Query psy7446
Match_columns 340
No_of_seqs 271 out of 1695
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 18:30:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7446.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7446hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1311|consensus 100.0 9.7E-44 2.1E-48 330.7 16.7 228 99-337 38-292 (299)
2 KOG1315|consensus 100.0 5.5E-43 1.2E-47 318.7 17.5 196 112-324 43-269 (307)
3 KOG1314|consensus 100.0 1.4E-40 3.1E-45 298.2 4.8 213 109-338 42-278 (414)
4 KOG1313|consensus 100.0 6E-39 1.3E-43 279.4 13.1 211 120-337 73-304 (309)
5 PF01529 zf-DHHC: DHHC palmito 100.0 7.1E-37 1.5E-41 262.9 9.5 150 131-294 3-174 (174)
6 COG5273 Uncharacterized protei 100.0 1.1E-33 2.5E-38 261.4 12.5 195 126-339 67-304 (309)
7 KOG1312|consensus 100.0 1.9E-31 4.1E-36 233.7 6.1 123 95-222 83-215 (341)
8 KOG0509|consensus 99.9 1.3E-28 2.8E-33 237.5 5.1 173 131-311 384-584 (600)
9 KOG1315|consensus 98.7 2.4E-08 5.2E-13 91.9 4.7 74 2-80 196-281 (307)
10 KOG1311|consensus 98.2 1.1E-06 2.3E-11 82.1 4.1 74 6-79 212-292 (299)
11 KOG1314|consensus 96.6 0.0024 5.1E-08 59.1 4.4 61 11-82 202-280 (414)
12 KOG1313|consensus 92.8 0.12 2.6E-06 46.6 3.6 64 12-76 222-301 (309)
13 PF13240 zinc_ribbon_2: zinc-r 89.4 0.2 4.4E-06 27.6 1.1 21 157-177 1-21 (23)
14 COG5273 Uncharacterized protei 85.6 7.5 0.00016 36.4 9.9 46 153-209 121-166 (309)
15 PF13248 zf-ribbon_3: zinc-rib 85.1 0.51 1.1E-05 26.8 1.2 22 156-177 3-24 (26)
16 PRK04136 rpl40e 50S ribosomal 82.9 0.72 1.6E-05 30.2 1.3 24 154-177 13-36 (48)
17 PF10571 UPF0547: Uncharacteri 82.5 0.71 1.5E-05 26.3 1.0 22 156-177 1-22 (26)
18 PF01529 zf-DHHC: DHHC palmito 76.4 5.1 0.00011 33.7 4.9 32 153-184 60-91 (174)
19 KOG0509|consensus 72.3 2.1 4.7E-05 43.0 1.7 64 155-219 325-388 (600)
20 PF12773 DZR: Double zinc ribb 69.0 3.6 7.9E-05 27.0 1.8 36 153-188 10-48 (50)
21 COG1552 RPL40A Ribosomal prote 67.1 1.3 2.9E-05 29.0 -0.6 26 153-178 12-37 (50)
22 PTZ00303 phosphatidylinositol 62.4 3.9 8.6E-05 42.3 1.4 22 156-177 461-489 (1374)
23 PRK15103 paraquat-inducible me 59.8 1.8E+02 0.0039 28.5 12.4 33 153-185 219-251 (419)
24 PF01020 Ribosomal_L40e: Ribos 56.7 5.6 0.00012 26.5 0.9 25 154-178 16-42 (52)
25 PF06906 DUF1272: Protein of u 56.0 4.9 0.00011 27.3 0.5 36 157-195 7-50 (57)
26 PF12773 DZR: Double zinc ribb 55.1 8.3 0.00018 25.2 1.6 24 153-176 27-50 (50)
27 TIGR00155 pqiA_fam integral me 54.7 2.2E+02 0.0047 27.8 12.4 33 153-185 213-246 (403)
28 TIGR00155 pqiA_fam integral me 53.8 1.7E+02 0.0036 28.6 10.9 33 153-185 11-49 (403)
29 PF07010 Endomucin: Endomucin; 51.0 26 0.00057 30.9 4.4 29 117-145 196-224 (259)
30 PF01363 FYVE: FYVE zinc finge 50.8 7.1 0.00015 27.5 0.8 26 155-180 9-36 (69)
31 KOG1842|consensus 49.2 4.4 9.5E-05 39.2 -0.7 27 153-179 178-206 (505)
32 PF00641 zf-RanBP: Zn-finger i 45.8 7.7 0.00017 22.6 0.2 22 156-177 5-26 (30)
33 PF09297 zf-NADH-PPase: NADH p 44.0 11 0.00024 22.3 0.7 24 154-177 2-29 (32)
34 smart00064 FYVE Protein presen 42.9 18 0.00039 25.3 1.8 24 156-179 11-36 (68)
35 COG2093 DNA-directed RNA polym 42.7 13 0.00029 25.8 1.0 23 155-177 4-26 (64)
36 PF09889 DUF2116: Uncharacteri 41.9 39 0.00085 23.3 3.3 23 155-177 3-26 (59)
37 KOG3183|consensus 38.0 14 0.0003 32.9 0.7 12 179-190 38-49 (250)
38 PF07649 C1_3: C1-like domain; 34.9 14 0.0003 21.5 0.1 21 157-177 2-23 (30)
39 cd00065 FYVE FYVE domain; Zinc 34.7 27 0.00058 23.3 1.6 24 156-179 3-28 (57)
40 PF02150 RNA_POL_M_15KD: RNA p 29.3 17 0.00037 22.1 -0.1 9 156-164 2-10 (35)
41 PF01437 PSI: Plexin repeat; 28.7 12 0.00026 24.7 -0.9 21 173-193 6-29 (51)
42 smart00661 RPOL9 RNA polymeras 28.7 28 0.00062 22.7 0.9 21 156-176 1-27 (52)
43 PRK14559 putative protein seri 27.2 34 0.00073 35.5 1.5 41 153-195 13-53 (645)
44 PF09788 Tmemb_55A: Transmembr 26.7 4.9E+02 0.011 23.6 9.1 53 154-218 156-215 (256)
45 PRK03681 hypA hydrogenase nick 25.8 33 0.0007 27.1 0.9 26 152-177 67-95 (114)
46 PRK00432 30S ribosomal protein 25.8 39 0.00085 22.4 1.1 25 153-177 18-45 (50)
47 PF08600 Rsm1: Rsm1-like; Int 25.0 30 0.00066 26.0 0.6 14 182-195 54-67 (91)
48 PRK14559 putative protein seri 24.8 40 0.00086 35.0 1.5 24 156-179 2-25 (645)
49 COG4640 Predicted membrane pro 24.2 38 0.00082 32.6 1.1 25 156-180 2-26 (465)
50 PRK15103 paraquat-inducible me 24.1 5.7E+02 0.012 25.1 9.3 32 154-185 9-46 (419)
51 PLN00186 ribosomal protein S26 23.8 31 0.00067 26.8 0.4 19 168-186 19-37 (109)
52 smart00547 ZnF_RBZ Zinc finger 23.6 40 0.00086 18.6 0.7 21 157-177 4-24 (26)
53 PF03107 C1_2: C1 domain; Int 23.4 48 0.001 19.2 1.1 20 157-176 2-22 (30)
54 KOG3611|consensus 23.0 28 0.00061 36.6 0.1 38 169-206 491-536 (737)
55 PRK09335 30S ribosomal protein 22.7 33 0.00071 26.0 0.3 21 168-188 19-39 (95)
56 cd01995 ExsB ExsB is a transcr 22.5 29 0.00062 29.0 -0.0 24 156-182 141-164 (169)
57 PF04161 Arv1: Arv1-like famil 22.5 30 0.00066 30.3 0.1 25 157-181 2-36 (208)
58 smart00423 PSI domain found in 22.4 31 0.00066 22.1 0.1 17 173-189 5-21 (46)
59 PF11023 DUF2614: Protein of u 21.5 35 0.00075 26.8 0.3 15 83-97 15-29 (114)
60 PTZ00172 40S ribosomal protein 20.9 37 0.0008 26.4 0.3 20 168-187 19-38 (108)
61 PF07754 DUF1610: Domain of un 20.3 65 0.0014 17.9 1.1 19 158-176 1-23 (24)
No 1
>KOG1311|consensus
Probab=100.00 E-value=9.7e-44 Score=330.74 Aligned_cols=228 Identities=31% Similarity=0.585 Sum_probs=168.6
Q ss_pred eeeEeccccccccHHHHHHHHHHHHHHHHHHHHHhheee--eCCCCCCCCC--cccc---c------------cCccccc
Q psy7446 99 VFIVIPATYPVFGFWQVYHILFSTFLLFQIVTNYVYVIM--VDTSIHTVML--PSQL---R------------EGWYFCA 159 (340)
Q Consensus 99 ~~~~lp~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--~DPG~~~~~~--~~~~---~------------~~~~~C~ 159 (340)
++++.+...........+.+....+..++++.+...+.. +|||.+|+.. +.+. . .++++|.
