Query 023733
Match_columns 278
No_of_seqs 217 out of 1562
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 06:15:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023733.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023733hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1315 Predicted DHHC-type Zn 100.0 9.6E-57 2.1E-61 392.2 12.7 264 2-276 9-281 (307)
2 KOG1314 DHHC-type Zn-finger pr 100.0 3E-51 6.5E-56 352.8 13.3 252 3-276 9-278 (414)
3 KOG1311 DHHC-type Zn-finger pr 100.0 2.8E-45 6.1E-50 326.6 19.6 204 65-276 79-293 (299)
4 KOG1313 DHHC-type Zn-finger pr 100.0 1.3E-41 2.7E-46 284.9 15.7 177 97-275 102-304 (309)
5 COG5273 Uncharacterized protei 100.0 1.4E-40 3E-45 294.7 16.1 229 45-277 59-304 (309)
6 PF01529 zf-DHHC: DHHC palmito 100.0 3.1E-41 6.8E-46 278.0 10.8 163 57-219 2-173 (174)
7 KOG1312 DHHC-type Zn-finger pr 100.0 3.7E-32 8.1E-37 229.1 14.0 173 42-219 98-290 (341)
8 KOG0509 Ankyrin repeat and DHH 100.0 2.7E-31 5.9E-36 245.8 9.7 195 49-251 375-584 (600)
9 COG5273 Uncharacterized protei 95.6 0.17 3.7E-06 45.4 11.0 163 107-276 105-280 (309)
10 PF01529 zf-DHHC: DHHC palmito 94.2 0.54 1.2E-05 38.0 9.7 50 96-156 61-110 (174)
11 PF13240 zinc_ribbon_2: zinc-r 90.6 0.15 3.2E-06 27.1 1.1 21 99-119 1-21 (23)
12 KOG1311 DHHC-type Zn-finger pr 90.4 0.87 1.9E-05 40.6 6.6 52 110-161 112-174 (299)
13 PRK04136 rpl40e 50S ribosomal 88.7 0.24 5.2E-06 31.1 1.2 24 96-119 13-36 (48)
14 KOG1315 Predicted DHHC-type Zn 88.1 1.9 4.1E-05 38.6 7.0 31 96-126 122-152 (307)
15 PF13248 zf-ribbon_3: zinc-rib 86.6 0.4 8.7E-06 26.2 1.2 22 98-119 3-24 (26)
16 PTZ00303 phosphatidylinositol 85.9 0.55 1.2E-05 46.5 2.5 22 98-119 461-489 (1374)
17 KOG0509 Ankyrin repeat and DHH 79.7 1.1 2.4E-05 43.3 1.8 59 96-155 324-382 (600)
18 PF10571 UPF0547: Uncharacteri 79.5 1.1 2.4E-05 24.5 1.1 22 98-119 1-22 (26)
19 COG1552 RPL40A Ribosomal prote 78.0 0.48 1E-05 29.9 -0.7 24 96-119 13-36 (50)
20 PF01020 Ribosomal_L40e: Ribos 71.1 2.7 6E-05 26.9 1.4 26 95-120 15-42 (52)
21 PF01363 FYVE: FYVE zinc finge 67.5 1.9 4.1E-05 29.3 0.2 27 96-122 8-36 (69)
22 PF12773 DZR: Double zinc ribb 67.3 4.5 9.9E-05 25.4 1.9 33 97-129 12-47 (50)
23 PF12773 DZR: Double zinc ribb 64.6 4.7 0.0001 25.4 1.6 23 96-118 28-50 (50)
24 PF06906 DUF1272: Protein of u 62.8 3.4 7.5E-05 26.9 0.7 37 98-137 6-50 (57)
25 smart00064 FYVE Protein presen 62.2 5 0.00011 27.0 1.5 25 97-121 10-36 (68)
26 PF07010 Endomucin: Endomucin; 58.7 27 0.00059 29.7 5.4 30 43-72 195-224 (259)
27 PF00751 DM: DM DNA binding do 55.6 4.7 0.0001 25.4 0.4 23 110-132 1-28 (47)
28 PRK02935 hypothetical protein; 54.1 40 0.00087 25.1 5.0 21 4-24 10-30 (110)
29 PF00641 zf-RanBP: Zn-finger i 53.4 4.3 9.3E-05 22.7 -0.0 22 98-119 5-26 (30)
30 KOG1842 FYVE finger-containing 50.8 3.6 7.9E-05 38.3 -1.0 26 96-121 179-206 (505)
31 KOG3183 Predicted Zn-finger pr 50.5 7 0.00015 33.4 0.8 22 112-133 24-50 (250)
32 cd00065 FYVE FYVE domain; Zinc 48.2 12 0.00027 24.0 1.6 24 98-121 3-28 (57)
33 PF05814 DUF843: Baculovirus p 46.4 1E+02 0.0023 21.8 6.7 24 198-222 37-60 (83)
34 PF07649 C1_3: C1-like domain; 46.4 5.1 0.00011 22.4 -0.5 21 99-119 2-23 (30)
35 PF07282 OrfB_Zn_ribbon: Putat 44.7 5.1 0.00011 27.1 -0.8 25 96-120 27-55 (69)
36 COG2093 DNA-directed RNA polym 44.5 12 0.00027 25.0 1.0 23 97-119 4-26 (64)
37 PF09297 zf-NADH-PPase: NADH p 42.8 8.8 0.00019 21.8 0.1 23 97-119 3-29 (32)
38 PF03107 C1_2: C1 domain; Int 42.2 13 0.00029 20.7 0.9 20 99-118 2-22 (30)
39 PF11023 DUF2614: Protein of u 41.8 58 0.0013 24.6 4.3 20 5-24 10-29 (114)
40 PHA02680 ORF090 IMV phosphoryl 41.5 1.3E+02 0.0028 21.6 6.9 40 177-219 44-83 (91)
41 PRK15103 paraquat-inducible me 39.6 2.3E+02 0.005 26.7 9.1 32 96-127 220-251 (419)
42 PF07754 DUF1610: Domain of un 38.8 19 0.00041 19.3 1.0 19 100-118 1-23 (24)
43 KOG1729 FYVE finger containing 37.9 9.3 0.0002 33.9 -0.4 28 96-123 167-197 (288)
44 KOG1841 Smad anchor for recept 37.1 18 0.00039 37.7 1.4 39 97-147 557-597 (1287)
45 KOG1314 DHHC-type Zn-finger pr 36.7 1.1E+02 0.0024 27.9 6.1 77 56-150 67-147 (414)
46 smart00301 DM Doublesex DNA-bi 36.2 21 0.00045 23.3 1.1 12 121-132 15-28 (54)
47 PRK03681 hypA hydrogenase nick 36.2 17 0.00037 27.5 0.8 24 96-119 69-95 (114)
48 PF09889 DUF2116: Uncharacteri 35.7 45 0.00098 22.1 2.7 22 97-118 3-25 (59)
49 PLN00186 ribosomal protein S26 35.5 14 0.0003 27.6 0.3 20 110-129 19-38 (109)
50 PRK14559 putative protein seri 34.9 22 0.00047 35.4 1.6 36 96-133 14-49 (645)
51 smart00661 RPOL9 RNA polymeras 34.2 18 0.00038 22.8 0.6 7 99-105 2-8 (52)
52 KOG3611 Semaphorins [Signal tr 33.7 17 0.00036 36.7 0.6 39 111-149 491-537 (737)
53 PRK00432 30S ribosomal protein 33.7 21 0.00045 22.8 0.8 24 96-119 19-45 (50)
54 PRK09335 30S ribosomal protein 33.6 15 0.00033 26.7 0.2 21 110-130 19-39 (95)
55 PF02150 RNA_POL_M_15KD: RNA p 32.7 13 0.00027 21.8 -0.3 7 98-104 2-8 (35)
56 PF14015 DUF4231: Protein of u 32.7 2E+02 0.0043 21.0 9.5 21 207-227 78-98 (112)
57 TIGR00540 hemY_coli hemY prote 32.4 89 0.0019 28.9 5.2 47 25-71 27-73 (409)
58 PRK14559 putative protein seri 32.1 25 0.00055 34.9 1.5 27 97-123 27-53 (645)
59 smart00547 ZnF_RBZ Zinc finger 31.9 22 0.00049 18.8 0.7 21 99-119 4-24 (26)
60 PTZ00172 40S ribosomal protein 31.5 17 0.00037 27.1 0.2 20 110-129 19-38 (108)
61 PF14127 DUF4294: Domain of un 31.5 44 0.00096 26.8 2.5 32 208-252 103-134 (157)
62 PRK10747 putative protoheme IX 31.4 1.1E+02 0.0024 28.2 5.6 47 25-71 27-73 (398)
63 PF08600 Rsm1: Rsm1-like; Int 30.9 23 0.00051 25.6 0.8 11 126-136 56-66 (91)
64 PHA02942 putative transposase; 30.7 17 0.00037 33.7 0.1 24 96-119 324-350 (383)
65 PRK13743 conjugal transfer pro 29.3 2.7E+02 0.0059 21.6 7.8 22 139-160 37-58 (141)
66 PF00130 C1_1: Phorbol esters/ 28.5 29 0.00062 21.9 0.8 33 96-128 10-50 (53)
67 COG0603 Predicted PP-loop supe 26.5 24 0.00052 30.1 0.3 20 105-124 186-205 (222)
68 smart00423 PSI domain found in 26.5 31 0.00068 21.1 0.7 15 116-130 6-20 (46)
69 COG4640 Predicted membrane pro 26.1 35 0.00075 31.6 1.2 25 97-121 1-25 (465)
70 KOG1819 FYVE finger-containing 26.1 22 0.00047 33.9 -0.1 22 98-119 902-925 (990)
71 PF01437 PSI: Plexin repeat; 25.7 17 0.00036 23.0 -0.6 17 115-131 6-22 (51)
72 TIGR00155 pqiA_fam integral me 25.4 50 0.0011 30.9 2.2 31 97-127 215-246 (403)
73 PF01283 Ribosomal_S26e: Ribos 25.0 24 0.00052 26.7 -0.0 22 110-131 19-40 (113)
74 KOG1818 Membrane trafficking a 24.8 29 0.00063 34.2 0.5 24 96-119 164-189 (634)
75 KOG1398 Uncharacterized conser 24.2 22 0.00048 32.7 -0.4 26 107-138 10-35 (460)
76 PF14319 Zn_Tnp_IS91: Transpos 23.4 36 0.00077 25.6 0.7 24 96-119 41-68 (111)
77 PRK13130 H/ACA RNA-protein com 23.1 41 0.00089 22.0 0.8 22 96-119 4-25 (56)
78 TIGR02745 ccoG_rdxA_fixG cytoc 23.0 1.3E+02 0.0029 28.4 4.5 10 113-122 256-265 (434)
79 COG1579 Zn-ribbon protein, pos 22.7 79 0.0017 27.3 2.7 27 96-122 196-232 (239)
80 KOG0230 Phosphatidylinositol-4 22.5 42 0.0009 36.4 1.1 23 97-120 5-27 (1598)
81 PRK15033 tricarballylate utili 22.5 3.7E+02 0.0081 25.0 7.2 14 113-130 68-81 (389)
82 PRK12380 hydrogenase nickel in 21.2 45 0.00098 25.1 0.8 24 96-119 69-94 (113)
83 cd01995 ExsB ExsB is a transcr 21.1 32 0.00069 27.4 -0.0 25 97-124 140-164 (169)
84 KOG4399 C2HC-type Zn-finger pr 20.8 35 0.00075 29.7 0.1 13 98-110 262-274 (325)
85 PF03503 Chlam_OMP3: Chlamydia 20.7 68 0.0015 20.2 1.4 22 98-119 24-45 (55)
86 TIGR00100 hypA hydrogenase nic 20.5 48 0.001 25.1 0.8 24 96-119 69-94 (115)
87 CHL00031 psbT photosystem II p 20.3 1.9E+02 0.0042 16.7 3.4 25 48-72 6-31 (33)
88 KOG2927 Membrane component of 20.3 1.4E+02 0.0031 27.3 3.9 15 100-114 266-280 (372)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=9.6e-57 Score=392.24 Aligned_cols=264 Identities=41% Similarity=0.728 Sum_probs=208.2
Q ss_pred CCCCcchhHHHHHHHHHHHHhhheeheeecccchhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccc
Q 023733 2 KCQRFLSVPIIAVFLLLGFVYYITIFIFIKDWAGLQTSAGLLNALIFTLLLCLCVFSFSVAVAADPGHVPSAYVPDVEDD 81 (278)
Q Consensus 2 ~~~~~~~~pv~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~ 81 (278)
.++| ++|++++..++++.||++++.+.-.+.... ....+..++++++.++.+|+|++++++|||.+|..+.++.+++
T Consensus 9 ~~~r--~~~~~~i~~~~~~~yy~~v~~~c~~~i~~~-~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~ 85 (307)
T KOG1315|consen 9 KCLR--WIPVLIILLVIGWTYYVYVAVLCILSISLT-IPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDE 85 (307)
T ss_pred hhhc--chhheeeeeeEEEEEEEeehhhhHHHHhhh-hHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCcc
Confidence 3456 899999999999999999998887766543 5566778899999999999999999999999999988877765
Q ss_pred CCCC-CChH-------HHHhhccccccccccccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHHHHHHHH
Q 023733 82 SGGA-SSDQ-------ELKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLVFYATSG 153 (278)
Q Consensus 82 ~~~~-~~~~-------e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~ 153 (278)
+... .... ....+|..|+|.+|+.+||+||||||.|+|||+||||||||+|||||.+|||+|++|++|+.+.
