Q 018898 216 Y-GN---VWK---------AIKESPASVILMAYCFFFLWFVGGLACFHLYLISTNQTTYENFRYR-------REDGVRLY 275 (349)
Q Consensus 216 ~-~~---~~~---------~~~~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~-------~~~~~n~y 275 (349)
. ++ .+. .+.. .-...+.++++..++.++.+..+|.++|.+|.|.+|..... .+.+.||+
T Consensus 183 y~~d~~h~~Pp~~i~r~~~~i~~-t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~~ 261 (309)
T KOG1313|consen 183 YASDVAHVAPPPSILRVYKNITR-TSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLRSNPT 261 (309)
T ss_pred ccCcccccCCChhhhhhhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhccCCCc
Confidence 0 00 000 0000 01122455566677889999999999999999999965432 24468999
Q ss_pred ChhHHHHHHHhcCCCCCCC
Q 018898 276 DRGCLNNFLEVFCTKIKPS 294 (349)
Q Consensus 276 ~~G~~~N~~~v~~~~~~p~ 294 (349)
+.|..+||+.++|-...|+
T Consensus 262 n~g~k~nWr~fLg~~~~r~ 280 (309)
T KOG1313|consen 262 NFGGKANWRNFLGLFRGRH 280 (309)
T ss_pred ccchHHHHHHhhccccCCc
Confidence 9999999999998877764
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=3e-31 Score=239.40 Aligned_cols=168 Identities=35% Similarity=0.654 Sum_probs=108.1
Q ss_pred HHHHHHHHHHHhhhccCCCCCCCCCCCCCCcccCCCCcccccCCCCCCCCCCCCccceEEecceeeeceeeccccCCcCC
Q 018898 73 MLTVYVLVLLFLTSARDPGIVPRNLHPPEEDVTYDSSASIETGGGTQTPIPRVPRTKEVLIDGRIVVKVKYCDTCKLYRP 152 (349)
Q Consensus 73 ~l~~~~l~~~~~t~~~DPG~vP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~k~C~tC~~~rP 152 (349)
.+.++-.+++..++.+|||.+.+... .+. ....|.... +..+.+-|+||++.||
T Consensus 106 l~vivp~i~f~ltc~snpg~i~k~n~---s~~-----------------~~~ypYDy~------if~k~~kCSTCki~KP 159 (341)
T KOG1312|consen 106 LLVIVPLIFFTLTCGSNPGIITKANE---SLF-----------------LHVYPYDYV------IFPKNVKCSTCKIRKP 159 (341)
T ss_pred HHHHHHHHHHhhhhcCCCCccchhhh---ccc-----------------eeccCccce------eecCCCccccccCCCc
Confidence 33455567778899999999966421 000 011222111 2334478999999999
Q ss_pred CCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhccc-----c-chhhhcc
Q 018898 153 PRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALH-LKYQIDYYG-----N-VWKAIKE 225 (349)
Q Consensus 153 ~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~-~~~~~~~~~-----~-~~~~~~~ 225 (349)
.||+|||+||+||+||||||.|+|||||++|+|||++|+++...++.+.+.-..+. +....+... + .|...+.
T Consensus 160 ARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ilt~~~g~~ks 239 (341)
T KOG1312|consen 160 ARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVYILTLGHGHVKS 239 (341)
T ss_pred cccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchheeeeeeeecchhh
Confidence 99999999999999999999999999999999999999999977777665443332 111111110 1 1111211
Q ss_pred chhHHHHHHH---------HHH-HHHHHHHHHHHHHHHHHhCCceeeeeec
Q 018898 226 SPASVILMAY---------CFF-FLWFVGGLACFHLYLISTNQTTYENFRY 266 (349)
Q Consensus 226 ~~~~~~~~~~---------~~~-~~~~~~~l~~~h~~li~~n~TT~E~~~~ 266 (349)
....+-.++. ++. ...++++-..+-+|+-++|+||.|..+.
T Consensus 240 ~~~L~~yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~ 290 (341)
T KOG1312|consen 240 TVFLIQYLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRG 290 (341)
T ss_pred HHHHHHHHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhcc
Confidence 1111111111 111 1234666777888999999999997654
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.95 E-value=1.4e-28 Score=243.63 Aligned_cols=138 Identities=28% Similarity=0.633 Sum_probs=98.9
Q ss_pred eeccccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchh
Q 018898 142 KYCDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDYYGNVWK 221 (349)
Q Consensus 142 k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (349)
+||.+|.+.||.||+||++|||||.||||||||++||||.+|||+|+.|++++...+.+.+..+..++....... +.|.