T Consensus 38 ~~~~~~~~l~~~~~~~~~~~~~~if~~~~~~~~~~~~~~~~sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ 117 (299)
T KOG1311|consen 38 FFVFLPPLLPRGGVSPAVLVLGAIFFLLNILNLMLACFRMLSDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCD 117 (299)
T ss_pred EEEEEeeecCCcccchHHHHHHHHHHHHHHHHHHHHHhcccCCCceecCcccCCCCCccccccCCCcccCCcccceEEcC
Confidence 344455544432333334444445555555545555555 6999999841 1111 1 2479999
Q ss_pred cccccCCCCCccCccccccccccceeccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccccchhhHHHhh
Q psy7446 160 PCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGHYNHRYFMLFLFYLTVGTIYATYLNLFFI-HNFVSFNWGLLLKIM 238 (340)
Q Consensus 160 ~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 238 (340)
+|+..||+|||||+.||+||+||||||||+|||||++|||+|+.|+++..+++++.++.....+ .......... .
T Consensus 118 ~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~-~--- 193 (299)
T KOG1311|consen 118 TCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNL-T--- 193 (299)
T ss_pred cCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccc-c---
Confidence 9999999999999999999999999999999999999999999999999999999998887765 2211111100 0
Q ss_pred hhhHHhhhccCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCceeeeecCC------CCCCChhHHHHHHHhcCCc
Q psy7446 239 LPLAFLVFGLDTSTNHVYLIMLLVVMVGSMVSLLLLVYHFGLIQDGVLTFERNRK------LKGYNAGLKANIEQVFGIR 312 (340)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~------~n~yd~G~~~N~~~vfG~~ 312 (340)
+ ..........+++.++++++..+++.|+.+|++++.+|+||+|+.++ .++||+|..+|++++||.+
T Consensus 194 -~------~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~ 266 (299)
T KOG1311|consen 194 -P------VLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGP 266 (299)
T ss_pred -c------cccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCC
Confidence 0 00111223334555677788888889999999999999999999874 4899999999999999999
Q ss_pred cceeEEeeccCC-CCCCCCCeeecCC
Q psy7446 313 WYLVWLAPFVES-PLPSSGANWEMNS 337 (340)
Q Consensus 313 ~~~~w~~P~~~~-~~~~dG~~~~~~~ 337 (340)
....|+.|..++ +.|.||-.|+..+
T Consensus 267 ~~~~~~~p~~~~~~~p~~~~~~~~~~ 292 (299)
T KOG1311|consen 267 LPLSWLSPFARSGPLPHDGEGGPPTP 292 (299)
T ss_pred CCcccccccccCCCCCCCCCCCCccc
Confidence 999999999877 7889999887653
No 2
>KOG1315|consensus
Probab=100.00 E-value=5.5e-43 Score=318.67 Aligned_cols=196 Identities=30% Similarity=0.498 Sum_probs=150.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhheeeeCCCCCCCCCcc----cc-------------------ccCccccccccccCCCC
Q psy7446 112 FWQVYHILFSTFLLFQIVTNYVYVIMVDTSIHTVMLPS----QL-------------------REGWYFCAPCESVAPPR 168 (340)
Q Consensus 112 ~~~~~~~~~~~~l~~~~~~~~~~~~~~DPG~~~~~~~~----~~-------------------~~~~~~C~~C~~~kP~R 168 (340)
....+..+.+..+.++.+++|++++++|||.+|..... ++ .+..++|.+|+.+||+|
T Consensus 43 ~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdR 122 (307)
T KOG1315|consen 43 IPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGSDNERDLPGYTRTSDGAVRYCDKCKCIKPDR 122 (307)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccCcccccceeeEecCCCCceeecccccccCCc
Confidence 44556666777788888899999999999999843111 00 02569999999999999
Q ss_pred CccCccccccccccceeccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccccchhhHHHhhhhhHHhhhc
Q psy7446 169 AYHCHVCNTCILKRDHHCTFSACCIGHYNHRYFMLFLFYLTVGTIYATYLNLFFI-HNFVSFNWGLLLKIMLPLAFLVFG 247 (340)
Q Consensus 169 s~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 247 (340)
||||++|+|||+||||||||+|||||.+|||+|++|++|..+.+++.++.....+ +..... .. +
T Consensus 123 aHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~~~~-~~-------~------- 187 (307)
T KOG1315|consen 123 AHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYFQGG-AG-------P------- 187 (307)
T ss_pred cccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-cc-------C-------
Confidence 9999999999999999999999999999999999999999999999888776655 221110 00 0
Q ss_pred cCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCceeeeecCCC----CCCChhH---HHHHHHhcCCccceeEEee
Q psy7446 248 LDTSTNHVYLIMLLVVMVGSMVSLLLLVYHFGLIQDGVLTFERNRKL----KGYNAGL---KANIEQVFGIRWYLVWLAP 320 (340)
Q Consensus 248 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~~----n~yd~G~---~~N~~~vfG~~~~~~w~~P 320 (340)
.......+.+++++++...+.++.++.+|+++|++|+||+|..+.. ..++.+- ..|++|+||++ +..|+.|
T Consensus 188 -~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~~~n~~~vfg~~-~~~wl~P 265 (307)
T KOG1315|consen 188 -SSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNLYVNFREVFGSN-LLYWLLP 265 (307)
T ss_pred -chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcceeecHHHHhCCC-ceEEecc
Confidence 0111233445566666667777779999999999999999997752 2233332 57999999999 5679999
Q ss_pred ccCC
Q psy7446 321 FVES 324 (340)
Q Consensus 321 ~~~~ 324 (340)
...+
T Consensus 266 ~~~s 269 (307)
T KOG1315|consen 266 IDSS 269 (307)
T ss_pred ccCc
Confidence 8554
No 3
>KOG1314|consensus
Probab=100.00 E-value=1.4e-40 Score=298.20 Aligned_cols=213 Identities=23% Similarity=0.407 Sum_probs=153.9
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHhheeeeCCCCCCCCCccc---cccCccccccccccCCCCCccCcccccccccccee
Q psy7446 109 VFGFWQVYHILFSTFLLFQIVTNYVYVIMVDTSIHTVMLPSQ---LREGWYFCAPCESVAPPRAYHCHVCNTCILKRDHH 185 (340)
Q Consensus 109 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~DPG~~~~~~~~~---~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHH 185 (340)
..++....+.+...+..++++++|+.+++++||++|....++ |+.-.+||.+|+.+|+||||||+.|||||.+||||
T Consensus 42 ~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHH 121 (414)
T KOG1314|consen 42 LSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHH 121 (414)
T ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChhHHHHHHHhhccCcCCCccccchHHHHHHHhhccC
Confidence 344556666667777777788899999999999999875443 33456999999999999999999999999999999
Q ss_pred ccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHh--hhccccchhhHHH-hhhhhHHhhhccCcchhHHHHHHHHH
Q psy7446 186 CTFSACCIGHYNHRYFMLFLFYLTVGTIYATYLNLFFI--HNFVSFNWGLLLK-IMLPLAFLVFGLDTSTNHVYLIMLLV 262 (340)
Q Consensus 186 C~wi~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (340)
|||+|||||..||.+|+.||++..++|+-..+...... .+... |..... .-.| ...+ .....++.++.+.+
T Consensus 122 CPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~--W~~~~g~~hlp--~v~f--t~~~li~~vfslgl 195 (414)
T KOG1314|consen 122 CPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFR--WYIKYGLRHLP--IVFF--TLSSLIALVFSLGL 195 (414)
T ss_pred CcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHH--HHhhcccccCc--eeec--cHHHHHHHHHHhHH
Confidence 99999999999999999999999998775544332221 11111 100000 0011 1111 11112233445555
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCceeeeecC-------------C-----CCCCChhHHHHHHHhcCCccceeEEeeccCC
Q psy7446 263 VMVGSMVSLLLLVYHFGLIQDGVLTFERNR-------------K-----LKGYNAGLKANIEQVFGIRWYLVWLAPFVES 324 (340)
Q Consensus 263 ~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~-------------~-----~n~yd~G~~~N~~~vfG~~~~~~w~~P~~~~ 324 (340)
++...+.+++|++.|+..|.+|+|.+|..- + ..|||.|++.|+++||-...