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~ 165 (307)
T KOG1315|consen 86 DSLENGSDNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLY 165 (307)
T ss_pred ccccccCcccccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHH
Confidence 4211 1111 1234458999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcccccCCCCc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhhHHHHHHHhcCCC
Q 023733 154 SIYSMVMIITSAFHKNWDLDGRVP-LKTFYVFCGTVMLALCLILGTLLGWHIYLIIHNMTTIEYHEGIRAAWLAKKSGLS 232 (278)
Q Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~~~~~~~~~~~~~~ 232 (278)
+++.++.....+...........+ ....++++.++++.+++.+++++++|++||++|+||+|.++.... ..+..
T Consensus 166 ~~~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~-----~~~~~ 240 (307)
T KOG1315|consen 166 SIYVLVTTLIGFTKYFQGGAGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVF-----RSGLH 240 (307)
T ss_pred HHHHHHHHHHHHHHHHhccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccc-----ccccc
Confidence 988887766655442111011112 233444555566777888888999999999999999998876311 22334
Q ss_pred ccCCCChhHHHHHHHhcCCCCccccccccCCCCCCCceeeccCC
Q 023733 233 YRHPFDVGVYKNISLVLGSNMLTWLCPTAISHLKDGTSFPTVRH 276 (278)
Q Consensus 233 ~~~pyd~G~~~N~~~vfG~~~~~W~~P~~~~~~~dG~~~~~~~~ 276 (278)
..+.|++ ..|++++||+++..|++|.. ++.+||.+++...+
T Consensus 241 ~~~~~~~--~~n~~~vfg~~~~~wl~P~~-~s~~~~~~~~~~~~ 281 (307)
T KOG1315|consen 241 NKNGFNL--YVNFREVFGSNLLYWLLPID-SSWGDGVSFPLRGD 281 (307)
T ss_pred ccCCcce--eecHHHHhCCCceEEecccc-CccccCcccccccc
Confidence 4566666 88999999999999999998 77888888777654
No 2
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3e-51 Score=352.84 Aligned_cols=252 Identities=28% Similarity=0.523 Sum_probs=180.3
Q ss_pred CCCcchh-HHHHHHHHHHHHhhheeheeecccchhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccc
Q 023733 3 CQRFLSV-PIIAVFLLLGFVYYITIFIFIKDWAGLQTSAGLLNALIFTLLLCLCVFSFSVAVAADPGHVPSAYVPDVEDD 81 (278)
Q Consensus 3 ~~~~~~~-pv~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~ 81 (278)
.||++-. |+..+-++ ........+.-.-.|....+..++.+.+.|.+...|++++|+.+++++||++|.+|.|+...|
T Consensus 9 ~rr~~hwGpi~alsii-t~i~~~~~~~n~lww~p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D 87 (414)
T KOG1314|consen 9 FRRFLHWGPITALSII-TIITSTTGYMNSLWWFPLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKD 87 (414)
T ss_pred hhheeccccHHHHHHH-HHHHHHHHHhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChh
Confidence 4566655 55443332 222212222222234445566778888899999999999999999999999999999976655
Q ss_pred CCCCCChHHHHhhccccccccccccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 023733 82 SGGASSDQELKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLVFYATSGSIYSMVMI 161 (278)
Q Consensus 82 ~~~~~~~~e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~ 161 (278)
+ . -.++|.+|+.+|+||||||+.|||||.+|||||||+|||||..||.+|+.||++..++|+-+.++.
T Consensus 88 ~--------~----~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~ 155 (414)
T KOG1314|consen 88 E--------M----FLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIIL 155 (414)
T ss_pred H--------H----HHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeee
Confidence 2 1 568999999999999999999999999999999999999999999999999999999877665544
Q ss_pred HHHHhh---ccc-----cc-CCCCch---hHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhh----HHHH
Q 023733 162 ITSAFH---KNW-----DL-DGRVPL---KTFYVFC-GTVMLALCLILGTLLGWHIYLIIHNMTTIEYHEGI----RAAW 224 (278)
Q Consensus 162 ~~~~~~---~~~-----~~-~~~~~~---~~~~~~~-~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~~----~~~~ 224 (278)
+...++ ..| .. ...... .++..++ .-++++..+++++|++.|+..|++|+|.+|.+..+ |..+
T Consensus 156 ~~~~~~~Iy~~W~~~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~ 235 (414)
T KOG1314|consen 156 VCAQYRGIYFRWYIKYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREY 235 (414)
T ss_pred hhHHHHHHHHHHHhhcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHh
Confidence 433322 111 11 011111 1112222 22335567788999999999999999999998733 3333
Q ss_pred HHHhcCCCccCCCChhHHHHHHHhcCCCCccccccccCCCCCCCceeeccCC
Q 023733 225 LAKKSGLSYRHPFDVGVYKNISLVLGSNMLTWLCPTAISHLKDGTSFPTVRH 276 (278)
Q Consensus 225 ~~~~~~~~~~~pyd~G~~~N~~~vfG~~~~~W~~P~~~~~~~dG~~~~~~~~ 276 (278)
...+..++...|||+|++.|+++||-.+. .+.|||++||+.++
T Consensus 236 ~~~d~~~~f~ypydlgWr~n~r~vf~~~~---------~~~gdg~~wPv~~g 278 (414)
T KOG1314|consen 236 YFNDDEGEFTYPYDLGWRINLREVFFQNK---------KEEGDGIEWPVVEG 278 (414)
T ss_pred hccCCCCceeeeccccccccHHHHhhhcc---------ccCCCCccccccCc
Confidence 33333356789999999999999985442 46799999998654
No 3
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2.8e-45 Score=326.58 Aligned_cols=204 Identities=34% Similarity=0.652 Sum_probs=146.1
Q ss_pred cCCCCCCCCCCCCCccc-CCCCCChHH-HHhhccccccccccccCCCCCCCCccccccccCCcccccccccccccccHHH
Q 023733 65 ADPGHVPSAYVPDVEDD-SGGASSDQE-LKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKA 142 (278)
Q Consensus 65 ~dPG~vp~~~~~~~~~~-~~~~~~~~e-~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~ 142 (278)
+|||.+|++..+..+.. +....+..+ .....+.+||.+|+.+||||||||+.||+||+||||||||+|||||++|||+
T Consensus 79 sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~ 158 (299)
T KOG1311|consen 79 SDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRY 158 (299)
T ss_pred CCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHH
Confidence 59999998632222211 000000111 1112278999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccc----ccC--CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhh
Q 023733 143 FFLLVFYATSGSIYSMVMIITSAFHKNW----DLD--GRVPLKTFYVFCGTVMLALCLILGTLLGWHIYLIIHNMTTIEY 216 (278)
Q Consensus 143 Fi~fl~~~~~~~~~~~~~~~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~ 216 (278)
|++|++++++++++..+.....+..... ... .........+++++..+..+..++.|+.+|++++.+|+||+|.
T Consensus 159 F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~ 238 (299)
T KOG1311|consen 159 FVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYES 238 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhh
Confidence 9999999999999988887777654111 110 1111222333444445566677788999999999999999998
Q ss_pred hhhhHHHHHHHhcCCCccCCCChhHHHHHHHhcCCC-CccccccccCC--CCCCCceeeccCC
Q 023733 217 HEGIRAAWLAKKSGLSYRHPFDVGVYKNISLVLGSN-MLTWLCPTAIS--HLKDGTSFPTVRH 276 (278)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~pyd~G~~~N~~~vfG~~-~~~W~~P~~~~--~~~dG~~~~~~~~ 276 (278)
.++. ..+...++||+|.++|++++||.+ ...|+-|.... .+.||..++..+.