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~-~~~~ 499 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS-TIYV 499 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH-HHHH
Confidence 699999999999999999999999999999999999999999999999999999888887777776653222111 1111
Q ss_pred hhccchhHHHHHHHHHH---------------HHHHHH-HHHHHHHHHHHhCCceeeeeeccc--------CCCCCCCCh
Q 018898 222 AIKESPASVILMAYCFF---------------FLWFVG-GLACFHLYLISTNQTTYENFRYRR--------EDGVRLYDR 277 (349)
Q Consensus 222 ~~~~~~~~~~~~~~~~~---------------~~~~~~-~l~~~h~~li~~n~TT~E~~~~~~--------~~~~n~y~~ 277 (349)
..+.++..+. -..+.. ...+.|-..++.+.||+|.+.... ....+|++.
T Consensus 500 -------~~l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~~s~ 572 (600)
T KOG0509|consen 500 -------GFLIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSPFSP 572 (600)
T ss_pred -------HHHHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhccccccCcCCCCCCc
Confidence 0111111110 001111 122334455789999999765322 224789999
Q ss_pred hHHHHHHHhc
Q 018898 278 GCLNNFLEVF 287 (349)
Q Consensus 278 G~~~N~~~v~ 287 (349)
|+.+|+.+++
T Consensus 573 g~~~Nl~df~ 582 (600)
T KOG0509|consen 573 GPIRNLVDFF 582 (600)
T ss_pred hhhhcchhee
Confidence 9999999998
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=93.53 E-value=0.25 Score=47.36 Aligned_cols=142 Identities=18% Similarity=0.192 Sum_probs=84.3
Q ss_pred eeceeeccccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q 018898 138 VVKVKYCDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSALHLKYQIDYYG 217 (349)
Q Consensus 138 ~~~~k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (349)
..+.+.|++|+.=-...-|||.-=|+||-+--| |=.-.|++++.+.+++.++....-+..+........
T Consensus 120 P~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (309)
T COG5273 120 PPRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTS 188 (309)
T ss_pred CCCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChH
Confidence 345789999999999999999999999998766 667888888866665554444333333222222211
Q ss_pred cchh-h------hccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeeeeecccCC------------CCCCCChh
Q 018898 218 NVWK-A------IKESPASVILMAYCFFFLWFVGGLACFHLYLISTNQTTYENFRYRRED------------GVRLYDRG 278 (349)
Q Consensus 218 ~~~~-~------~~~~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~n~TT~E~~~~~~~~------------~~n~y~~G 278 (349)
..+. . +......+..+++.......+..++..+.+.+.++.++-|.....++. ...|++.|
T Consensus 189 ~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~ 268 (309)
T COG5273 189 LAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDLG 268 (309)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCccccccccC
Confidence 1111 1 111112222233333344455567777888899999998865433322 23455666
Q ss_pred HHHHHHHhcCCC
Q 018898 279 CLNNFLEVFCTK 290 (349)
Q Consensus 279 ~~~N~~~v~~~~ 290 (349)
.-+|+..+++..
T Consensus 269 ~~~~~~~i~~~~ 280 (309)
T COG5273 269 IGQNLSTIKGSN 280 (309)
T ss_pred ccccceeecCCC
Confidence 666666666543
No 10
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=92.38 E-value=0.59 Score=44.39 Aligned_cols=41 Identities=20% Similarity=0.355 Sum_probs=35.2
Q ss_pred CccccccccccccccccccccCccccccch-----------HHHHHHHHHHH
Q 018898 155 CSHCSVCDNCVERFDHHCPWVGQCIGQRNY-----------RYFFLFVTSSA 195 (349)
Q Consensus 155 s~HC~~C~~CV~r~DHHCpWv~nCIG~~N~-----------r~F~~Fl~~~~ 195 (349)
.++|..|+..+...-|||+.-++||-+.-| |-+-.|+.++.