T Consensus 196 a~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypydlgWr~n~r~vf~~~~----------- 264 (414)
T KOG1314|consen 196 AIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYDLGWRINLREVFFQNK----------- 264 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeeccccccccHHHHhhhcc-----------
Confidence 666677788999999999999999999732 0 34999999899999985542
Q ss_pred CCCCCCCeeecCCC
Q psy7446 325 PLPSSGANWEMNSS 338 (340)
Q Consensus 325 ~~~~dG~~~~~~~~ 338 (340)
...|||.+||+.++
T Consensus 265 ~~~gdg~~wPv~~g 278 (414)
T KOG1314|consen 265 KEEGDGIEWPVVEG 278 (414)
T ss_pred ccCCCCccccccCc
Confidence 13599999999764
No 4
>KOG1313|consensus
Probab=100.00 E-value=6e-39 Score=279.42 Aligned_cols=211 Identities=27% Similarity=0.410 Sum_probs=147.9
Q ss_pred HHHHHHHHHHHHHhheeeeCCCCCCCCCccccccCccccccccccCCCCCccCccccccccccceeccccccccchhhHH
Q psy7446 120 FSTFLLFQIVTNYVYVIMVDTSIHTVMLPSQLREGWYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGHYNHR 199 (340)
Q Consensus 120 ~~~~l~~~~~~~~~~~~~~DPG~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r 199 (340)
.+.+++.++...|+++....|- .....++..+|.+|+.+||||+|||+.||+||++|||||||+|||||.+|||
T Consensus 73 l~i~~l~nvi~hy~ka~t~pPv------gn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHr 146 (309)
T KOG1313|consen 73 LAIYLLSNVIFHYYKARTKPPV------GNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHR 146 (309)
T ss_pred HHHHHHHHHHHhheeecccCCc------CCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccch
Confidence 3457788888889999776651 1233456789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh--hhccccchh---hHHHhhhhhHHhhhccCcchhHHHHHHHHHHHHHHHHHHHHH
Q psy7446 200 YFMLFLFYLTVGTIYATYLNLFFI--HNFVSFNWG---LLLKIMLPLAFLVFGLDTSTNHVYLIMLLVVMVGSMVSLLLL 274 (340)
Q Consensus 200 ~Fi~fl~~~~~~~~~~~~~~~~~~--~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 274 (340)
+|++|++++.+++.|..+.+.+.. ..+...+.. +......|...+.-......+.-..-..++++..++.++.+.
T Consensus 147 yFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~ 226 (309)
T KOG1313|consen 147 YFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLT 226 (309)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhcccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999888765544 111111100 000111221111100000011111224555666778889999
Q ss_pred HHHHHHHhcCceeeeec------------CCCCCCChhHHHHHHHhcCCcc----ceeEEeeccCCCCCCCCCeeecCC
Q psy7446 275 VYHFGLIQDGVLTFERN------------RKLKGYNAGLKANIEQVFGIRW----YLVWLAPFVESPLPSSGANWEMNS 337 (340)
Q Consensus 275 ~~~~~li~~n~Tt~E~~------------~~~n~yd~G~~~N~~~vfG~~~----~~~w~~P~~~~~~~~dG~~~~~~~ 337 (340)
.+|.++|.+|.|++|+. .++||++.|.++||+.++|-.. +.+.++|-+. ++.+.|.+|++++
T Consensus 227 ~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~~n~g~k~nWr~fLg~~~~r~~wk~v~lPt~~-~p~~~~~~~~~~d 304 (309)
T KOG1313|consen 227 AWHAVLISRGETSIEQLINIKERKRYLAHLRSNPTNFGGKANWRNFLGLFRGRHFWKTVLLPTIR-KPVKYGDSKEKSD 304 (309)
T ss_pred HHhheeeehhhhhHHHHHHHHHhHhHHHhccCCCcccchHHHHHHhhccccCCceeEEEeccccc-cccccCCcccccc
Confidence 99999999999999983 2368999999999999997633 2344566432 3347898998654
No 5
>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=7.1e-37 Score=262.95 Aligned_cols=150 Identities=30% Similarity=0.667 Sum_probs=116.7
Q ss_pred HHhheeeeCCCCCCCCC---------ccc------------cccCccccccccccCCCCCccCccccccccccceecccc
Q psy7446 131 NYVYVIMVDTSIHTVML---------PSQ------------LREGWYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFS 189 (340)
Q Consensus 131 ~~~~~~~~DPG~~~~~~---------~~~------------~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi 189 (340)
+|++++.+|||++|+.. +++ ..+..++|.+|+.+||+|||||+.||+||+|+||||+|+
T Consensus 3 ~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~ 82 (174)
T PF01529_consen 3 SYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWL 82 (174)
T ss_pred EehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchhh
Confidence 67889999999999761 100 014679999999999999999999999999999999999
Q ss_pred ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccccchhhHHHhhhhhHHhhhccCcchhHHHHHHHHHHHHHHH
Q psy7446 190 ACCIGHYNHRYFMLFLFYLTVGTIYATYLNLFFI-HNFVSFNWGLLLKIMLPLAFLVFGLDTSTNHVYLIMLLVVMVGSM 268 (340)
Q Consensus 190 ~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 268 (340)
|||||++|||+|++|+++..+++++.+...+..+ ............. ......+++++.+++.++
T Consensus 83 ~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~ 148 (174)
T PF01529_consen 83 GNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWI--------------FSNFSSIFLLIISIFFFI 148 (174)
T ss_pred ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccc--------------chhhhHHHHHHHHHHHHH
Confidence 9999999999999999999999999988777666 2211111100000 000002455666777888
Q ss_pred HHHHHHHHHHHHHhcCceeeeecCCC
Q psy7446 269 VSLLLLVYHFGLIQDGVLTFERNRKL 294 (340)
Q Consensus 269 ~~~~l~~~~~~li~~n~Tt~E~~~~~ 294 (340)
+++.+++.|++++++|+||+|.+|++
T Consensus 149 ~~~~l~~~~~~~i~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 149 FVGFLLIFQLYLILRNITTYERIKRK 174 (174)
T ss_pred HHHHHHHHHHHHHHcCCcHHHHHHcC
Confidence 89999999999999999999998763
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=1.1e-33 Score=261.38 Aligned_cols=195 Identities=25% Similarity=0.442 Sum_probs=132.6
Q ss_pred HHHHHHHhheeeeCCCCCCCCCcc-------------ccccCccccccccccCCCCCccCccccccccccceeccccccc
Q psy7446 126 FQIVTNYVYVIMVDTSIHTVMLPS-------------QLREGWYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACC 192 (340)
Q Consensus 126 ~~~~~~~~~~~~~DPG~~~~~~~~-------------~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nC 192 (340)
......++....+|||..+++... ...+..++|.+|+.+||+|||||+.||+||+||||||+|+|||
T Consensus 67 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nC 146 (309)
T COG5273 67 VLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNC 146 (309)
T ss_pred hhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcchhhccCccCcccccc
Confidence 344568889999999999844211 1125679999999999999999999999999999999999999
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccccchhhHHHhhhhhHHhhhccCcchhHHHHHHHHHHHHHHHHHH
Q psy7446 193 IGHYNHRYFMLFLFYLTVGTIYATYLNLFFI-HNFVSFNWGLLLKIMLPLAFLVFGLDTSTNHVYLIMLLVVMVGSMVSL 271 (340)
Q Consensus 193 IG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 271 (340)
||.+|||+|++|+++....+.+.+.....++ ............. ......+...++.....+.