T Consensus 239 ~~~~--------~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~ 293 (299)
T KOG1311|consen 239 IKSL--------DFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARSGPLPHDGEGGPPTPH 293 (299)
T ss_pred hhcc--------ccccccCCCchhHHHHHHHHhCCCCCcccccccccCCCCCCCCCCCCcccc
Confidence 7651 111124899999999999999975 57999998753 5667777665443
No 4
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=1.3e-41 Score=284.89 Aligned_cols=177 Identities=33% Similarity=0.555 Sum_probs=133.5
Q ss_pred ccccccccccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----cccc
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLVFYATSGSIYSMVMIITSAFH-----KNWD 171 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~~~~~~~-----~~~~ 171 (278)
..+|.+|+.+||||+||||.||+||++|||||||+|||||..|||||++|++|+++++.|..++..+...+ .+.+
T Consensus 102 ~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~t 181 (309)
T KOG1313|consen 102 DSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEIT 181 (309)
T ss_pred ccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhcc
Confidence 47999999999999999999999999999999999999999999999999999999999988775544433 0000
Q ss_pred -c--C---CCCchh----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhhHHHHHHHhcCCCccC
Q 023733 172 -L--D---GRVPLK----------TFYVFCGTVMLALCLILGTLLGWHIYLIIHNMTTIEYHEGIRAAWLAKKSGLSYRH 235 (278)
Q Consensus 172 -~--~---~~~~~~----------~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~~~~~~~~~~~~~~~~~ 235 (278)
. + ...+.. ...+-+.++...++++++.+..||.++|.+|.|++|++.....++.... +...|
T Consensus 182 ay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a--~~R~~ 259 (309)
T KOG1313|consen 182 AYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLA--HLRSN 259 (309)
T ss_pred cccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHH--hccCC
Confidence 0 0 000111 1112233334556778899999999999999999999765443322211 22379
Q ss_pred CCChhHHHHHHHhcCC--CCccc---cccccCCCCCCCceeeccC
Q 023733 236 PFDVGVYKNISLVLGS--NMLTW---LCPTAISHLKDGTSFPTVR 275 (278)
Q Consensus 236 pyd~G~~~N~~~vfG~--~~~~W---~~P~~~~~~~dG~~~~~~~ 275 (278)
|++.|.++||+.++|- ++-.| ++|....+.+.|..+++++
T Consensus 260 ~~n~g~k~nWr~fLg~~~~r~~wk~v~lPt~~~p~~~~~~~~~~d 304 (309)
T KOG1313|consen 260 PTNFGGKANWRNFLGLFRGRHFWKTVLLPTIRKPVKYGDSKEKSD 304 (309)
T ss_pred CcccchHHHHHHhhccccCCceeEEEeccccccccccCCcccccc
Confidence 9999999999999983 34355 7898778888999998765
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=1.4e-40 Score=294.70 Aligned_cols=229 Identities=30% Similarity=0.544 Sum_probs=162.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcccCCCCCChHHHHhhccccccccccccCCCCCCCCccccccccCC
Q 023733 45 ALIFTLLLCLCVFSFSVAVAADPGHVPSAYVPDVEDDSGGASSDQELKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRM 124 (278)
Q Consensus 45 ~~~~~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~ 124 (278)
.+.+.+...+...+|+..+.+|||..+++.....-++ ...+..+..+.+..++|.+|+.+||+|||||+.||+||+||
T Consensus 59 ~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~ 136 (309)
T COG5273 59 IILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRE--TISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKF 136 (309)
T ss_pred hhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhh--hhhhhhhcCccccceeccccccccCCCCccchhhcchhhcc
Confidence 4455566677889999999999999885322111111 01122223445588999999999999999999999999999
Q ss_pred cccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCchhHHHHHH--HHHHHHHHHHHHHHHHH
Q 023733 125 DHHCLWINNCVGHWNYKAFFLLVFYATSGSIYSMVMIITSAFHKNWDLDGRVPLKTFYVFC--GTVMLALCLILGTLLGW 202 (278)
Q Consensus 125 DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~ 202 (278)
||||||+|||||.+|||+|++|++++...++..+......+....... .........++. ....+.+++.+..++.+
T Consensus 137 DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~ 215 (309)
T COG5273 137 DHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIR-HDTSLAICFLIFGCSLLGVVFFIITTLLLLF 215 (309)
T ss_pred CccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc-CChHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999998877666665554443321111 111111122222 23445556677888899
Q ss_pred HHHHHHhccchhhhhhhhHHHHHHH------hc---------CCCccCCCChhHHHHHHHhcCCCCccccccccCCCCCC
Q 023733 203 HIYLIIHNMTTIEYHEGIRAAWLAK------KS---------GLSYRHPFDVGVYKNISLVLGSNMLTWLCPTAISHLKD 267 (278)
Q Consensus 203 ~~~li~~n~Tt~E~~~~~~~~~~~~------~~---------~~~~~~pyd~G~~~N~~~vfG~~~~~W~~P~~~~~~~d 267 (278)
+.+++..|+|++|..+..+.....+ .+ ..+...|+|.|.-+|+..++|.+...|..|..+.. .+
T Consensus 216 ~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~-~~ 294 (309)
T COG5273 216 LIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNLPFTNIFDSSEGALPLDLGIGQNLSTIKGSNALYWLTPLHTNY-CN 294 (309)
T ss_pred HHHHHHhhHHHHHHHHhccceecccccchhccCCcCceeccCCCccccccccCccccceeecCCCceeeccccccCC-CC
Confidence 9999999999999887644432211 11 12245688999999999999999999999976443 77
Q ss_pred CceeeccCCC
Q 023733 268 GTSFPTVRHT 277 (278)
Q Consensus 268 G~~~~~~~~~ 277 (278)
+..|+.+.++
T Consensus 295 ~~~~~~~~~~ 304 (309)
T COG5273 295 SYDFSLRSDT 304 (309)
T ss_pred ccCcccchhh
Confidence 7777776654
No 6
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=100.00 E-value=3.1e-41 Score=277.97 Aligned_cols=163 Identities=30% Similarity=0.625 Sum_probs=118.7
Q ss_pred HHHHHHhhcCCCCCCCCCCCCC-cccCCC-----CCChHHHHhhccccccccccccCCCCCCCCccccccccCCcccccc
Q 023733 57 FSFSVAVAADPGHVPSAYVPDV-EDDSGG-----ASSDQELKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLW 130 (278)
Q Consensus 57 ~~y~~~~~~dPG~vp~~~~~~~-~~~~~~-----~~~~~e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw 130 (278)
++|++++++|||++|+...++. +.+... .....+....++.++|.+|+..||+|||||+.||+||+++||||||
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w 81 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPW 81 (174)
T ss_pred EEehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchh
Confidence 5789999999999998621111 111100 0111122234489999999999999999999999999999999999
Q ss_pred cccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCch--hHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023733 131 INNCVGHWNYKAFFLLVFYATSGSIYSMVMIITSAFHKNWDLDGRVPL--KTF-YVFCGTVMLALCLILGTLLGWHIYLI 207 (278)
Q Consensus 131 ~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~l~~~~~~li 207 (278)
+|||||++|||+|++|+++..+++++.....+..+............. ... .+++.+..++.+++++.++++|++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i 161 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLI 161 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998888887666665521111111111 111 13333444566777889999999999
Q ss_pred Hhccchhhhhhh
Q 023733 208 IHNMTTIEYHEG 219 (278)
Q Consensus 208 ~~n~Tt~E~~~~ 219 (278)
++|+||+|.+++
T Consensus 162 ~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 162 LRNITTYERIKR 173 (174)
T ss_pred HcCCcHHHHHHc
Confidence 999999999875
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.98 E-value=3.7e-32 Score=229.12 Aligned_cols=173 Identities=28% Similarity=0.525 Sum_probs=113.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcccCCCCCChHHHHhhccccccccccccCCCCCCCCccccccc
Q 023733 42 LLNALIFTLLLCLCVFSFSVAVAADPGHVPSAYVPDVEDDSGGASSDQELKKAAERRQCDKCSAYKPPRAHHCKVCRRCV 121 (278)
Q Consensus 42 ~~~~~~~~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV 121 (278)
..+.+....+.++-.+++..+..+|||.+.++.... .....|.+++-- .....|++|+..||.||+|||.||+||
T Consensus 98 l~~~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~----~~~~ypYDy~if-~k~~kCSTCki~KPARSKHCsiCNrCV 172 (341)
T KOG1312|consen 98 LHYLILPYLLVIVPLIFFTLTCGSNPGIITKANESL----FLHVYPYDYVIF-PKNVKCSTCKIRKPARSKHCSICNRCV 172 (341)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCccchhhhcc----ceeccCccceee-cCCCccccccCCCccccccchHHHHHH
Confidence 444454455566677888899999999987532111 111122222111 034789999999999999999999999
Q ss_pred cCCcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ccc----------ccCCCCchhHHHHHHHHH
Q 023733 122 LRMDHHCLWINNCVGHWNYKAFFLLVFYATSGSIYSMVMIITSAFH---KNW----------DLDGRVPLKTFYVFCGTV 188 (278)
Q Consensus 122 ~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~~~~~~~---~~~----------~~~~~~~~~~~~~~~~~~ 188 (278)
.|+||||.|+|||||++|.|||++|++....++.|+.+-....... +.. ....+.-.....++.++.
