Query 024946
Match_columns 260
No_of_seqs 170 out of 1524
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 08:42:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024946.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024946hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1470 Phosphatidylinositol t 100.0 9.2E-48 2E-52 327.3 19.9 196 64-260 44-241 (324)
2 KOG1471 Phosphatidylinositol t 100.0 4.1E-38 8.9E-43 276.7 18.8 224 31-260 12-255 (317)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 2.1E-33 4.5E-38 222.5 5.7 148 112-260 2-158 (159)
4 smart00516 SEC14 Domain in hom 100.0 4.6E-30 1E-34 203.1 12.9 137 123-260 14-155 (158)
5 cd00170 SEC14 Sec14p-like lipi 100.0 4.8E-28 1E-32 190.2 11.8 143 118-260 9-156 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.6 1.3E-15 2.9E-20 119.4 6.0 134 119-260 4-142 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 99.0 1.6E-09 3.5E-14 70.1 5.9 51 43-93 2-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.5 4.7E-07 1E-11 79.7 9.6 127 117-250 80-211 (467)
9 PF14555 UBA_4: UBA-like domai 92.6 0.49 1.1E-05 28.4 5.2 36 43-91 2-37 (43)
10 PF02845 CUE: CUE domain; Int 91.4 0.86 1.9E-05 27.2 5.3 38 43-92 3-40 (42)
11 smart00546 CUE Domain that may 89.7 1.3 2.9E-05 26.4 5.1 38 43-92 4-41 (43)
12 PF06972 DUF1296: Protein of u 82.5 5.6 0.00012 25.6 5.2 40 41-92 5-44 (60)
13 PF00627 UBA: UBA/TS-N domain; 81.8 7.6 0.00017 22.2 5.4 23 68-90 15-37 (37)
14 KOG1838 Alpha/beta hydrolase [ 65.4 87 0.0019 28.7 10.2 85 126-223 121-214 (409)
15 PF08938 HBS1_N: HBS1 N-termin 64.7 1.9 4.1E-05 29.7 -0.3 49 35-93 19-70 (79)
16 PF02084 Bindin: Bindin; Inte 64.6 9.4 0.0002 31.6 3.6 38 43-80 104-141 (238)
17 cd00194 UBA Ubiquitin Associat 63.5 15 0.00032 20.9 3.5 24 68-91 14-37 (38)
18 smart00165 UBA Ubiquitin assoc 63.2 15 0.00032 20.8 3.5 23 68-90 14-36 (37)
19 smart00804 TAP_C C-terminal do 59.5 47 0.001 21.7 6.4 28 67-94 25-52 (63)
20 KOG1534 Putative transcription 56.9 6 0.00013 32.9 1.3 64 153-219 74-145 (273)
21 KOG2267 Eukaryotic-type DNA pr 55.9 31 0.00066 31.2 5.5 46 44-95 290-335 (475)
22 PF14213 DUF4325: Domain of un 55.4 42 0.00091 22.5 5.2 48 173-222 19-68 (74)
23 PF11339 DUF3141: Protein of u 54.5 72 0.0016 30.3 7.9 78 129-218 100-177 (581)
24 PF03474 DMA: DMRTA motif; In 50.2 38 0.00082 19.9 3.6 24 67-90 15-38 (39)
25 PF09590 Env-gp36: Lentivirus 48.1 78 0.0017 29.8 7.0 64 33-101 40-113 (591)
26 PF11964 SpoIIAA-like: SpoIIAA 47.3 95 0.0021 21.9 6.4 76 145-228 11-87 (109)
27 cd07322 PriL_PriS_Eukaryotic E 47.2 1.3E+02 0.0029 27.3 8.5 44 44-93 227-270 (390)
28 COG1219 ClpX ATP-dependent pro 42.4 20 0.00043 31.8 2.3 26 65-90 140-165 (408)
29 TIGR02364 dha_pts dihydroxyace 41.5 80 0.0017 23.7 5.2 63 159-230 49-111 (125)
30 PF04079 DUF387: Putative tran 35.3 1.3E+02 0.0028 23.7 5.7 106 33-139 22-143 (159)
31 KOG3824 Huntingtin interacting 34.6 75 0.0016 28.1 4.6 50 82-131 333-382 (472)
32 PF13170 DUF4003: Protein of u 33.5 2.3E+02 0.005 24.7 7.6 63 36-103 113-175 (297)
33 PF02954 HTH_8: Bacterial regu 32.1 77 0.0017 18.5 3.1 22 69-90 7-28 (42)
34 KOG3561 Aryl-hydrocarbon recep 31.5 2.3E+02 0.005 28.5 7.8 75 44-136 38-122 (803)