T Consensus 147 VG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~li~~~~~~~~~~f~~~~ 210 (309)
T COG5273 147 VGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAI----------------CFLIFGCSLLGVVFFIITT 210 (309)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHH----------------HHHHHhhhHHHHHHHHHHH
Confidence 9999999999999999998888888777666 3322222211110 0000111223333444555
Q ss_pred HHHHHHHHHHhcCceeeeecCC---------------C--------------CCCChhHHHHHHHhcCCccceeEEeecc
Q psy7446 272 LLLVYHFGLIQDGVLTFERNRK---------------L--------------KGYNAGLKANIEQVFGIRWYLVWLAPFV 322 (340)
Q Consensus 272 ~l~~~~~~li~~n~Tt~E~~~~---------------~--------------n~yd~G~~~N~~~vfG~~~~~~w~~P~~ 322 (340)
.++.++.+++..|+|++|..+. . .|++.|.-+|++.+++.+ ...|..|..
T Consensus 211 ~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~~~~ 289 (309)
T COG5273 211 LLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDLGIGQNLSTIKGSN-ALYWLTPLH 289 (309)
T ss_pred HHHHHHHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCccccccccCccccceeecCCC-ceeeccccc
Confidence 6667777777777777765321 1 256777778888888777 456766632
Q ss_pred CCCCCCCCCeeecCCCC
Q psy7446 323 ESPLPSSGANWEMNSST 339 (340)
Q Consensus 323 ~~~~~~dG~~~~~~~~~ 339 (340)
. +. .++.+++.+.|.
T Consensus 290 ~-~~-~~~~~~~~~~~~ 304 (309)
T COG5273 290 T-NY-CNSYDFSLRSDT 304 (309)
T ss_pred c-CC-CCccCcccchhh
Confidence 1 22 455666655543
No 7
>KOG1312|consensus
Probab=99.97 E-value=1.9e-31 Score=233.70 Aligned_cols=123 Identities=27% Similarity=0.495 Sum_probs=90.4
Q ss_pred eeeeeeeEeccccccccHHHHHHHHHHHHHHHHHHHHHhheeeeCCCCCCCCCccc--------cc--cCcccccccccc
Q psy7446 95 FWFVVFIVIPATYPVFGFWQVYHILFSTFLLFQIVTNYVYVIMVDTSIHTVMLPSQ--------LR--EGWYFCAPCESV 164 (340)
Q Consensus 95 ~~~~~~~~lp~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~DPG~~~~~~~~~--------~~--~~~~~C~~C~~~ 164 (340)
+....+...|.+. .+. .+.+....++..-..++..++.+|||.+.+...++ +. .....|++|+++
T Consensus 83 ~~~esfiy~~~l~--lsl---~~~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~ 157 (341)
T KOG1312|consen 83 YTWESFIYCQELE--LSL---HYLILPYLLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIR 157 (341)
T ss_pred hhheeeEeccchh--hhH---HHHHHHHHHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCC
Confidence 3444455555542 122 22223333333334567888899999998653321 11 345899999999
Q ss_pred CCCCCccCccccccccccceeccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7446 165 APPRAYHCHVCNTCILKRDHHCTFSACCIGHYNHRYFMLFLFYLTVGTIYATYLNLFF 222 (340)
Q Consensus 165 kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~~~~ 222 (340)
||+|||||+.|||||+||||||.|+|||||++|.|+|++|+++...++.++.......
T Consensus 158 KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi 215 (341)
T KOG1312|consen 158 KPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFI 215 (341)
T ss_pred CccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHhe
Confidence 9999999999999999999999999999999999999999999988887776655443
No 8
>KOG0509|consensus
Probab=99.95 E-value=1.3e-28 Score=237.54 Aligned_cols=173 Identities=23% Similarity=0.332 Sum_probs=112.3
Q ss_pred HHhheeeeCCCCCCCCCccc----------cc-cCc-cccccccccCCCCCccCccccccccccceeccccccccchhhH
Q psy7446 131 NYVYVIMVDTSIHTVMLPSQ----------LR-EGW-YFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGHYNH 198 (340)
Q Consensus 131 ~~~~~~~~DPG~~~~~~~~~----------~~-~~~-~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~ 198 (340)
.+.+...+|||++|...+.. ++ +.. +||.+|.++||.|||||+.|||||.||||||||++||||.+||
T Consensus 384 ~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~en~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh 463 (600)
T KOG0509|consen 384 TFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNH 463 (600)
T ss_pred HHHHHhccCCCCCCCchhhHHHHHHHhhccccccccccceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccch
Confidence 34444559999998653321 11 334 6999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-hhcccc-chhhHHHhhhhhHHhhhccCcchhHHHHHHHHHHHHHHHHHH-HHHH
Q psy7446 199 RYFMLFLFYLTVGTIYATYLNLFFI-HNFVSF-NWGLLLKIMLPLAFLVFGLDTSTNHVYLIMLLVVMVGSMVSL-LLLV 275 (340)
Q Consensus 199 r~Fi~fl~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~ 275 (340)
|+|+.|++.....+.+.+.....++ ...... .+...+.... . +... +....-++...-+-..+.+ ..-.
T Consensus 464 ~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~~~~~~~l~~~~---~--~~~~---~~~~~~~~~n~~~~~t~~~~~~~~ 535 (600)
T KOG0509|consen 464 RLFVFFLLTLLTVIVFYLYLCLYYIMNLENASTIYVGFLIAVQ---A--FRIP---KPVTGNLLGNEDLNPTWGSTSTKC 535 (600)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHH---H--HhCC---ccceeeeeeccccccccccccccc
Confidence 9999999999999998888887776 221111 1110000000 0 0000 0000000000000001111 1223
Q ss_pred HHHHHHhcCceeeeecCC-------------CCCCChhHHHHHHHhcCC
Q psy7446 276 YHFGLIQDGVLTFERNRK-------------LKGYNAGLKANIEQVFGI 311 (340)
Q Consensus 276 ~~~~li~~n~Tt~E~~~~-------------~n~yd~G~~~N~~~vfG~ 311 (340)
.|-..++.+.||+|.++. ++|++.|+.+|+.+|+-.
T Consensus 536 ~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~~s~g~~~Nl~df~~~ 584 (600)
T KOG0509|consen 536 QHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSPFSPGPIRNLVDFFLC 584 (600)
T ss_pred cccceeeecccHHHHHHHHHhhccccccCcCCCCCCchhhhcchheeec
Confidence 344568889999998542 568999999999999743
No 9
>KOG1315|consensus
Probab=98.65 E-value=2.4e-08 Score=91.91 Aligned_cols=74 Identities=30% Similarity=0.503 Sum_probs=59.4
Q ss_pred hhHHHHHHHHHHH---HHHHHHHHHcCCeeeEEeC---------CCCcCcchhHHhhhhHhhccceEEEEeccccccCCC
Q psy7446 2 LLVVMVGSMVSLL---LLVYHFGLIQDGVLTFERN---------RKLKGYNAGLKANIEQVFGIRWYLVWLAPFVESPLP 69 (340)
Q Consensus 2 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~e~~---------~~~~~~~lg~~~n~~~v~G~~~~~~wl~p~~~s~~~ 69 (340)
+++++++.+|+++ +++||++|+++|+||+|.. ..++++|+ ++|++|+||.+ +..|+.|..++.