T Consensus 173 ~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ilt~~~g~~ks~~~L~~yl~la~~ 252 (341)
T KOG1312|consen 173 HRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVYILTLGHGHVKSTVFLIQYLFLAFP 252 (341)
T ss_pred HHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchheeeeeeeecchhhHHHHHHHHHHHhc
Confidence 9999999999999999999999999999988888777665544221 100 000000011111111111
Q ss_pred H-------HHHHHHHHHHHHHHHHHHHhccchhhhhhh
Q 023733 189 M-------LALCLILGTLLGWHIYLIIHNMTTIEYHEG 219 (278)
Q Consensus 189 ~-------~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~ 219 (278)
- ....-+++.-..+-.++..+|+||.|+.++
T Consensus 253 ~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~ 290 (341)
T KOG1312|consen 253 RIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRG 290 (341)
T ss_pred cceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhcc
Confidence 0 112233566677788999999999998776
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.97 E-value=2.7e-31 Score=245.81 Aligned_cols=195 Identities=24% Similarity=0.382 Sum_probs=127.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcccCCCCCChHHHHhhccc-cccccccccCCCCCCCCccccccccCCccc
Q 023733 49 TLLLCLCVFSFSVAVAADPGHVPSAYVPDVEDDSGGASSDQELKKAAER-RQCDKCSAYKPPRAHHCKVCRRCVLRMDHH 127 (278)
Q Consensus 49 ~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~e~~~~~~~-~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHH 127 (278)
.+..+.+++++.+...+|||++|...... +....+..|..+.+.. ++|.+|.+.||.|||||+.|||||.|||||
T Consensus 375 i~~~l~~~~~f~~~~rsDPg~i~~~~~~~----~~tIs~l~d~gkf~~en~FC~~clirKp~rSkhc~vcnrcVarfDHh 450 (600)
T KOG0509|consen 375 IISVLAYFITFGLFLRSDPGFIPTSTEVG----RETISQLIDFGKFDLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHH 450 (600)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCCchhhH----HHHHHHhhccccccccccceeeeeeecCCccchhhhhHHHHhccccC
Confidence 33344456666677779999998632111 1001112222222244 699999999999999999999999999999
Q ss_pred ccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCchhHHHHHHHHHHHH--HH------------
Q 023733 128 CLWINNCVGHWNYKAFFLLVFYATSGSIYSMVMIITSAFHKNWDLDGRVPLKTFYVFCGTVMLA--LC------------ 193 (278)
Q Consensus 128 Cpw~~nCIG~~N~k~Fi~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~------------ 193 (278)
|||++||||.+|||+|+.|++.+...+.+.+.....++....... ......+......... +.
T Consensus 451 CPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~---~~~~~~l~~~~~~~~~~~~~~~~~~n~~~~~t 527 (600)
T KOG0509|consen 451 CPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS---TIYVGFLIAVQAFRIPKPVTGNLLGNEDLNPT 527 (600)
T ss_pred CCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH---HHHHHHHHHHHHHhCCccceeeeeeccccccc
Confidence 999999999999999999999988777666665554443321110 0011011100000000 00
Q ss_pred HHHHHHHHHHHHHHHhccchhhhhhhhHHHHHHHhcCCCccCCCChhHHHHHHHhcCC
Q 023733 194 LILGTLLGWHIYLIIHNMTTIEYHEGIRAAWLAKKSGLSYRHPFDVGVYKNISLVLGS 251 (278)
Q Consensus 194 ~~~~~l~~~~~~li~~n~Tt~E~~~~~~~~~~~~~~~~~~~~pyd~G~~~N~~~vfG~ 251 (278)
-..+..-..|...++.+.||+|+++..|++....+.+. .++|++.|+++|+.+++=.
T Consensus 528 ~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~-~~~~~s~g~~~Nl~df~~~ 584 (600)
T KOG0509|consen 528 WGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGP-TRSPFSPGPIRNLVDFFLC 584 (600)
T ss_pred cccccccccccceeeecccHHHHHHHHHhhccccccCc-CCCCCCchhhhcchheeec
Confidence 00111222344568999999999999888776655553 6899999999999998843
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=95.59 E-value=0.17 Score=45.37 Aligned_cols=163 Identities=13% Similarity=0.136 Sum_probs=84.7
Q ss_pred CCCCCCCCccccccccCCcccccccccccccccHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCC
Q 023733 107 KPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYK-----------AFFLLVFYATSGSIYSMVMIITSAFHKNWDLDGR 175 (278)
Q Consensus 107 kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k-----------~Fi~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 (278)
+-.+.+.|++|+.-...+-|||.-=|.||-..-|. -.=.|..++......+.++.......... . ..
T Consensus 105 ~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~-~-~~ 182 (309)
T COG5273 105 KFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAG-I-FS 182 (309)
T ss_pred ccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHh-h-cc
Confidence 44577889999999999999999999999877764 44456666655555555555544443321 1 11
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhhHHHHHHHhcCCCccCCCChhHHHH--HHHhcCCCC
Q 023733 176 VPLKTFYVFCGTVMLALCLILGTLLGWHIYLIIHNMTTIEYHEGIRAAWLAKKSGLSYRHPFDVGVYKN--ISLVLGSNM 253 (278)
Q Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~~~~~~~~~~~~~~~~~pyd~G~~~N--~~~vfG~~~ 253 (278)
........+..++.......+..+......++..+....+.....+.....+........++.++. | +...+...+
T Consensus 183 ~~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~--~~~~~~~~d~~~ 260 (309)
T COG5273 183 IRHDTSLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRES--NLPFTNIFDSSE 260 (309)
T ss_pred ccCChHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccC--CcCceeccCCCc
Confidence 222222233333332223334445555555666666666655443332222211111223333332 2 122333333
Q ss_pred ccccccccCCCCCCCceeeccCC
Q 023733 254 LTWLCPTAISHLKDGTSFPTVRH 276 (278)
Q Consensus 254 ~~W~~P~~~~~~~dG~~~~~~~~ 276 (278)
|.+|.. .+.++|+++.+.++
T Consensus 261 --~~~~~~-~~~~~~~~~i~~~~ 280 (309)
T COG5273 261 --GALPLD-LGIGQNLSTIKGSN 280 (309)
T ss_pred --cccccc-cCccccceeecCCC
Confidence 666654 55567777666544
No 10
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=94.21 E-value=0.54 Score=38.03 Aligned_cols=50 Identities=20% Similarity=0.385 Sum_probs=35.2
Q ss_pred cccccccccccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHHHHHHHHHHH
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLVFYATSGSIY 156 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~~ 156 (278)
+.+.|..|+.-...+-|||..-|+||.+.-|. ..-.|+++..-..+..++
T Consensus 61 Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~-----------~F~~fl~~~~~~~~~~~~ 110 (174)
T PF01529_consen 61 RSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHR-----------YFLLFLLYLCLYCLYFFI 110 (174)
T ss_pred cceeccccccccccccccchhhccccccccHH-----------HHHHHHHHHHHHHHHHHH
Confidence 67888888888888888888888888887662 344566655544444433
No 11
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=90.60 E-value=0.15 Score=27.11 Aligned_cols=21 Identities=29% Similarity=0.632 Sum_probs=18.7
Q ss_pred ccccccccCCCCCCCCccccc
Q 023733 99 QCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 99 ~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
+|+.|...-++.+..|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 689999999999999999985
No 12
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=90.37 E-value=0.87 Score=40.57 Aligned_cols=52 Identities=17% Similarity=0.370 Sum_probs=39.5
Q ss_pred CCCCCccccccccCCcccccccccccccccH-----------HHHHHHHHHHHHHHHHHHHHH
Q 023733 110 RAHHCKVCRRCVLRMDHHCLWINNCVGHWNY-----------KAFFLLVFYATSGSIYSMVMI 161 (278)
Q Consensus 110 Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~-----------k~Fi~fl~~~~~~~~~~~~~~ 161 (278)
+.++|..|+..+..+-|||+.=|+||-..-| |-+-.|+.++..+.+..+...
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~ 174 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLAL 174 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999999988765 567778866653333333333
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=88.69 E-value=0.24 Score=31.13 Aligned_cols=24 Identities=33% Similarity=0.841 Sum_probs=22.4
Q ss_pred cccccccccccCCCCCCCCccccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
....|.+|...-|+||..|+.||.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 678999999999999999999986
No 14
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=88.14 E-value=1.9 Score=38.55 Aligned_cols=31 Identities=23% Similarity=0.453 Sum_probs=26.2
Q ss_pred cccccccccccCCCCCCCCccccccccCCcc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRRCVLRMDH 126 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DH 126 (278)
+...|+.|+.=--..=|||..-|+||.-.++
T Consensus 122 RaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny 152 (307)
T KOG1315|consen 122 RAHHCSVCNRCVLKMDHHCPWINNCVGFRNY 152 (307)
T ss_pred ccccchhhhhhhhccccCCcceeceecccch
Confidence 6678888887777888999999999987665
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=86.57 E-value=0.4 Score=26.15 Aligned_cols=22 Identities=32% Similarity=0.680 Sum_probs=19.0
Q ss_pred cccccccccCCCCCCCCccccc
Q 023733 98 RQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
++|+.|...-++-++.|+.||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 6799999888889999999885
No 16
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=85.90 E-value=0.55 Score=46.48 Aligned_cols=22 Identities=36% Similarity=0.825 Sum_probs=18.0
Q ss_pred cccccccccCC-------CCCCCCccccc
Q 023733 98 RQCDKCSAYKP-------PRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~kP-------~Rs~HC~~C~~ 119 (278)
..|..|+..-. -|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 67999986654 39999999986
No 17
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=79.73 E-value=1.1 Score=43.30 Aligned_cols=59 Identities=5% Similarity=-0.085 Sum_probs=49.0
Q ss_pred cccccccccccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHHHHHHHHHH
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLVFYATSGSI 155 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl~~~~~~~~ 155 (278)
....|.+|....+.+..++..+-.++..+++||+|+. +|+.+|...+-...+...+...
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~~~l~~~ 382 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFIISVLAYF 382 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHHHHHHHH
Confidence 5678899999999999999999999999999999999 9999998866554444333333
No 18
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=79.52 E-value=1.1 Score=24.49 Aligned_cols=22 Identities=32% Similarity=0.788 Sum_probs=18.8
Q ss_pred cccccccccCCCCCCCCccccc
Q 023733 98 RQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
+.|+.|...-|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4689999999999999998874
No 19
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=78.04 E-value=0.48 Score=29.86 Aligned_cols=24 Identities=38% Similarity=1.014 Sum_probs=21.8
Q ss_pred cccccccccccCCCCCCCCccccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
.-+.|-.|...-|+|+-.|+.|+.