T Consensus 113 ~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~ 164 (299)
T KOG1311|consen 113 WKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLF 164 (299)
T ss_pred eEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHH
Confidence 799999999999999999999999988875 44567886655
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=91.25 E-value=1.5 Score=37.73 Aligned_cols=60 Identities=20% Similarity=0.386 Sum_probs=43.5
Q ss_pred eeeceeeccccCCcCCCCCccccccccccccccccccccCccccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 018898 137 IVVKVKYCDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFFLFVTSSALLCIFIFAMSAL 207 (349)
Q Consensus 137 ~~~~~k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~~Fl~~~~~~~~~~~~~~~~ 207 (349)
...+.++|..|+.--..+-|||.--|+||-+--| +-+-.|+++..-..+..++.....+.
T Consensus 58 kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~~ 117 (174)
T PF01529_consen 58 KPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFILSLYYLV 117 (174)
T ss_pred CCCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456789999999999999999999999988766 55667777766555555444333333
No 12
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=82.35 E-value=0.81 Score=47.07 Aligned_cols=55 Identities=16% Similarity=-0.011 Sum_probs=46.8
Q ss_pred ceeeccccCCcCCCCCccccccccccccccccccccCccccccchHHHH-HHHHHHH
Q 018898 140 KVKYCDTCKLYRPPRCSHCSVCDNCVERFDHHCPWVGQCIGQRNYRYFF-LFVTSSA 195 (349)
Q Consensus 140 ~~k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r~F~-~Fl~~~~ 195 (349)
-...|.+|.+..+.+..++..+-.++..+++||+|+. +|+.+|-..|. .|++++.
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l 379 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVL 379 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHH
Confidence 4578999999999999999999999999999999999 99999977544 4444443
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=77.88 E-value=1.3 Score=30.10 Aligned_cols=24 Identities=29% Similarity=0.683 Sum_probs=22.0
Q ss_pred ceeeccccCCcCCCCCcccccccc
Q 018898 140 KVKYCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 140 ~~k~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
..+.|..|...-|+|+..|+.||.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 458999999999999999999886
No 14
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=75.91 E-value=1.5 Score=25.01 Aligned_cols=21 Identities=24% Similarity=0.698 Sum_probs=17.7
Q ss_pred eccccCCcCCCCCcccccccc
Q 018898 143 YCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 143 ~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
||..|...-++.+..|..||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 688888888888888888874
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=65.42 E-value=3.3 Score=24.23 Aligned_cols=22 Identities=23% Similarity=0.715 Sum_probs=18.0
Q ss_pred eeccccCCcCCCCCcccccccc
Q 018898 142 KYCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 142 k~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
++|..|...-++-++.|..||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5788888877888888888874
No 16
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.62 E-value=6.4 Score=38.54 Aligned_cols=25 Identities=44% Similarity=0.893 Sum_probs=19.9
Q ss_pred CCCCCccccccccccccccccccccCccccc
Q 018898 151 RPPRCSHCSVCDNCVERFDHHCPWVGQCIGQ 181 (349)
Q Consensus 151 rP~Rs~HC~~C~~CV~r~DHHCpWv~nCIG~ 181 (349)
+-.|.+||..|+. +|| +|+.||||.