T Consensus 196 ~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~~n~~~vfg~~-~~~wl~P~~~s~-- 270 (307)
T KOG1315|consen 196 VFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--YVNFREVFGSN-LLYWLLPIDSSW-- 270 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--eecHHHHhCCC-ceEEeccccCcc--
Confidence 4566777777766 6899999999999999983 23556777 88999999965 777999999887
Q ss_pred CCCcccccccc
Q psy7446 70 SSGANWEMNRD 80 (340)
Q Consensus 70 ~dG~~~~~~~~ 80 (340)
+||.+++.+.+
T Consensus 271 ~~~~~~~~~~~ 281 (307)
T KOG1315|consen 271 GDGVSFPLRGD 281 (307)
T ss_pred ccCcccccccc
Confidence 88887776554
No 10
>KOG1311|consensus
Probab=98.21 E-value=1.1e-06 Score=82.05 Aligned_cols=74 Identities=34% Similarity=0.556 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHHHHcCCeeeEEeCCC------CcCcchhHHhhhhHhhccceEEEEecccccc-CCCCCCcccccc
Q psy7446 6 MVGSMVSLLLLVYHFGLIQDGVLTFERNRK------LKGYNAGLKANIEQVFGIRWYLVWLAPFVES-PLPSSGANWEMN 78 (340)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~------~~~~~lg~~~n~~~v~G~~~~~~wl~p~~~s-~~~~dG~~~~~~ 78 (340)
+++..+.+.|+.+|++++.+|+||+|+-+. .++||.|..+|++++||.+....|++|..++ ..|+||..|+..
T Consensus 212 ~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~ 291 (299)
T KOG1311|consen 212 ALFLAFTSALLCFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARSGPLPHDGEGGPPT 291 (299)
T ss_pred HHHHHHHHHHHHhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCCCCcccccccccCCCCCCCCCCCCcc
Confidence 344444555999999999999999998542 3799999999999999999999999999998 889999988754
Q ss_pred c
Q psy7446 79 R 79 (340)
Q Consensus 79 ~ 79 (340)
.
T Consensus 292 ~ 292 (299)
T KOG1311|consen 292 P 292 (299)
T ss_pred c
Confidence 3
No 11
>KOG1314|consensus
Probab=96.62 E-value=0.0024 Score=59.11 Aligned_cols=61 Identities=18% Similarity=0.283 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHcCCeeeEEe------------------CCCCcCcchhHHhhhhHhhccceEEEEeccccccCCCCCC
Q psy7446 11 VSLLLLVYHFGLIQDGVLTFER------------------NRKLKGYNAGLKANIEQVFGIRWYLVWLAPFVESPLPSSG 72 (340)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~e~------------------~~~~~~~~lg~~~n~~~v~G~~~~~~wl~p~~~s~~~~dG 72 (340)
..+.||+-|+--+++|||-+|. ++-..+||+|++.|+|+||=.. ....+||
T Consensus 202 a~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypydlgWr~n~r~vf~~~-----------~~~~gdg 270 (414)
T KOG1314|consen 202 ALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYDLGWRINLREVFFQN-----------KKEEGDG 270 (414)
T ss_pred HHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeeccccccccHHHHhhhc-----------cccCCCC
Confidence 3344899999999999999997 1114589999999999997522 1255999
Q ss_pred cccccccccc
Q psy7446 73 ANWEMNRDIV 82 (340)
Q Consensus 73 ~~~~~~~~~~ 82 (340)
..||......
T Consensus 271 ~~wPv~~gc~ 280 (414)
T KOG1314|consen 271 IEWPVVEGCV 280 (414)
T ss_pred ccccccCccc
Confidence 9999865433
No 12
>KOG1313|consensus
Probab=92.76 E-value=0.12 Score=46.55 Aligned_cols=64 Identities=30% Similarity=0.361 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHcCCeeeEEe------------CCCCcCcchhHHhhhhHhhc---cc-eEEEEeccccccCCCCCCccc
Q psy7446 12 SLLLLVYHFGLIQDGVLTFER------------NRKLKGYNAGLKANIEQVFG---IR-WYLVWLAPFVESPLPSSGANW 75 (340)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~e~------------~~~~~~~~lg~~~n~~~v~G---~~-~~~~wl~p~~~s~~~~dG~~~ 75 (340)
.+.+-.+|..++.+|.|.+|. +..+++||-|.++|+|..+| .| .+...+.|....+ .+.|-+|
T Consensus 222 vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~~n~g~k~nWr~fLg~~~~r~~wk~v~lPt~~~p-~~~~~~~ 300 (309)
T KOG1313|consen 222 VGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLRSNPTNFGGKANWRNFLGLFRGRHFWKTVLLPTIRKP-VKYGDSK 300 (309)
T ss_pred HHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhccCCCcccchHHHHHHhhccccCCceeEEEeccccccc-cccCCcc
Confidence 344789999999999999987 22367899999999888765 34 3444577777644 3555566
Q ss_pred c
Q psy7446 76 E 76 (340)
Q Consensus 76 ~ 76 (340)
+
T Consensus 301 ~ 301 (309)
T KOG1313|consen 301 E 301 (309)
T ss_pred c
Confidence 6
No 13
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=89.40 E-value=0.2 Score=27.62 Aligned_cols=21 Identities=29% Similarity=0.736 Sum_probs=19.0
Q ss_pred ccccccccCCCCCccCccccc
Q psy7446 157 FCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 157 ~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 699999999999999999985
No 14
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=85.62 E-value=7.5 Score=36.42 Aligned_cols=46 Identities=20% Similarity=0.347 Sum_probs=30.2
Q ss_pred cCccccccccccCCCCCccCccccccccccceeccccccccchhhHHHHHHHHHHHH
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGHYNHRYFMLFLFYLT 209 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r~Fi~fl~~~~ 209 (340)
++.+.|+.|+.=....-|||.-=|+||-+..| |=.-.|+.++...+
T Consensus 121 ~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~ 166 (309)
T COG5273 121 PRSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVA 166 (309)
T ss_pred CCCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHH
Confidence 45577777777777777777777777776555 44455666664433
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=85.09 E-value=0.51 Score=26.78 Aligned_cols=22 Identities=32% Similarity=0.822 Sum_probs=19.2
Q ss_pred cccccccccCCCCCccCccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
++|+.|....++.++.|+.||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 6799999988999999999875
No 16
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=82.90 E-value=0.72 Score=30.16 Aligned_cols=24 Identities=29% Similarity=0.635 Sum_probs=21.8
Q ss_pred CccccccccccCCCCCccCccccc
Q psy7446 154 GWYFCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 154 ~~~~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
....|..|..+-|+|+..|+.||.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 558999999999999999998875
No 17
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=82.54 E-value=0.71 Score=26.28 Aligned_cols=22 Identities=27% Similarity=0.644 Sum_probs=19.3
Q ss_pred cccccccccCCCCCccCccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
+.|+.|....|.-++-|+.||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4699999999999999998874
No 18
>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=76.38 E-value=5.1 Score=33.68 Aligned_cols=32 Identities=25% Similarity=0.473 Sum_probs=29.1
Q ss_pred cCccccccccccCCCCCccCccccccccccce
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCNTCILKRDH 184 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DH 184 (340)
++.++|..|+.-...+-|||.--|.||.+..|
T Consensus 60 ~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~ 91 (174)
T PF01529_consen 60 PRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH 91 (174)
T ss_pred CcceeccccccccccccccchhhccccccccH
Confidence 56789999999999999999999999998877
No 19
>KOG0509|consensus
Probab=72.33 E-value=2.1 Score=43.03 Aligned_cols=64 Identities=11% Similarity=-0.150 Sum_probs=51.8
Q ss_pred ccccccccccCCCCCccCccccccccccceeccccccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q psy7446 155 WYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGHYNHRYFMLFLFYLTVGTIYATYLN 219 (340)
Q Consensus 155 ~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~~N~r~Fi~fl~~~~~~~~~~~~~~ 219 (340)
...|.+|....+.+..++..+-.++..+++||.|+. +|+.+|-..+-...+...+..++.+...
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~~~~~f~~~ 388 (600)
T KOG0509|consen 325 TCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLAYFITFGLF 388 (600)
T ss_pred heeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHHHHHHHHHH
Confidence 467888999999999999999999999999999999 9999998876655555555555544443
No 20
>PF12773 DZR: Double zinc ribbon
Probab=69.02 E-value=3.6 Score=27.01 Aligned_cols=36 Identities=19% Similarity=0.441 Sum_probs=24.3
Q ss_pred cCccccccccccCC---CCCccCccccccccccceeccc
Q psy7446 153 EGWYFCAPCESVAP---PRAYHCHVCNTCILKRDHHCTF 188 (340)
Q Consensus 153 ~~~~~C~~C~~~kP---~Rs~HC~~C~~CV~~~DHHC~w 188 (340)
++.++|..|...-+ ...+.|+.|+.=+...+.+|+.