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 568999999999999999998875
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=71.06 E-value=2.7 Score=26.90 Aligned_cols=26 Identities=38% Similarity=0.919 Sum_probs=17.8
Q ss_pred ccccccccccccCCCCCCCCcc--cccc
Q 023733 95 AERRQCDKCSAYKPPRAHHCKV--CRRC 120 (278)
Q Consensus 95 ~~~~~C~~C~~~kP~Rs~HC~~--C~~C 120 (278)
-....|.+|...-|+||-.|+. ||.+
T Consensus 15 ~~k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 15 CDKMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp TS-EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ccceecccccCcCCCCccceecccCCCC
Confidence 3678999999999999999998 8865
No 21
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=67.53 E-value=1.9 Score=29.26 Aligned_cols=27 Identities=37% Similarity=0.715 Sum_probs=13.4
Q ss_pred cccccccccc--cCCCCCCCCcccccccc
Q 023733 96 ERRQCDKCSA--YKPPRAHHCKVCRRCVL 122 (278)
Q Consensus 96 ~~~~C~~C~~--~kP~Rs~HC~~C~~CV~ 122 (278)
+...|..|+. ---.|-|||+.||+.|=
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 4577888873 22479999999998543
No 22
>PF12773 DZR: Double zinc ribbon
Probab=67.27 E-value=4.5 Score=25.43 Aligned_cols=33 Identities=18% Similarity=0.413 Sum_probs=19.5
Q ss_pred ccccccccccCC---CCCCCCccccccccCCccccc
Q 023733 97 RRQCDKCSAYKP---PRAHHCKVCRRCVLRMDHHCL 129 (278)
Q Consensus 97 ~~~C~~C~~~kP---~Rs~HC~~C~~CV~~~DHHCp 129 (278)
.++|..|...-+ .....|..|+.=+...+.+|+
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~ 47 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCP 47 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccC
Confidence 466666665444 335566666666666666555
No 23
>PF12773 DZR: Double zinc ribbon
Probab=64.64 E-value=4.7 Score=25.36 Aligned_cols=23 Identities=35% Similarity=0.946 Sum_probs=21.1
Q ss_pred cccccccccccCCCCCCCCcccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCR 118 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~ 118 (278)
...+|..|....++.+..|..||
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 56899999999999999999987
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=62.80 E-value=3.4 Score=26.92 Aligned_cols=37 Identities=32% Similarity=0.868 Sum_probs=27.3
Q ss_pred cccccccccCCCCC-------CCCccccccccCC-ccccccccccccc
Q 023733 98 RQCDKCSAYKPPRA-------HHCKVCRRCVLRM-DHHCLWINNCVGH 137 (278)
Q Consensus 98 ~~C~~C~~~kP~Rs-------~HC~~C~~CV~~~-DHHCpw~~nCIG~ 137 (278)
.-|..|+.--|+-| +-|..|..|+..+ +++|| ||=|.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 34666666555544 6788999999998 99999 66554
No 25
>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 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=58.66 E-value=27 Score=29.68 Aligned_cols=30 Identities=20% Similarity=0.320 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCCCC
Q 023733 43 LNALIFTLLLCLCVFSFSVAVAADPGHVPS 72 (278)
Q Consensus 43 ~~~~~~~~l~~l~~~~y~~~~~~dPG~vp~ 72 (278)
+-+++..++.++.+..|.+|.-+|||..-.
T Consensus 195 IaliVitl~vf~LvgLyr~C~k~dPg~p~~ 224 (259)
T PF07010_consen 195 IALIVITLSVFTLVGLYRMCWKTDPGTPEN 224 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCccc
Confidence 344555666677788899999999997543
No 27
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=55.56 E-value=4.7 Score=25.43 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=9.7
Q ss_pred CCCCCccc---cccccCCcc--cccccc
Q 023733 110 RAHHCKVC---RRCVLRMDH--HCLWIN 132 (278)
Q Consensus 110 Rs~HC~~C---~~CV~~~DH--HCpw~~ 132 (278)
|+.+|..| |.-+...+| .|||-+
T Consensus 1 R~p~C~RCrnHG~~~~lKgHk~~C~~~~ 28 (47)
T PF00751_consen 1 RSPTCARCRNHGVIVPLKGHKRYCPFRD 28 (47)
T ss_dssp --SS-HHHHTTT---TTTT-GGG-TTTT
T ss_pred CCCcCcchhcCCcccchhhhccccCcCC
Confidence 34455555 556677777 688864
No 28
>PRK02935 hypothetical protein; Provisional
Probab=54.12 E-value=40 Score=25.08 Aligned_cols=21 Identities=14% Similarity=0.243 Sum_probs=10.4
Q ss_pred CCcchhHHHHHHHHHHHHhhh
Q 023733 4 QRFLSVPIIAVFLLLGFVYYI 24 (278)
Q Consensus 4 ~~~~~~pv~~v~~~i~~~~~~ 24 (278)
+|.-..++..+++-++..|..
T Consensus 10 NkiRt~aL~lvfiG~~vMy~G 30 (110)
T PRK02935 10 NKIRTFALSLVFIGFIVMYLG 30 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555545555555
No 29
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=53.40 E-value=4.3 Score=22.69 Aligned_cols=22 Identities=23% Similarity=0.748 Sum_probs=14.7
Q ss_pred cccccccccCCCCCCCCccccc
Q 023733 98 RQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
=.|..|...-++++.+|..|+.
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 3578888888888888888763
No 30
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=50.79 E-value=3.6 Score=38.26 Aligned_cols=26 Identities=31% Similarity=0.813 Sum_probs=20.2
Q ss_pred cccccccccc--cCCCCCCCCccccccc
Q 023733 96 ERRQCDKCSA--YKPPRAHHCKVCRRCV 121 (278)
Q Consensus 96 ~~~~C~~C~~--~kP~Rs~HC~~C~~CV 121 (278)
...+|+.|.. ----|-|||+.||+-+
T Consensus 179 ~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 179 SVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred cccccccccchhhhHHHhhhhhhcchHH
Confidence 6689999974 2345899999999743
No 31
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=50.52 E-value=7 Score=33.39 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=14.7
Q ss_pred CCCccccc--c---ccCCccccccccc
Q 023733 112 HHCKVCRR--C---VLRMDHHCLWINN 133 (278)
Q Consensus 112 ~HC~~C~~--C---V~~~DHHCpw~~n 133 (278)
.||+.|+. | ..+.+|||||...
T Consensus 24 f~Cd~C~~~FC~eHrsye~H~Cp~~~~ 50 (250)
T KOG3183|consen 24 FKCDGCSGIFCLEHRSYESHHCPKGLR 50 (250)
T ss_pred eeeCCccchhhhccchHhhcCCCcccc
Confidence 45666642 3 4678999999854
No 32
>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=48.17 E-value=12 Score=23.95 Aligned_cols=24 Identities=33% Similarity=0.783 Sum_probs=15.6
Q ss_pred cccccccc--cCCCCCCCCccccccc
Q 023733 98 RQCDKCSA--YKPPRAHHCKVCRRCV 121 (278)
Q Consensus 98 ~~C~~C~~--~kP~Rs~HC~~C~~CV 121 (278)
+-|..|+. -.-.|.|||+.||+-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 34666652 2356889999998743
No 33
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=46.39 E-value=1e+02 Score=21.83 Aligned_cols=24 Identities=17% Similarity=0.153 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHhccchhhhhhhhHH
Q 023733 198 TLLGWHIYLIIHNMTTIEYHEGIRA 222 (278)
Q Consensus 198 ~l~~~~~~li~~n~Tt~E~~~~~~~ 222 (278)
.++..|+|.+ +.+++.+.+..+..
T Consensus 37 F~~~L~~yy~-kteS~~~dL~t~k~ 60 (83)
T PF05814_consen 37 FFCVLQVYYI-KTESTPQDLQTEKA 60 (83)
T ss_pred HHHHHHHHHc-CCCCcHHHHhhhhh
Confidence 3445677766 66666665544333
No 34
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=46.35 E-value=5.1 Score=22.39 Aligned_cols=21 Identities=24% Similarity=0.532 Sum_probs=8.8
Q ss_pred ccccccccCCC-CCCCCccccc
Q 023733 99 QCDKCSAYKPP-RAHHCKVCRR 119 (278)
Q Consensus 99 ~C~~C~~~kP~-Rs~HC~~C~~ 119 (278)
.|..|+..... ..++|+.|+-
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 57778766665 7888888864
No 35
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=44.74 E-value=5.1 Score=27.09 Aligned_cols=25 Identities=20% Similarity=0.547 Sum_probs=18.9
Q ss_pred cccccccccccC----CCCCCCCcccccc
Q 023733 96 ERRQCDKCSAYK----PPRAHHCKVCRRC 120 (278)
Q Consensus 96 ~~~~C~~C~~~k----P~Rs~HC~~C~~C 120 (278)
..+.|+.|.... ..|.++|..||.-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCE
Confidence 568899997543 4588889988875
No 36
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=44.49 E-value=12 Score=24.95 Aligned_cols=23 Identities=26% Similarity=0.826 Sum_probs=20.4
Q ss_pred ccccccccccCCCCCCCCccccc
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
.+-|..|+..-|+-+.-|..||.
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 37
>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=42.83 E-value=8.8 Score=21.80 Aligned_cols=23 Identities=30% Similarity=0.700 Sum_probs=11.1
Q ss_pred ccccccccc----cCCCCCCCCccccc
Q 023733 97 RRQCDKCSA----YKPPRAHHCKVCRR 119 (278)
Q Consensus 97 ~~~C~~C~~----~kP~Rs~HC~~C~~ 119 (278)
.+||..|.. ..-.++..|..|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 478888863 23346666666653
No 38
>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=42.20 E-value=13 Score=20.73 Aligned_cols=20 Identities=30% Similarity=0.555 Sum_probs=14.2
Q ss_pred ccccccccCCCC-CCCCcccc
Q 023733 99 QCDKCSAYKPPR-AHHCKVCR 118 (278)
Q Consensus 99 ~C~~C~~~kP~R-s~HC~~C~ 118 (278)
.|..|+..-... .+||+.|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 477777666566 78887777
No 39
>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=41.75 E-value=58 Score=24.56 Aligned_cols=20 Identities=10% Similarity=0.240 Sum_probs=10.0
Q ss_pred CcchhHHHHHHHHHHHHhhh
Q 023733 5 RFLSVPIIAVFLLLGFVYYI 24 (278)
Q Consensus 5 ~~~~~pv~~v~~~i~~~~~~ 24 (278)
|+-..++..+++-++..|..
T Consensus 10 ~~R~~al~lif~g~~vmy~g 29 (114)
T PF11023_consen 10 KIRTFALSLIFIGMIVMYIG 29 (114)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 44445555555545554544
No 40
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=41.50 E-value=1.3e+02 Score=21.56 Aligned_cols=40 Identities=18% Similarity=0.164 Sum_probs=23.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhh
Q 023733 177 PLKTFYVFCGTVMLALCLILGTLLGWHIYLIIHNMTTIEYHEG 219 (278)
Q Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~Tt~E~~~~ 219 (278)
..+.+-++++++.. +.+.+++++..|--+++.++.|+++.