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga 34 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGA 34 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHH
Confidence 3456778888875 788 799999997
No 17
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=57.90 E-value=5.2 Score=42.50 Aligned_cols=22 Identities=27% Similarity=0.626 Sum_probs=18.3
Q ss_pred eeccccCCcCC-------CCCcccccccc
Q 018898 142 KYCDTCKLYRP-------PRCSHCSVCDN 163 (349)
Q Consensus 142 k~C~tC~~~rP-------~Rs~HC~~C~~ 163 (349)
+.|..|+..-. -|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 57999988774 39999999987
No 18
>PF12773 DZR: Double zinc ribbon
Probab=54.30 E-value=7.5 Score=26.21 Aligned_cols=34 Identities=24% Similarity=0.506 Sum_probs=23.9
Q ss_pred eeeccccCCcCC--C-CCccccccccccccccccccc
Q 018898 141 VKYCDTCKLYRP--P-RCSHCSVCDNCVERFDHHCPW 174 (349)
Q Consensus 141 ~k~C~tC~~~rP--~-Rs~HC~~C~~CV~r~DHHCpW 174 (349)
.+||..|...-+ . ....|..|+.=+...+.+|+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 468888877666 2 356788887777777777764
No 19
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=52.20 E-value=3.1 Score=28.33 Aligned_cols=24 Identities=33% Similarity=0.855 Sum_probs=21.4
Q ss_pred ceeeccccCCcCCCCCcccccccc
Q 018898 140 KVKYCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 140 ~~k~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
..+.|..|...-|+|+.-|+.|+-
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 458999999999999999998864
No 20
>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=50.83 E-value=8.4 Score=26.62 Aligned_cols=25 Identities=28% Similarity=0.770 Sum_probs=17.2
Q ss_pred ceeeccccCCcCCCCCccccc--cccc
Q 018898 140 KVKYCDTCKLYRPPRCSHCSV--CDNC 164 (349)
Q Consensus 140 ~~k~C~tC~~~rP~Rs~HC~~--C~~C 164 (349)
....|..|...-|+|+..|+. ||.+
T Consensus 16 ~k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 16 DKMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp S-EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred cceecccccCcCCCCccceecccCCCC
Confidence 457999999999999999998 8765
No 21
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=46.26 E-value=1.4e+02 Score=28.56 Aligned_cols=32 Identities=19% Similarity=0.461 Sum_probs=23.9
Q ss_pred CCccccccccccccccccccccCccccccchH
Q 018898 154 RCSHCSVCDNCVERFDHHCPWVGQCIGQRNYR 185 (349)
Q Consensus 154 Rs~HC~~C~~CV~r~DHHCpWv~nCIG~~N~r 185 (349)
+.+.|..|+.-..-.-|||.--+.||.+.-|.
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHH 139 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHH 139 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccC
Confidence 55677777777777778888888888776654
No 22
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=46.21 E-value=7 Score=23.52 Aligned_cols=21 Identities=29% Similarity=0.858 Sum_probs=14.7
Q ss_pred eccccCCcCCCCCcccccccc
Q 018898 143 YCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 143 ~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
.|..|...-++++.+|..|+.
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 578888888888888888863
No 23
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=45.07 E-value=2.5e+02 Score=28.14 Aligned_cols=32 Identities=16% Similarity=0.367 Sum_probs=24.1
Q ss_pred eeeccccCCcCCCCCccccccccccccccccc
Q 018898 141 VKYCDTCKLYRPPRCSHCSVCDNCVERFDHHC 172 (349)
Q Consensus 141 ~k~C~tC~~~rP~Rs~HC~~C~~CV~r~DHHC 172 (349)
..-|..|+..-|....||..|+.-..+..++.
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 45799999988777778888888765555544
No 24
>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=44.89 E-value=11 Score=26.43 Aligned_cols=36 Identities=33% Similarity=0.988 Sum_probs=27.0
Q ss_pred eccccCCcCCCCC-------ccccccccccccc-cccccccCccccc
Q 018898 143 YCDTCKLYRPPRC-------SHCSVCDNCVERF-DHHCPWVGQCIGQ 181 (349)
Q Consensus 143 ~C~tC~~~rP~Rs-------~HC~~C~~CV~r~-DHHCpWv~nCIG~ 181 (349)
-|..|...-|+-| +-|-.|..|+... +++|| ||=|.
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 4667776666654 5688999999998 99998 55553
No 25
>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=44.22 E-value=12 Score=22.07 Aligned_cols=22 Identities=27% Similarity=0.667 Sum_probs=16.6
Q ss_pred eeccccCCcCCCCCcccccccc
Q 018898 142 KYCDTCKLYRPPRCSHCSVCDN 163 (349)
Q Consensus 142 k~C~tC~~~rP~Rs~HC~~C~~ 163 (349)
|.|..|...-|.-+.-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4688888888888888877763
No 26
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=42.12 E-value=7.4 Score=38.71 Aligned_cols=26 Identities=27% Similarity=0.742 Sum_probs=20.0
Q ss_pred ceeeccccCCcC--CCCCcccccccccc
Q 018898 140 KVKYCDTCKLYR--PPRCSHCSVCDNCV 165 (349)
Q Consensus 140 ~~k~C~tC~~~r--P~Rs~HC~~C~~CV 165 (349)
.+++|+.|...= --|-|||+.||+-+
T Consensus 179 ~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 179 SVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred cccccccccchhhhHHHhhhhhhcchHH
Confidence 578999997543 34789999999843
No 27
>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=41.71 E-value=3e+02 Score=27.42 Aligned_cols=32 Identities=16% Similarity=0.446 Sum_probs=21.8
Q ss_pred eeeccccCC-cCCCCCccccccccccccccccc
Q 018898 141 VKYCDTCKL-YRPPRCSHCSVCDNCVERFDHHC 172 (349)
Q Consensus 141 ~k~C~tC~~-~rP~Rs~HC~~C~~CV~r~DHHC 172 (349)
..-|..|+. ..|....||..|+.-..+..++.