T Consensus 10 ~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 10 DDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 34577777777655 3356787777777777777663
No 21
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=67.08 E-value=1.3 Score=28.97 Aligned_cols=26 Identities=31% Similarity=0.617 Sum_probs=22.3
Q ss_pred cCccccccccccCCCCCccCcccccc
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCNTC 178 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~~C 178 (340)
-+.+.|..|..+-|+|+.-|+.|+.=
T Consensus 12 ~~kkIC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 12 FNKKICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred hhHHHHHHhcCCCCcchhHHhhccCC
Confidence 35689999999999999999988653
No 22
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=62.36 E-value=3.9 Score=42.32 Aligned_cols=22 Identities=32% Similarity=0.693 Sum_probs=18.2
Q ss_pred cccccccccCC-------CCCccCccccc
Q psy7446 156 YFCAPCESVAP-------PRAYHCHVCNT 177 (340)
Q Consensus 156 ~~C~~C~~~kP-------~Rs~HC~~C~~ 177 (340)
..|..|+..-. .|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 46999997764 39999999987
No 23
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=59.85 E-value=1.8e+02 Score=28.53 Aligned_cols=33 Identities=24% Similarity=0.506 Sum_probs=25.4
Q ss_pred cCccccccccccCCCCCccCcccccccccccee
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCNTCILKRDHH 185 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHH 185 (340)
++..-|+.|+...|....||+.|+.-..+.+++
T Consensus 219 ~~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 219 QGLRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred cCCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 345679999988877777899888877665554
No 24
>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=56.67 E-value=5.6 Score=26.54 Aligned_cols=25 Identities=32% Similarity=0.775 Sum_probs=17.0
Q ss_pred CccccccccccCCCCCccCcc--cccc
Q psy7446 154 GWYFCAPCESVAPPRAYHCHV--CNTC 178 (340)
Q Consensus 154 ~~~~C~~C~~~kP~Rs~HC~~--C~~C 178 (340)
+...|..|..+-|+|+..|+. ||.+
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 558999999999999999998 7754
No 25
>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=55.95 E-value=4.9 Score=27.26 Aligned_cols=36 Identities=28% Similarity=0.818 Sum_probs=27.5
Q ss_pred ccccccccCCCCC-------ccCcccccccccc-ceeccccccccch
Q psy7446 157 FCAPCESVAPPRA-------YHCHVCNTCILKR-DHHCTFSACCIGH 195 (340)
Q Consensus 157 ~C~~C~~~kP~Rs-------~HC~~C~~CV~~~-DHHC~wi~nCIG~ 195 (340)
-|..|+..-|+-| +-|..|..|+... +++|| ||=|.
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 4677776666654 5688999999998 99998 66654
No 26
>PF12773 DZR: Double zinc ribbon
Probab=55.05 E-value=8.3 Score=25.22 Aligned_cols=24 Identities=29% Similarity=0.747 Sum_probs=21.1
Q ss_pred cCccccccccccCCCCCccCcccc
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCN 176 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~ 176 (340)
....+|+.|....++.++.|..|+
T Consensus 27 ~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 27 QSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCCcCCcCCCcCCcCccCccc
Confidence 345799999999999999999986
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=54.65 E-value=2.2e+02 Score=27.83 Aligned_cols=33 Identities=21% Similarity=0.483 Sum_probs=23.1
Q ss_pred cCcccccccccc-CCCCCccCcccccccccccee
Q psy7446 153 EGWYFCAPCESV-APPRAYHCHVCNTCILKRDHH 185 (340)
Q Consensus 153 ~~~~~C~~C~~~-kP~Rs~HC~~C~~CV~~~DHH 185 (340)
++..-|++|+.. +|....+|+.|+.-..+.+++
T Consensus 213 ~~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 213 LKLRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred cCCCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 345669999974 555566888888877666554
No 28
>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=53.78 E-value=1.7e+02 Score=28.60 Aligned_cols=33 Identities=18% Similarity=0.467 Sum_probs=20.8
Q ss_pred cCccccccccccC--C----CCCccCcccccccccccee
Q psy7446 153 EGWYFCAPCESVA--P----PRAYHCHVCNTCILKRDHH 185 (340)
Q Consensus 153 ~~~~~C~~C~~~k--P----~Rs~HC~~C~~CV~~~DHH 185 (340)
.+..-|++|+... | ...-+|+.||.-..+.+++
T Consensus 11 ~~~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 49 (403)
T TIGR00155 11 AKHILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDW 49 (403)
T ss_pred CCeeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCC
Confidence 3455699998432 2 2334688888877766654
No 29
>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=51.01 E-value=26 Score=30.94 Aligned_cols=29 Identities=17% Similarity=0.232 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHhheeeeCCCCCCC
Q psy7446 117 HILFSTFLLFQIVTNYVYVIMVDTSIHTV 145 (340)
Q Consensus 117 ~~~~~~~l~~~~~~~~~~~~~~DPG~~~~ 145 (340)
.++....+++.++..|.+|...|||....
T Consensus 196 aliVitl~vf~LvgLyr~C~k~dPg~p~~ 224 (259)
T PF07010_consen 196 ALIVITLSVFTLVGLYRMCWKTDPGTPEN 224 (259)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCccc
Confidence 33344455666778899999999997654
No 30
>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=50.80 E-value=7.1 Score=27.47 Aligned_cols=26 Identities=23% Similarity=0.436 Sum_probs=12.3
Q ss_pred cccccccccc--CCCCCccCcccccccc
Q psy7446 155 WYFCAPCESV--APPRAYHCHVCNTCIL 180 (340)
Q Consensus 155 ~~~C~~C~~~--kP~Rs~HC~~C~~CV~ 180 (340)
...|..|... --.|-|||+.||+-|-
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 3567777654 3467899999988543
No 31
>KOG1842|consensus
Probab=49.18 E-value=4.4 Score=39.23 Aligned_cols=27 Identities=26% Similarity=0.727 Sum_probs=21.0
Q ss_pred cCccccccccccC--CCCCccCccccccc
Q psy7446 153 EGWYFCAPCESVA--PPRAYHCHVCNTCI 179 (340)
Q Consensus 153 ~~~~~C~~C~~~k--P~Rs~HC~~C~~CV 179 (340)
....+|+.|...= --|-|||+.||+-+
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHH
Confidence 3568999998763 44789999999844
No 32
>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=45.80 E-value=7.7 Score=22.55 Aligned_cols=22 Identities=23% Similarity=0.769 Sum_probs=15.6
Q ss_pred cccccccccCCCCCccCccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
=.|..|...-++++.+|..|+.
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 3588888888888888888864
No 33
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=44.04 E-value=11 Score=22.29 Aligned_cols=24 Identities=25% Similarity=0.606 Sum_probs=12.0
Q ss_pred Ccccccccccc----CCCCCccCccccc
Q psy7446 154 GWYFCAPCESV----APPRAYHCHVCNT 177 (340)
Q Consensus 154 ~~~~C~~C~~~----kP~Rs~HC~~C~~ 177 (340)
+.+||..|... ...+++.|+.|+.
T Consensus 2 ~~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 2 NHRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TTSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CCcccCcCCccccCCCCcCEeECCCCcC
Confidence 35788888755 3345666766654
No 34
>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 COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=42.69 E-value=13 Score=25.78 Aligned_cols=23 Identities=26% Similarity=0.668 Sum_probs=20.7
Q ss_pred ccccccccccCCCCCccCccccc
Q psy7446 155 WYFCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 155 ~~~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
.+-|..|+...|+.+.-|+.|+.