T Consensus 44 ~wRalSii~FIlG~---vl~lGilifs~y~~C~~~~~~~r~n~ 83 (91)
T PHA02680 44 VWRALSVTCFIVGA---VLLLGLFVFSMYRKCSGSMPYERLNN 83 (91)
T ss_pred hHHHHHHHHHHHHH---HHHHHHHHHHHhcccCCCceeecccC
Confidence 34444444444332 33344667777777888888887754
No 41
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=39.60 E-value=2.3e+02 Score=26.65 Aligned_cols=32 Identities=22% Similarity=0.423 Sum_probs=24.2
Q ss_pred cccccccccccCCCCCCCCccccccccCCccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHH 127 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHH 127 (278)
...-|+.|+..-|....||..||.-..+..++
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 34569999987777777899998877665554
No 42
>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=38.79 E-value=19 Score=19.28 Aligned_cols=19 Identities=32% Similarity=0.847 Sum_probs=10.8
Q ss_pred cccccccCCCCC----CCCcccc
Q 023733 100 CDKCSAYKPPRA----HHCKVCR 118 (278)
Q Consensus 100 C~~C~~~kP~Rs----~HC~~C~ 118 (278)
|.+|+..-.+|- +.|..||
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcccCceEeCCCCC
Confidence 556655555553 5666665
No 43
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=37.94 E-value=9.3 Score=33.93 Aligned_cols=28 Identities=32% Similarity=0.682 Sum_probs=18.4
Q ss_pred cccccccccc-c--CCCCCCCCccccccccC
Q 023733 96 ERRQCDKCSA-Y--KPPRAHHCKVCRRCVLR 123 (278)
Q Consensus 96 ~~~~C~~C~~-~--kP~Rs~HC~~C~~CV~~ 123 (278)
+...|..|.. . --.|=|||+.||.-|-.
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 3456777765 2 23588889888886554
No 44
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=37.12 E-value=18 Score=37.74 Aligned_cols=39 Identities=26% Similarity=0.528 Sum_probs=25.1
Q ss_pred cccccccc--ccCCCCCCCCccccccccCCcccccccccccccccHHHHHHHH
Q 023733 97 RRQCDKCS--AYKPPRAHHCKVCRRCVLRMDHHCLWINNCVGHWNYKAFFLLV 147 (278)
Q Consensus 97 ~~~C~~C~--~~kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~N~k~Fi~fl 147 (278)
..-|-.|+ ..--.|-|||+.||+-- |=..=|.|.++.|+
T Consensus 557 ~pncm~clqkft~ikrrhhcRacgkVl------------cgvccnek~~leyl 597 (1287)
T KOG1841|consen 557 APNCMDCLQKFTPIKRRHHCRACGKVL------------CGVCCNEKSALEYL 597 (1287)
T ss_pred CchHHHHHhhcccccccccchhcccee------------ehhhcchhhhhhhc
Confidence 34455554 45567999999999832 22334667777766
No 45
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=36.66 E-value=1.1e+02 Score=27.94 Aligned_cols=77 Identities=22% Similarity=0.314 Sum_probs=49.1
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCCcc----cCCCCCChHHHHhhccccccccccccCCCCCCCCccccccccCCccccccc
Q 023733 56 VFSFSVAVAADPGHVPSAYVPDVED----DSGGASSDQELKKAAERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWI 131 (278)
Q Consensus 56 ~~~y~~~~~~dPG~vp~~~~~~~~~----~~~~~~~~~e~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~ 131 (278)
...+.---+..||.-|.+...+.-- .-++- +..+..-|.+|+.-.-.=-|||..-+.||--..|
T Consensus 67 ~A~~~gPG~vp~~wkPe~~~D~~~lqfCk~CqgY-------KapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh----- 134 (414)
T KOG1314|consen 67 NAIFTGPGFVPLGWKPENPKDEMFLQFCKKCQGY-------KAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANH----- 134 (414)
T ss_pred HHHhcCCCCCCCCCCCCCChhHHHHHHHhhccCc-------CCCccccchHHHHHHHhhccCCcchhhccccccc-----
Confidence 3445555688999988653332110 00000 0005678999986666667999999999987666
Q ss_pred ccccccccHHHHHHHHHHH
Q 023733 132 NNCVGHWNYKAFFLLVFYA 150 (278)
Q Consensus 132 ~nCIG~~N~k~Fi~fl~~~ 150 (278)
.-.-+|++|....
T Consensus 135 ------~~F~~FLlf~ivG 147 (414)
T KOG1314|consen 135 ------AYFLRFLLFSIVG 147 (414)
T ss_pred ------HHHHHHHHHHHHh
Confidence 3467888887773
No 46
>smart00301 DM Doublesex DNA-binding motif.
Probab=36.22 E-value=21 Score=23.25 Aligned_cols=12 Identities=25% Similarity=0.462 Sum_probs=6.3
Q ss_pred ccCCcc--cccccc
Q 023733 121 VLRMDH--HCLWIN 132 (278)
Q Consensus 121 V~~~DH--HCpw~~ 132 (278)
+..-.| +|||-+
T Consensus 15 ~~lKGHKr~C~~r~ 28 (54)
T smart00301 15 VPLKGHKPECPFRD 28 (54)
T ss_pred eccCCcCCCCCCCC
Confidence 344444 677654
No 47
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=36.17 E-value=17 Score=27.50 Aligned_cols=24 Identities=21% Similarity=0.638 Sum_probs=17.9
Q ss_pred cccccccccccCCCCCCC---Cccccc
Q 023733 96 ERRQCDKCSAYKPPRAHH---CKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~H---C~~C~~ 119 (278)
..-+|..|+..-|...++ |+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 69 AECWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred cEEEcccCCCeeecCCccCCcCcCcCC
Confidence 567899999877765444 888874
No 48
>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=35.65 E-value=45 Score=22.10 Aligned_cols=22 Identities=32% Similarity=0.917 Sum_probs=11.9
Q ss_pred ccccccccccCCCCCCCCc-ccc
Q 023733 97 RRQCDKCSAYKPPRAHHCK-VCR 118 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~-~C~ 118 (278)
.+-|..|+..-|+--..|| .|+
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~ 25 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCR 25 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHH
Confidence 3556666655555555553 443
No 49
>PLN00186 ribosomal protein S26; Provisional
Probab=35.55 E-value=14 Score=27.56 Aligned_cols=20 Identities=20% Similarity=0.466 Sum_probs=14.7
Q ss_pred CCCCCccccccccCCccccc
Q 023733 110 RAHHCKVCRRCVLRMDHHCL 129 (278)
Q Consensus 110 Rs~HC~~C~~CV~~~DHHCp 129 (278)
+.-||..||+||.+----+.
T Consensus 19 ~~V~C~nCgr~vPKDKAIkr 38 (109)
T PLN00186 19 KRIRCSNCGKCVPKDKAIKR 38 (109)
T ss_pred cceeeCCCcccccccceEEE
Confidence 34589999999998554443
No 50
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=34.91 E-value=22 Score=35.37 Aligned_cols=36 Identities=25% Similarity=0.478 Sum_probs=21.1
Q ss_pred cccccccccccCCCCCCCCccccccccCCccccccccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRRCVLRMDHHCLWINN 133 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~~DHHCpw~~n 133 (278)
..++|..|...-+ .+.|..||.=+..-..+||==|.
T Consensus 14 ~akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~ 49 (645)
T PRK14559 14 NNRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGA 49 (645)
T ss_pred CCccccccCCCCC--CCcCCCCCCCCCcccccccccCC
Confidence 4567777764332 24577676666666666664443
No 51
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=34.24 E-value=18 Score=22.76 Aligned_cols=7 Identities=43% Similarity=1.094 Sum_probs=4.2
Q ss_pred ccccccc
Q 023733 99 QCDKCSA 105 (278)
Q Consensus 99 ~C~~C~~ 105 (278)
+|+.|+.
T Consensus 2 FCp~Cg~ 8 (52)
T smart00661 2 FCPKCGN 8 (52)
T ss_pred CCCCCCC
Confidence 5666654
No 52
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=33.69 E-value=17 Score=36.71 Aligned_cols=39 Identities=26% Similarity=0.536 Sum_probs=30.2
Q ss_pred CCCCc---cccccccCCcccccccc---ccc--ccccHHHHHHHHHH
Q 023733 111 AHHCK---VCRRCVLRMDHHCLWIN---NCV--GHWNYKAFFLLVFY 149 (278)
Q Consensus 111 s~HC~---~C~~CV~~~DHHCpw~~---nCI--G~~N~k~Fi~fl~~ 149 (278)
-|+|+ .|..|++..|-||-|-+ .|+ +..|.|.+.+=+-.
T Consensus 491 l~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~~Qd~~~ 537 (737)
T KOG3611|consen 491 LARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSVIQDVSS 537 (737)
T ss_pred hhHhhcccchhhhhhccCCCccccCCCCcceECCCCcccchhhhhcc
Confidence 46787 78888888999999998 788 55577777775443
No 53
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=33.68 E-value=21 Score=22.77 Aligned_cols=24 Identities=21% Similarity=0.696 Sum_probs=14.6
Q ss_pred cccccccccc-cC--CCCCCCCccccc
Q 023733 96 ERRQCDKCSA-YK--PPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~-~k--P~Rs~HC~~C~~ 119 (278)
..++|+.|.. .. -....+|..||.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 3579999976 22 223557777763
No 54
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=33.56 E-value=15 Score=26.72 Aligned_cols=21 Identities=29% Similarity=0.463 Sum_probs=16.0
Q ss_pred CCCCCccccccccCCcccccc
Q 023733 110 RAHHCKVCRRCVLRMDHHCLW 130 (278)
Q Consensus 110 Rs~HC~~C~~CV~~~DHHCpw 130 (278)
+.-+|..||+||.+.---+.+
T Consensus 19 ~~V~C~nCgr~vPKDKAIkrf 39 (95)
T PRK09335 19 GYVQCDNCGRRVPRDKAVCVT 39 (95)
T ss_pred ccEEeCCCCCcCcCCceEEEE
Confidence 345899999999986665554
No 55
>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=32.68 E-value=13 Score=21.81 Aligned_cols=7 Identities=43% Similarity=1.237 Sum_probs=4.4
Q ss_pred ccccccc
Q 023733 98 RQCDKCS 104 (278)
Q Consensus 98 ~~C~~C~ 104 (278)
++|++|+
T Consensus 2 ~FCp~C~ 8 (35)
T PF02150_consen 2 RFCPECG 8 (35)
T ss_dssp -BETTTT
T ss_pred eeCCCCC
Confidence 5777776
No 56
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=32.67 E-value=2e+02 Score=20.98 Aligned_cols=21 Identities=24% Similarity=0.107 Sum_probs=15.9
Q ss_pred HHhccchhhhhhhhHHHHHHH
Q 023733 207 IIHNMTTIEYHEGIRAAWLAK 227 (278)
Q Consensus 207 i~~n~Tt~E~~~~~~~~~~~~ 227 (278)
=.++++|-|.++..+..+..+
T Consensus 78 W~~~r~tae~lk~e~~~~~~~ 98 (112)
T PF14015_consen 78 WIRYRATAESLKREKWLYLAG 98 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 457899999998877766543
No 57
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=32.44 E-value=89 Score=28.93 Aligned_cols=47 Identities=13% Similarity=-0.053 Sum_probs=22.6
Q ss_pred eeheeecccchhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 023733 25 TIFIFIKDWAGLQTSAGLLNALIFTLLLCLCVFSFSVAVAADPGHVP 71 (278)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~y~~~~~~dPG~vp 71 (278)
++.+.+++|....+....+..++..+..+..++..+..++.-|+.+.