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 456999997 45555677888877665555544
No 28
>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=35.75 E-value=12 Score=27.05 Aligned_cols=25 Identities=28% Similarity=0.462 Sum_probs=11.5
Q ss_pred eeccccCCcC--CCCCccccccccccc
Q 018898 142 KYCDTCKLYR--PPRCSHCSVCDNCVE 166 (349)
Q Consensus 142 k~C~tC~~~r--P~Rs~HC~~C~~CV~ 166 (349)
..|..|...= -.|-|||+.||+.|=
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 5676664322 368899999998543
No 29
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=35.55 E-value=1.5e+02 Score=24.75 Aligned_cols=16 Identities=31% Similarity=0.600 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 018898 186 YFFLFVTSSALLCIFI 201 (349)
Q Consensus 186 ~F~~Fl~~~~~~~~~~ 201 (349)
+.+++++++++.++|+
T Consensus 23 ~~~~~l~~~~~~~~y~ 38 (130)
T PF10864_consen 23 WQWLFLFSLFLFFIYF 38 (130)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455555555555443
No 30
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=33.69 E-value=20 Score=32.89 Aligned_cols=14 Identities=29% Similarity=0.299 Sum_probs=10.3
Q ss_pred cccccccccccccC
Q 018898 163 NCVERFDHHCPWVG 176 (349)
Q Consensus 163 ~CV~r~DHHCpWv~ 176 (349)
.=..+.+|||||..
T Consensus 36 eHrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 36 EHRSYESHHCPKGL 49 (250)
T ss_pred ccchHhhcCCCccc
Confidence 34566799999964
No 31
>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=29.92 E-value=26 Score=27.17 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=9.2
Q ss_pred ccccccccCcccc
Q 018898 168 FDHHCPWVGQCIG 180 (349)
Q Consensus 168 ~DHHCpWv~nCIG 180 (349)
+-.||||++.-..
T Consensus 54 Hr~~CPwv~~~~q 66 (91)
T PF08600_consen 54 HREYCPWVNPSTQ 66 (91)
T ss_pred ccccCCccCCccc
Confidence 3467999987553
No 32
>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=29.72 E-value=21 Score=21.36 Aligned_cols=21 Identities=33% Similarity=0.583 Sum_probs=8.3
Q ss_pred eccccCCcCCC-CCcccccccc
Q 018898 143 YCDTCKLYRPP-RCSHCSVCDN 163 (349)
Q Consensus 143 ~C~tC~~~rP~-Rs~HC~~C~~ 163 (349)
.|..|...... ...+|..|+=
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 57777776666 6778887763
No 33
>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=28.25 E-value=5.3e+02 Score=25.70 Aligned_cols=32 Identities=16% Similarity=0.378 Sum_probs=19.3
Q ss_pred eeeccccCCcC--C----CCCccccccccccccccccc
Q 018898 141 VKYCDTCKLYR--P----PRCSHCSVCDNCVERFDHHC 172 (349)
Q Consensus 141 ~k~C~tC~~~r--P----~Rs~HC~~C~~CV~r~DHHC 172 (349)
..-|..|...- | ...-+|..||.-..+.+++.
T Consensus 13 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~~ 50 (403)
T TIGR00155 13 HILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDWS 50 (403)
T ss_pred eeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCCC
Confidence 34688887422 2 23346888887776655544
No 34
>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=26.88 E-value=1.3e+02 Score=27.54 Aligned_cols=16 Identities=25% Similarity=0.333 Sum_probs=10.4
Q ss_pred HHHhhhccCCCCCCCC
Q 018898 81 LLFLTSARDPGIVPRN 96 (349)
Q Consensus 81 ~~~~t~~~DPG~vP~~ 96 (349)
+|.+|.-+|||..-..