T Consensus 4 ~kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 4 EKACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred hHHHhhccccCCCCCccCCCCCC
Confidence 46799999999999999999986
No 36
>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=41.90 E-value=39 Score=23.32 Aligned_cols=23 Identities=26% Similarity=0.716 Sum_probs=16.6
Q ss_pred ccccccccccCCCCCccCc-cccc
Q psy7446 155 WYFCAPCESVAPPRAYHCH-VCNT 177 (340)
Q Consensus 155 ~~~C~~C~~~kP~Rs~HC~-~C~~ 177 (340)
.+.|..|....|+--..|| .|+.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 4678888888888777775 5654
No 37
>KOG3183|consensus
Probab=38.05 E-value=14 Score=32.94 Aligned_cols=12 Identities=25% Similarity=0.384 Sum_probs=9.4
Q ss_pred ccccceeccccc
Q psy7446 179 ILKRDHHCTFSA 190 (340)
Q Consensus 179 V~~~DHHC~wi~ 190 (340)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 566799999973
No 38
>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=34.92 E-value=14 Score=21.47 Aligned_cols=21 Identities=24% Similarity=0.629 Sum_probs=8.8
Q ss_pred ccccccccCCC-CCccCccccc
Q psy7446 157 FCAPCESVAPP-RAYHCHVCNT 177 (340)
Q Consensus 157 ~C~~C~~~kP~-Rs~HC~~C~~ 177 (340)
.|..|+..... ...+|+.|+-
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 57788777666 7788888864
No 39
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=34.68 E-value=27 Score=23.30 Aligned_cols=24 Identities=25% Similarity=0.569 Sum_probs=15.4
Q ss_pred ccccccccc--CCCCCccCccccccc
Q psy7446 156 YFCAPCESV--APPRAYHCHVCNTCI 179 (340)
Q Consensus 156 ~~C~~C~~~--kP~Rs~HC~~C~~CV 179 (340)
+.|..|... .-.|.|||+.|++-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 346666543 355778888887743
No 40
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=29.33 E-value=17 Score=22.11 Aligned_cols=9 Identities=33% Similarity=1.106 Sum_probs=5.8
Q ss_pred ccccccccc
Q psy7446 156 YFCAPCESV 164 (340)
Q Consensus 156 ~~C~~C~~~ 164 (340)
+||++|+..
T Consensus 2 ~FCp~C~nl 10 (35)
T PF02150_consen 2 RFCPECGNL 10 (35)
T ss_dssp -BETTTTSB
T ss_pred eeCCCCCcc
Confidence 578888744
No 41
>PF01437 PSI: Plexin repeat; InterPro: IPR002165 This is a cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found in plexin (P70206 from SWISSPROT) []. Two copies of the repeat are found in mahogany protein. A related Caenorhabditis elegans protein (Q19981 from SWISSPROT) contains four copies of the repeat, while the Met receptor contains a single copy of the repeat.; GO: 0016020 membrane; PDB: 3NVQ_B 3NVN_B 3OL2_B 3OKT_A 3AL8_A 3OKW_A 3OKY_B 3AFC_B 1OLZ_B 1SHY_B ....
Probab=28.74 E-value=12 Score=24.70 Aligned_cols=21 Identities=29% Similarity=0.907 Sum_probs=15.8
Q ss_pred ccccccccccceecccc---cccc
Q psy7446 173 HVCNTCILKRDHHCTFS---ACCI 193 (340)
Q Consensus 173 ~~C~~CV~~~DHHC~wi---~nCI 193 (340)
..|+.|+.-.|-+|.|- +.|+
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 67888888888888883 3455
No 42
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=28.71 E-value=28 Score=22.72 Aligned_cols=21 Identities=29% Similarity=0.961 Sum_probs=11.1
Q ss_pred cccccccccCCCC------CccCcccc
Q psy7446 156 YFCAPCESVAPPR------AYHCHVCN 176 (340)
Q Consensus 156 ~~C~~C~~~kP~R------s~HC~~C~ 176 (340)
+||+.|.....++ -..|+.|+
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg 27 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCG 27 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCC
Confidence 3677776553322 23466665
No 43
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.17 E-value=34 Score=35.53 Aligned_cols=41 Identities=22% Similarity=0.478 Sum_probs=22.9
Q ss_pred cCccccccccccCCCCCccCccccccccccceeccccccccch
Q psy7446 153 EGWYFCAPCESVAPPRAYHCHVCNTCILKRDHHCTFSACCIGH 195 (340)
Q Consensus 153 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHC~wi~nCIG~ 195 (340)
++.+||..|...- ..+.|..||.=+..-..+|+=-|.=.|.
T Consensus 13 ~~akFC~~CG~~l--~~~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 13 NNNRFCQKCGTSL--THKPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CCCccccccCCCC--CCCcCCCCCCCCCcccccccccCCcccc
Confidence 3446666665432 2345666666666666666654444444
No 44
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=26.71 E-value=4.9e+02 Score=23.65 Aligned_cols=53 Identities=17% Similarity=0.389 Sum_probs=28.1
Q ss_pred Ccccccccccc----CCC-CC-ccCccccccccccceeccccccccch-hhHHHHHHHHHHHHHHHHHHHHH
Q psy7446 154 GWYFCAPCESV----APP-RA-YHCHVCNTCILKRDHHCTFSACCIGH-YNHRYFMLFLFYLTVGTIYATYL 218 (340)
Q Consensus 154 ~~~~C~~C~~~----kP~-Rs-~HC~~C~~CV~~~DHHC~wi~nCIG~-~N~r~Fi~fl~~~~~~~~~~~~~ 218 (340)
-.-.|..|+.. .+. ++ -+|+.|++- .-||. ...|..+.|.+...+..+..+++
T Consensus 156 ~rv~CghC~~~Fl~~~~~~~tlARCPHCrKv------------SSVG~~faRkR~i~f~llgllfliiaigl 215 (256)
T PF09788_consen 156 CRVICGHCSNTFLFNTLTSNTLARCPHCRKV------------SSVGPRFARKRAIIFFLLGLLFLIIAIGL 215 (256)
T ss_pred eeEECCCCCCcEeccCCCCCccccCCCCcee------------ccccchHhhhHHHHHHHHHHHHHHHHHHH
Confidence 44678888643 222 23 256666553 24674 45556666665555544444443
No 45
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.80 E-value=33 Score=27.06 Aligned_cols=26 Identities=19% Similarity=0.565 Sum_probs=19.6
Q ss_pred ccCccccccccccCCCCCcc---Cccccc
Q psy7446 152 REGWYFCAPCESVAPPRAYH---CHVCNT 177 (340)
Q Consensus 152 ~~~~~~C~~C~~~kP~Rs~H---C~~C~~ 177 (340)
.+..-+|..|+..-|...++ |+.|+.
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 67 QEAECWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred eCcEEEcccCCCeeecCCccCCcCcCcCC
Confidence 36778999999887775444 888874
No 46
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.78 E-value=39 Score=22.41 Aligned_cols=25 Identities=28% Similarity=0.650 Sum_probs=15.2
Q ss_pred cCccccccccc-c--CCCCCccCccccc
Q psy7446 153 EGWYFCAPCES-V--APPRAYHCHVCNT 177 (340)
Q Consensus 153 ~~~~~C~~C~~-~--kP~Rs~HC~~C~~ 177 (340)
...++|+.|.. . .-....+|..|+.
T Consensus 18 ~~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 18 RKNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred EccCcCcCCCcchheccCCcEECCCcCC
Confidence 34579999976 2 1223456777653
No 47
>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=24.98 E-value=30 Score=26.03 Aligned_cols=14 Identities=7% Similarity=0.183 Sum_probs=9.9
Q ss_pred cceeccccccccch
Q psy7446 182 RDHHCTFSACCIGH 195 (340)
Q Consensus 182 ~DHHC~wi~nCIG~ 195 (340)
+-.||||++.-...
T Consensus 54 Hr~~CPwv~~~~q~ 67 (91)
T PF08600_consen 54 HREYCPWVNPSTQS 67 (91)
T ss_pred ccccCCccCCcccc
Confidence 44689999876543
No 48
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.77 E-value=40 Score=35.00 Aligned_cols=24 Identities=25% Similarity=0.748 Sum_probs=20.6
Q ss_pred cccccccccCCCCCccCccccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNTCI 179 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~CV 179 (340)
..|+.|....|+.++.|..||.=.