T Consensus 27 yv~i~~~~~~ie~s~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~ 73 (409)
T TIGR00540 27 YVLIETANRIIEMSITGLAIFFIIALAIIFAFEWGLRRFFRLGAHSR 73 (409)
T ss_pred eEEEEECCEEEEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHH
Confidence 55566666654444433332222222222234445566777787653
No 58
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=32.08 E-value=25 Score=34.92 Aligned_cols=27 Identities=22% Similarity=0.559 Sum_probs=23.4
Q ss_pred ccccccccccCCCCCCCCccccccccC
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRRCVLR 123 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~CV~~ 123 (278)
.+.|..|...-|+.+++|..||.=..+
T Consensus 27 ~~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 27 HKPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CCcCCCCCCCCCcccccccccCCcccc
Confidence 368999999999999999999986554
No 59
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=31.85 E-value=22 Score=18.77 Aligned_cols=21 Identities=19% Similarity=0.602 Sum_probs=15.7
Q ss_pred ccccccccCCCCCCCCccccc
Q 023733 99 QCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 99 ~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
.|..|.....+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 577887777777778877764
No 60
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=31.54 E-value=17 Score=27.11 Aligned_cols=20 Identities=25% Similarity=0.517 Sum_probs=14.7
Q ss_pred CCCCCccccccccCCccccc
Q 023733 110 RAHHCKVCRRCVLRMDHHCL 129 (278)
Q Consensus 110 Rs~HC~~C~~CV~~~DHHCp 129 (278)
+.-||..||+||.+----+.
T Consensus 19 ~~V~C~nCgr~vPKDKAIkr 38 (108)
T PTZ00172 19 KPVRCSNCGRCVPKDKAIKR 38 (108)
T ss_pred ccEEeCCccccccccceEEE
Confidence 34589999999998555443
No 61
>PF14127 DUF4294: Domain of unknown function (DUF4294)
Probab=31.52 E-value=44 Score=26.83 Aligned_cols=32 Identities=16% Similarity=0.201 Sum_probs=26.3
Q ss_pred HhccchhhhhhhhHHHHHHHhcCCCccCCCChhHHHHHHHhcCCC
Q 023733 208 IHNMTTIEYHEGIRAAWLAKKSGLSYRHPFDVGVYKNISLVLGSN 252 (278)
Q Consensus 208 ~~n~Tt~E~~~~~~~~~~~~~~~~~~~~pyd~G~~~N~~~vfG~~ 252 (278)
-+|.|++|-++. ++.++.-|+++.+..+||-+
T Consensus 103 etg~TsyelIK~-------------~rgg~~A~~~q~~A~~Fg~s 134 (157)
T PF14127_consen 103 ETGSTSYELIKE-------------LRGGWRAFWYQTFAWLFGIS 134 (157)
T ss_pred hcCCcHHHHHHH-------------hhCChhHHHHHHHHHHhCcc
Confidence 368999998765 45788889999999999965
No 62
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=31.39 E-value=1.1e+02 Score=28.22 Aligned_cols=47 Identities=11% Similarity=0.144 Sum_probs=22.5
Q ss_pred eeheeecccchhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 023733 25 TIFIFIKDWAGLQTSAGLLNALIFTLLLCLCVFSFSVAVAADPGHVP 71 (278)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~y~~~~~~dPG~vp 71 (278)
++.+.+.+|....+....+..++..++.+..++..+..+..-|+.+.
T Consensus 27 yv~i~~~~~~ie~sl~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~ 73 (398)
T PRK10747 27 YVLIQTDNYNIETSVTGLAIILILAMVVLFAIEWLLRRIFRTGARTR 73 (398)
T ss_pred eEEEEECCEEEEehHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhh
Confidence 45555566654434333322222222222234455566777777654
No 63
>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=30.86 E-value=23 Score=25.57 Aligned_cols=11 Identities=27% Similarity=0.809 Sum_probs=8.5
Q ss_pred ccccccccccc
Q 023733 126 HHCLWINNCVG 136 (278)
Q Consensus 126 HHCpw~~nCIG 136 (278)
.||||++.-..
T Consensus 56 ~~CPwv~~~~q 66 (91)
T PF08600_consen 56 EYCPWVNPSTQ 66 (91)
T ss_pred ccCCccCCccc
Confidence 58999988553
No 64
>PHA02942 putative transposase; Provisional
Probab=30.72 E-value=17 Score=33.70 Aligned_cols=24 Identities=29% Similarity=0.610 Sum_probs=18.0
Q ss_pred cccccccccccCC---CCCCCCccccc
Q 023733 96 ERRQCDKCSAYKP---PRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP---~Rs~HC~~C~~ 119 (278)
..+.|+.|....+ .|.+.|..||.
T Consensus 324 TSq~Cs~CG~~~~~l~~r~f~C~~CG~ 350 (383)
T PHA02942 324 SSVSCPKCGHKMVEIAHRYFHCPSCGY 350 (383)
T ss_pred CCccCCCCCCccCcCCCCEEECCCCCC
Confidence 4578999986544 37888888886
No 65
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=29.27 E-value=2.7e+02 Score=21.57 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=15.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHH
Q 023733 139 NYKAFFLLVFYATSGSIYSMVM 160 (278)
Q Consensus 139 N~k~Fi~fl~~~~~~~~~~~~~ 160 (278)
--+||-+|+.+++.+.+.-.++
T Consensus 37 ~~~Y~~LfiVFl~AG~vLw~vM 58 (141)
T PRK13743 37 SDIYFDLFIVFLTAGIVLWVIM 58 (141)
T ss_pred HHHHHHHHHHHHHhhHHHHHHH
Confidence 3468889999888776654444
No 66
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=28.54 E-value=29 Score=21.86 Aligned_cols=33 Identities=21% Similarity=0.735 Sum_probs=22.9
Q ss_pred cccccccccccC---CCCCCCCcccc-----ccccCCcccc
Q 023733 96 ERRQCDKCSAYK---PPRAHHCKVCR-----RCVLRMDHHC 128 (278)
Q Consensus 96 ~~~~C~~C~~~k---P~Rs~HC~~C~-----~CV~~~DHHC 128 (278)
...+|..|+..- ...+.+|+.|+ +|..+.+.-|
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~~C 50 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPPSC 50 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSSBS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCCCC
Confidence 568999998655 66788999996 4666555554
No 67
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=26.53 E-value=24 Score=30.05 Aligned_cols=20 Identities=40% Similarity=0.916 Sum_probs=16.2
Q ss_pred ccCCCCCCCCccccccccCC
Q 023733 105 AYKPPRAHHCKVCRRCVLRM 124 (278)
Q Consensus 105 ~~kP~Rs~HC~~C~~CV~~~ 124 (278)
.+++.+..||..|..|++|.
T Consensus 186 CY~g~~~~~CG~C~sC~~R~ 205 (222)
T COG0603 186 CYNGGEGDHCGECESCVLRE 205 (222)
T ss_pred EeCCCCCCCCCCCHHHHHHH
Confidence 35677777999999999874
No 68
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=26.50 E-value=31 Score=21.13 Aligned_cols=15 Identities=40% Similarity=1.145 Sum_probs=6.8
Q ss_pred cccccccCCcccccc
Q 023733 116 VCRRCVLRMDHHCLW 130 (278)
Q Consensus 116 ~C~~CV~~~DHHCpw 130 (278)
.|..|+...|-||.|
T Consensus 6 sC~~C~~~~~~~C~W 20 (46)
T smart00423 6 SCSECLLARDPYCAW 20 (46)
T ss_pred cHHHHHcCCCCCCCc
Confidence 344444444444444
No 69
>COG4640 Predicted membrane protein [Function unknown]
Probab=26.15 E-value=35 Score=31.58 Aligned_cols=25 Identities=24% Similarity=0.585 Sum_probs=21.2
Q ss_pred ccccccccccCCCCCCCCccccccc
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRRCV 121 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~CV 121 (278)
+++|..|...+-+-+..|..||.=+
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~ 25 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKF 25 (465)
T ss_pred CCcccccccccccccccccccCCcC
Confidence 4789999999999999999988743
No 70
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=26.11 E-value=22 Score=33.85 Aligned_cols=22 Identities=36% Similarity=0.738 Sum_probs=13.9
Q ss_pred cccccccccC--CCCCCCCccccc
Q 023733 98 RQCDKCSAYK--PPRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~k--P~Rs~HC~~C~~ 119 (278)
..|-.|+..- --|-|||+.||.
T Consensus 902 ~~cmacq~pf~afrrrhhcrncgg 925 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGG 925 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCc
Confidence 4566665321 237899998876
No 71
>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=25.74 E-value=17 Score=23.01 Aligned_cols=17 Identities=29% Similarity=0.806 Sum_probs=10.6
Q ss_pred ccccccccCCccccccc
Q 023733 115 KVCRRCVLRMDHHCLWI 131 (278)
Q Consensus 115 ~~C~~CV~~~DHHCpw~ 131 (278)
..|+.|+.-.|-+|-|=
T Consensus 6 ~sC~~Cl~~~dp~CgWc 22 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWC 22 (51)
T ss_dssp SSHHHHHHSTCTTEEEE
T ss_pred CcHHHHHcCCCcCcccc
Confidence 45666666666666664
No 72
>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=25.41 E-value=50 Score=30.89 Aligned_cols=31 Identities=19% Similarity=0.497 Sum_probs=22.0
Q ss_pred ccccccccc-cCCCCCCCCccccccccCCccc
Q 023733 97 RRQCDKCSA-YKPPRAHHCKVCRRCVLRMDHH 127 (278)
Q Consensus 97 ~~~C~~C~~-~kP~Rs~HC~~C~~CV~~~DHH 127 (278)
..-|+.|+. .+|....||..||.-..+..++
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 456999996 5566666888888877665554
No 73
>PF01283 Ribosomal_S26e: Ribosomal protein S26e; InterPro: IPR000892 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 [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. One of these families, the S26E family, includes mammalian S26 []; Octopus S26 []; Drosophila S26 (DS31) []; plant cytoplasmic S26; and fungal S26 []. These proteins have 114 to 127 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3U5G_a 3U5C_a 2XZM_5 2XZN_5.