T Consensus 210 Lyr~C~k~dPg~p~~g 225 (259)
T PF07010_consen 210 LYRMCWKTDPGTPENG 225 (259)
T ss_pred HHHHhhcCCCCCcccC
Confidence 3446777999965443
No 35
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=25.97 E-value=1.8e+02 Score=18.49 Aligned_cols=13 Identities=31% Similarity=0.358 Sum_probs=8.3
Q ss_pred hhhccCCCCCCCC
Q 018898 84 LTSARDPGIVPRN 96 (349)
Q Consensus 84 ~t~~~DPG~vP~~ 96 (349)
--...|||.-|..
T Consensus 22 GflsnDp~RnP~r 34 (36)
T PF02532_consen 22 GFLSNDPGRNPGR 34 (36)
T ss_dssp HHHTTCTTSSSSS
T ss_pred cccCCCCCCCCCC
Confidence 3346799976643
No 36
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the 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=24.41 E-value=20 Score=24.39 Aligned_cols=21 Identities=29% Similarity=1.009 Sum_probs=15.7
Q ss_pred cccccccccccccccc---cCccc
Q 018898 159 SVCDNCVERFDHHCPW---VGQCI 179 (349)
Q Consensus 159 ~~C~~CV~r~DHHCpW---v~nCI 179 (349)
..|..|+.-.|-+|.| .+.|+
T Consensus 6 ~sC~~Cl~~~dp~CgWc~~~~~C~ 29 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWCSSENRCV 29 (51)
T ss_dssp SSHHHHHHSTCTTEEEETTTTEEE
T ss_pred CcHHHHHcCCCcCccccCCCCccc
Confidence 6788888888888888 33455
No 38
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=23.72 E-value=4.3e+02 Score=22.00 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=19.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHH
Q 018898 182 RNYRYFFLFVTSSALLCIFIFAMSALH 208 (349)
Q Consensus 182 ~N~r~F~~Fl~~~~~~~~~~~~~~~~~ 208 (349)
+--+||-+|+++++...+...++-.++
T Consensus 36 ~~~~Y~~LfiVFl~AG~vLw~vM~~iF 62 (141)
T PRK13743 36 VSDIYFDLFIVFLTAGIVLWVIMHSIF 62 (141)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 345799999999888777666555443
No 39
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=22.40 E-value=40 Score=25.04 Aligned_cols=24 Identities=29% Similarity=0.542 Sum_probs=11.6
Q ss_pred CCChhhhHHHhhhhheeeehhhcc
Q 018898 28 DAKSIVVTLLLILVPIVTFCSNVA 51 (349)
Q Consensus 28 ~~~~~~~t~~li~~~~~~f~~~~~ 51 (349)
|+..++.++++++.|.++..++..
T Consensus 18 dP~~Fl~~vll~LtPlfiisa~lS 41 (74)
T PF15086_consen 18 DPYEFLTTVLLILTPLFIISAVLS 41 (74)
T ss_pred ChHHHHHHHHHHHhHHHHHHHHHH
Confidence 444555555555555444444433
No 40
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=21.82 E-value=1.6e+02 Score=24.03 Aligned_cols=29 Identities=28% Similarity=0.459 Sum_probs=20.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018898 226 SPASVILMAYCFFFLWFVGGLACFHLYLIST 256 (349)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~l~~~h~~li~~ 256 (349)
.|..|.++|+.|++++.+|..++ .|.|..
T Consensus 8 ~~a~Ia~mVlGFi~fWPlGla~L--ay~iw~ 36 (115)
T PF11014_consen 8 KPAWIAAMVLGFIVFWPLGLALL--AYMIWG 36 (115)
T ss_pred chHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence 46788999999998888875444 344444
No 41
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=20.59 E-value=1.2e+02 Score=21.62 Aligned_cols=23 Identities=39% Similarity=0.735 Sum_probs=16.9
Q ss_pred eeeccccCCcCCCCCcccc-cccc
Q 018898 141 VKYCDTCKLYRPPRCSHCS-VCDN 163 (349)
Q Consensus 141 ~k~C~tC~~~rP~Rs~HC~-~C~~ 163 (349)
.+.|..|...-|+--..|| .|+.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 3678888888888777775 6655
Done!