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~CG~~l 25 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQKCGTSL 25 (645)
T ss_pred CcCCCCCCcCCCCCccccccCCCC
Confidence 479999999999999999998754
No 49
>COG4640 Predicted membrane protein [Function unknown]
Probab=24.19 E-value=38 Score=32.58 Aligned_cols=25 Identities=24% Similarity=0.595 Sum_probs=21.6
Q ss_pred cccccccccCCCCCccCcccccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNTCIL 180 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~CV~ 180 (340)
++|+.|...+-+.+..|..||.=+-
T Consensus 2 ~fC~kcG~qk~Ed~~qC~qCG~~~t 26 (465)
T COG4640 2 KFCPKCGSQKAEDDVQCTQCGHKFT 26 (465)
T ss_pred CcccccccccccccccccccCCcCC
Confidence 6899999999999999999987544
No 50
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=24.11 E-value=5.7e+02 Score=25.07 Aligned_cols=32 Identities=19% Similarity=0.454 Sum_probs=19.7
Q ss_pred CccccccccccC------CCCCccCcccccccccccee
Q psy7446 154 GWYFCAPCESVA------PPRAYHCHVCNTCILKRDHH 185 (340)
Q Consensus 154 ~~~~C~~C~~~k------P~Rs~HC~~C~~CV~~~DHH 185 (340)
+..-|++|+... |...-+|+.|+.-..+.+++
T Consensus 9 ~~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 46 (419)
T PRK15103 9 KHILCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWDE 46 (419)
T ss_pred CcccCCCCCceeecCCCCCCCeeECCCCCCCCcCCCCC
Confidence 335699998542 22345688887776655543
No 51
>PLN00186 ribosomal protein S26; Provisional
Probab=23.78 E-value=31 Score=26.81 Aligned_cols=19 Identities=21% Similarity=0.579 Sum_probs=13.9
Q ss_pred CCccCccccccccccceec
Q psy7446 168 RAYHCHVCNTCILKRDHHC 186 (340)
Q Consensus 168 Rs~HC~~C~~CV~~~DHHC 186 (340)
+.-||..|++||++=---+
T Consensus 19 ~~V~C~nCgr~vPKDKAIk 37 (109)
T PLN00186 19 KRIRCSNCGKCVPKDKAIK 37 (109)
T ss_pred cceeeCCCcccccccceEE
Confidence 4557999999999744433
No 52
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=23.62 E-value=40 Score=18.56 Aligned_cols=21 Identities=19% Similarity=0.583 Sum_probs=16.4
Q ss_pred ccccccccCCCCCccCccccc
Q psy7446 157 FCAPCESVAPPRAYHCHVCNT 177 (340)
Q Consensus 157 ~C~~C~~~kP~Rs~HC~~C~~ 177 (340)
.|..|.....+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 588888888888888888764
No 53
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=23.38 E-value=48 Score=19.21 Aligned_cols=20 Identities=30% Similarity=0.788 Sum_probs=13.3
Q ss_pred ccccccccCCCC-CccCcccc
Q psy7446 157 FCAPCESVAPPR-AYHCHVCN 176 (340)
Q Consensus 157 ~C~~C~~~kP~R-s~HC~~C~ 176 (340)
.|..|....... ..||+.|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 467776666556 67777665
No 54
>KOG3611|consensus
Probab=22.97 E-value=28 Score=36.61 Aligned_cols=38 Identities=26% Similarity=0.507 Sum_probs=27.2
Q ss_pred CccCc---cccccccccceeccccc---cccc--hhhHHHHHHHHH
Q psy7446 169 AYHCH---VCNTCILKRDHHCTFSA---CCIG--HYNHRYFMLFLF 206 (340)
Q Consensus 169 s~HC~---~C~~CV~~~DHHC~wi~---nCIG--~~N~r~Fi~fl~ 206 (340)
-++|. .|..|++..|-||.|-+ .|+- ..|.|.+..=+-
T Consensus 491 l~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~~Qd~~ 536 (737)
T KOG3611|consen 491 LARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSVIQDVS 536 (737)
T ss_pred hhHhhcccchhhhhhccCCCccccCCCCcceECCCCcccchhhhhc
Confidence 46787 88888888999999976 7883 345555554433
No 55
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=22.75 E-value=33 Score=26.05 Aligned_cols=21 Identities=14% Similarity=0.418 Sum_probs=15.9
Q ss_pred CCccCccccccccccceeccc
Q psy7446 168 RAYHCHVCNTCILKRDHHCTF 188 (340)
Q Consensus 168 Rs~HC~~C~~CV~~~DHHC~w 188 (340)
+.-+|..|++||++----+.+
T Consensus 19 ~~V~C~nCgr~vPKDKAIkrf 39 (95)
T PRK09335 19 GYVQCDNCGRRVPRDKAVCVT 39 (95)
T ss_pred ccEEeCCCCCcCcCCceEEEE
Confidence 455799999999986665544
No 56
>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=22.49 E-value=29 Score=28.96 Aligned_cols=24 Identities=25% Similarity=0.722 Sum_probs=16.8
Q ss_pred cccccccccCCCCCccCcccccccccc
Q psy7446 156 YFCAPCESVAPPRAYHCHVCNTCILKR 182 (340)
Q Consensus 156 ~~C~~C~~~kP~Rs~HC~~C~~CV~~~ 182 (340)
.....|... ..+||..|..|+.|+
T Consensus 141 ~~s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 141 ELTWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred hheeeccCC---CCCCCCCCHHHHHHH
Confidence 445556544 338999999998874
No 57
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=22.48 E-value=30 Score=30.32 Aligned_cols=25 Identities=24% Similarity=0.502 Sum_probs=16.8
Q ss_pred ccccccccCC----------CCCccCccccccccc
Q psy7446 157 FCAPCESVAP----------PRAYHCHVCNTCILK 181 (340)
Q Consensus 157 ~C~~C~~~kP----------~Rs~HC~~C~~CV~~ 181 (340)
.|.+|..+.+ .|--+|+.||+.+++
T Consensus 2 iCIeCg~~v~~Ly~~Ys~~~irLt~C~~C~~vaDk 36 (208)
T PF04161_consen 2 ICIECGHPVKSLYRQYSPGNIRLTKCPNCGKVADK 36 (208)
T ss_pred EeccCCCcchhhhhccCCCcEEEeeccccCCcccc
Confidence 3667765543 455678888887766
No 58
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=22.36 E-value=31 Score=22.09 Aligned_cols=17 Identities=35% Similarity=0.995 Sum_probs=10.7
Q ss_pred ccccccccccceecccc
Q psy7446 173 HVCNTCILKRDHHCTFS 189 (340)
Q Consensus 173 ~~C~~CV~~~DHHC~wi 189 (340)
+.|..|+...|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 45666666666666663
No 59
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=21.54 E-value=35 Score=26.77 Aligned_cols=15 Identities=0% Similarity=0.131 Sum_probs=8.0
Q ss_pred ceeeeeehhhhheee
Q psy7446 83 SFVFLVLIVPLVFWF 97 (340)
Q Consensus 83 ~~~~v~~~~~~~~~~ 97 (340)
+..+++.++..+|..
T Consensus 15 al~lif~g~~vmy~g 29 (114)
T PF11023_consen 15 ALSLIFIGMIVMYIG 29 (114)
T ss_pred HHHHHHHHHHHHhhh
Confidence 334455556666654
No 60
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=20.93 E-value=37 Score=26.38 Aligned_cols=20 Identities=20% Similarity=0.551 Sum_probs=14.3
Q ss_pred CCccCccccccccccceecc
Q psy7446 168 RAYHCHVCNTCILKRDHHCT 187 (340)
Q Consensus 168 Rs~HC~~C~~CV~~~DHHC~ 187 (340)
+.-+|..|++||++=---+.
T Consensus 19 ~~V~C~nCgr~vPKDKAIkr 38 (108)
T PTZ00172 19 KPVRCSNCGRCVPKDKAIKR 38 (108)
T ss_pred ccEEeCCccccccccceEEE
Confidence 44579999999997444443
No 61
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=20.33 E-value=65 Score=17.93 Aligned_cols=19 Identities=32% Similarity=1.001 Sum_probs=10.8
Q ss_pred cccccccCCCCC----ccCcccc
Q psy7446 158 CAPCESVAPPRA----YHCHVCN 176 (340)
Q Consensus 158 C~~C~~~kP~Rs----~HC~~C~ 176 (340)
|.+|+..-.+|- ..|+.||
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcccCceEeCCCCC
Confidence 566665555553 4466665
Done!