Probab=25.05 E-value=24 Score=26.67 Aligned_cols=22 Identities=23% Similarity=0.560 Sum_probs=13.9
Q ss_pred CCCCCccccccccCCccccccc
Q 023733 110 RAHHCKVCRRCVLRMDHHCLWI 131 (278)
Q Consensus 110 Rs~HC~~C~~CV~~~DHHCpw~ 131 (278)
+.-||..|++||.+----..++
T Consensus 19 ~~V~C~nCgr~vPKDKAIkrf~ 40 (113)
T PF01283_consen 19 QPVRCDNCGRCVPKDKAIKRFV 40 (113)
T ss_dssp -EEE-TTTB-EEECCCSEEEEE
T ss_pred cCEeeCcccccCcCCceEEEEE
Confidence 3458999999999866655443
No 74
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.82 E-value=29 Score=34.17 Aligned_cols=24 Identities=29% Similarity=0.854 Sum_probs=17.7
Q ss_pred ccccccccccc--CCCCCCCCccccc
Q 023733 96 ERRQCDKCSAY--KPPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~--kP~Rs~HC~~C~~ 119 (278)
...-|.+|... ---|.|||+.||+
T Consensus 164 D~~~C~rCr~~F~~~~rkHHCr~CG~ 189 (634)
T KOG1818|consen 164 DSEECLRCRVKFGLTNRKHHCRNCGQ 189 (634)
T ss_pred cccccceeeeeeeeccccccccccch
Confidence 34678888632 2339999999998
No 75
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.22 E-value=22 Score=32.75 Aligned_cols=26 Identities=31% Similarity=0.804 Sum_probs=18.8
Q ss_pred CCCCCCCCccccccccCCcccccccccccccc
Q 023733 107 KPPRAHHCKVCRRCVLRMDHHCLWINNCVGHW 138 (278)
Q Consensus 107 kP~Rs~HC~~C~~CV~~~DHHCpw~~nCIG~~ 138 (278)
+-.|..||..|+. .|| +|+.||||..
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga~ 35 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGAL 35 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHHH
Confidence 4455667777764 677 7999999973
No 76
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=23.38 E-value=36 Score=25.60 Aligned_cols=24 Identities=29% Similarity=0.829 Sum_probs=16.2
Q ss_pred cccccccccccC----CCCCCCCccccc
Q 023733 96 ERRQCDKCSAYK----PPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~k----P~Rs~HC~~C~~ 119 (278)
..-.|..|...+ .=|++||+.|+.
T Consensus 41 ~~~~C~~Cg~~~~~~~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 41 HRYRCEDCGHEKIVYNSCKNRHCPSCQA 68 (111)
T ss_pred ceeecCCCCceEEecCcccCcCCCCCCC
Confidence 456788887544 346778888875
No 77
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=23.11 E-value=41 Score=22.03 Aligned_cols=22 Identities=36% Similarity=0.881 Sum_probs=15.7
Q ss_pred cccccccccccCCCCCCCCccccc
Q 023733 96 ERRQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
..+.|..|..+-- ...|..||.
T Consensus 4 ~mr~C~~CgvYTL--k~~CP~CG~ 25 (56)
T PRK13130 4 KIRKCPKCGVYTL--KEICPVCGG 25 (56)
T ss_pred cceECCCCCCEEc--cccCcCCCC
Confidence 4577888887666 667777774
No 78
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=23.00 E-value=1.3e+02 Score=28.37 Aligned_cols=10 Identities=30% Similarity=0.883 Sum_probs=4.6
Q ss_pred CCcccccccc
Q 023733 113 HCKVCRRCVL 122 (278)
Q Consensus 113 HC~~C~~CV~ 122 (278)
.|..|+.|+.
T Consensus 256 ~Ci~Cg~Cid 265 (434)
T TIGR02745 256 ECINCGLCID 265 (434)
T ss_pred hChhhhHHHH
Confidence 3444444443
No 79
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.71 E-value=79 Score=27.31 Aligned_cols=27 Identities=30% Similarity=0.620 Sum_probs=18.7
Q ss_pred cccccccccc----------cCCCCCCCCcccccccc
Q 023733 96 ERRQCDKCSA----------YKPPRAHHCKVCRRCVL 122 (278)
Q Consensus 96 ~~~~C~~C~~----------~kP~Rs~HC~~C~~CV~ 122 (278)
..+.|.-|+. .++..--+|..|||-..
T Consensus 196 ~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRILy 232 (239)
T COG1579 196 EGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRILY 232 (239)
T ss_pred cCCcccCCeeeecHHHHHHHhcCCCCccCCccchHHH
Confidence 3477888865 44567778888888544
No 80
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=22.55 E-value=42 Score=36.35 Aligned_cols=23 Identities=39% Similarity=0.930 Sum_probs=18.1
Q ss_pred ccccccccccCCCCCCCCcccccc
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRRC 120 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~C 120 (278)
.+.|..|. -+-.|.|||+.||+|
T Consensus 5 ~~~~~~~~-t~~~~~~~~~~~g~~ 27 (1598)
T KOG0230|consen 5 SNVCYDCD-TSVNRRHHCRVCGRV 27 (1598)
T ss_pred ccchhccc-cccccCCCCcccCce
Confidence 36677787 677888999999884
No 81
>PRK15033 tricarballylate utilization protein B; Provisional
Probab=22.54 E-value=3.7e+02 Score=25.02 Aligned_cols=14 Identities=36% Similarity=1.198 Sum_probs=12.2
Q ss_pred CCccccccccCCcccccc
Q 023733 113 HCKVCRRCVLRMDHHCLW 130 (278)
Q Consensus 113 HC~~C~~CV~~~DHHCpw 130 (278)
.|..||.|. |+||.
T Consensus 68 ~C~~Cg~C~----~~CP~ 81 (389)
T PRK15033 68 LCHNCGACL----HACQY 81 (389)
T ss_pred hCcCccccc----ccCcC
Confidence 899999995 58998
No 82
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.17 E-value=45 Score=25.12 Aligned_cols=24 Identities=25% Similarity=0.559 Sum_probs=15.8
Q ss_pred cccccccccccCCCCCC--CCccccc
Q 023733 96 ERRQCDKCSAYKPPRAH--HCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~Rs~--HC~~C~~ 119 (278)
..-+|..|+..-+.... -|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQHDAQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCCcCccCcCCCC
Confidence 56789999865544333 3888874
No 83
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=21.06 E-value=32 Score=27.44 Aligned_cols=25 Identities=28% Similarity=0.561 Sum_probs=17.1
Q ss_pred ccccccccccCCCCCCCCccccccccCC
Q 023733 97 RRQCDKCSAYKPPRAHHCKVCRRCVLRM 124 (278)
Q Consensus 97 ~~~C~~C~~~kP~Rs~HC~~C~~CV~~~ 124 (278)
...-.+|... +..||..|..|+.|.
T Consensus 140 ~~~s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 140 LELTWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred hhheeeccCC---CCCCCCCCHHHHHHH
Confidence 3445666643 237999999998863
No 84
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=20.82 E-value=35 Score=29.70 Aligned_cols=13 Identities=23% Similarity=0.511 Sum_probs=5.8
Q ss_pred cccccccccCCCC
Q 023733 98 RQCDKCSAYKPPR 110 (278)
Q Consensus 98 ~~C~~C~~~kP~R 110 (278)
+.|..|..+.-.|
T Consensus 262 ~~C~iC~~~~~~R 274 (325)
T KOG4399|consen 262 HGCFICGELDHKR 274 (325)
T ss_pred cceeecccccccc
Confidence 3444444444444
No 85
>PF03503 Chlam_OMP3: Chlamydia cysteine-rich outer membrane protein 3; InterPro: IPR003517 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP2 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP3 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae, and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=20.75 E-value=68 Score=20.18 Aligned_cols=22 Identities=23% Similarity=0.690 Sum_probs=11.4
Q ss_pred cccccccccCCCCCCCCccccc
Q 023733 98 RQCDKCSAYKPPRAHHCKVCRR 119 (278)
Q Consensus 98 ~~C~~C~~~kP~Rs~HC~~C~~ 119 (278)
+-|.-|+..|-+++--|+.||.
T Consensus 24 ~sc~pc~~~kkd~~~g~n~cg~ 45 (55)
T PF03503_consen 24 KSCNPCEVNKKDVSCGCNPCGS 45 (55)
T ss_pred CcccccccccccccCCcccccc
Confidence 4455555555555555555544
No 86
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=20.50 E-value=48 Score=25.06 Aligned_cols=24 Identities=25% Similarity=0.656 Sum_probs=16.9
Q ss_pred cccccccccccCCC--CCCCCccccc
Q 023733 96 ERRQCDKCSAYKPP--RAHHCKVCRR 119 (278)
Q Consensus 96 ~~~~C~~C~~~kP~--Rs~HC~~C~~ 119 (278)
..-+|..|+..-+. +..+|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEIDLYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCcCccCcCCcC
Confidence 55789999855544 4666888874
No 87
>CHL00031 psbT photosystem II protein T
Probab=20.34 E-value=1.9e+02 Score=16.66 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=14.5
Q ss_pred HHHHHHHH-HHHHHHHhhcCCCCCCC
Q 023733 48 FTLLLCLC-VFSFSVAVAADPGHVPS 72 (278)
Q Consensus 48 ~~~l~~l~-~~~y~~~~~~dPG~vp~ 72 (278)
|+++.++. ...++...++||-.+++
T Consensus 6 Ytfll~~tlgilFFAI~FRePPri~k 31 (33)
T CHL00031 6 YTFLLVSTLGIIFFAIFFREPPKVPT 31 (33)
T ss_pred HHHHHHHHHHHHHHhheecCCCCCCC
Confidence 44444443 34555677899866654
No 88
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.27 E-value=1.4e+02 Score=27.25 Aligned_cols=15 Identities=20% Similarity=0.261 Sum_probs=7.3
Q ss_pred cccccccCCCCCCCC
Q 023733 100 CDKCSAYKPPRAHHC 114 (278)
Q Consensus 100 C~~C~~~kP~Rs~HC 114 (278)
|..|..++|.-++|=
T Consensus 266 vGfleSF~PLy~~~~ 280 (372)
T KOG2927|consen 266 VGFLESFKPLYEYHY 280 (372)
T ss_pred hhHHHhhcccccccC
Confidence 344445555555443
Done!