35 PF04378 RsmJ: Ribosomal RNA s 30.9 30 0.00064 29.4 1.5 26 207-232 206-231 (245)
36 COG2961 ComJ Protein involved 30.8 34 0.00074 29.1 1.8 26 207-232 237-262 (279)
37 PF03943 TAP_C: TAP C-terminal 29.6 43 0.00094 20.8 1.8 26 67-92 13-38 (51)
38 PRK14484 phosphotransferase ma 29.4 1.3E+02 0.0027 22.7 4.6 57 160-229 50-106 (124)
39 PF11385 DUF3189: Protein of u 28.3 2.3E+02 0.0049 22.0 6.0 54 115-180 48-101 (148)
40 PF07544 Med9: RNA polymerase 27.8 87 0.0019 21.6 3.2 23 33-55 49-71 (83)
41 KOG1533 Predicted GTPase [Gene 27.0 2.7E+02 0.0059 23.8 6.4 117 126-245 27-176 (290)
42 PF09949 DUF2183: Uncharacteri 26.7 2.4E+02 0.0053 20.2 5.5 50 153-213 50-99 (100)
43 TIGR02886 spore_II_AA anti-sig 25.8 2.3E+02 0.0051 19.8 5.4 49 172-224 40-89 (106)
44 PF14048 MBD_C: C-terminal dom 25.3 84 0.0018 22.5 2.8 50 5-54 39-94 (96)
45 cd01886 EF-G Elongation factor 25.2 1.7E+02 0.0037 25.0 5.3 57 37-101 188-244 (270)
46 COG2994 HlyC ACP:hemolysin acy 23.9 1.2E+02 0.0026 23.3 3.6 80 111-207 46-128 (148)
47 PRK00095 mutL DNA mismatch rep 21.8 2.2E+02 0.0048 27.7 5.8 48 89-136 557-605 (617)
48 KOG4329 DNA-binding protein [G 21.5 2.4E+02 0.0051 25.5 5.3 36 57-93 234-269 (445)
49 PF10542 Vitelline_membr: Vite 21.3 46 0.001 19.1 0.7 14 8-21 1-14 (38)
50 PRK12751 cpxP periplasmic stre 21.1 3.5E+02 0.0076 21.3 5.9 62 32-99 53-114 (162)
51 COG5005 Mu-like prophage prote 21.1 2.1E+02 0.0046 21.7 4.3 36 19-54 101-136 (140)
No 1
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=9.2e-48 Score=327.27 Aligned_cols=196 Identities=36% Similarity=0.652 Sum_probs=187.9
Q ss_pred CCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhhcCCCC-CChhhHHHHHhcCceeeccCCCCCCCcEEEEecCccCC
Q 024946 64 NGRDDEDMILWFLKDRKFSIEESLAKLTKAIKWRQEFRVSE-LNEDSVRGIAESGKAYVHDFLDINERPVLIVVASKHLP 142 (260)
Q Consensus 64 ~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~wR~~~~~~~-i~~~~~~~~l~~~~~~~~g~~D~~Grpv~~~~~~~~~~ 142 (260)
....+|.+++|||||++||+++|.+|+.+++.||+++++.. +..+++..+++.|++|++| .|++||||+|+++..+.+
T Consensus 44 ~~~~~d~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~~~~Ev~~e~~tGK~yi~G-~D~~gRPVl~~~~~~~~q 122 (324)
T KOG1470|consen 44 SKWCSDACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEVIEADEVAAELETGKAYILG-HDKDGRPVLYLRPRPHRQ 122 (324)
T ss_pred HhcCcHHHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCccccCHHHHHHHhhcCcEEEec-ccCCCCeEEEEecCCCCC
Confidence 35678999999999999999999999999999999999988 8888899999999999999 799999999999988888
Q ss_pred CCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhccccccccceEEEcCCcchHHHH
Q 024946 143 AVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFW 222 (260)
Q Consensus 143 ~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~ 222 (260)
+..+.+...|+++|+||.++..++.+++++++++|++|++++|++++.++.+++++|+||||||++.+|+|+||+|..+|
T Consensus 123 n~~t~~~~~r~~Vy~mE~Ai~~lp~~qe~~~~L~D~~~fs~sN~d~~~~k~~~~~lq~hYPErLg~a~l~~~P~iF~~~w 202 (324)
T KOG1470|consen 123 NTKTQKELERLLVYTLENAILFLPPGQEQFVWLFDLTGFSMSNPDIKFLKELLHILQDHYPERLGKALLVNAPWIFQPFW 202 (324)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCCCcceEEEEEecccCcccCCCcHHHHHHHHHHHHhChHHhhhhhhcCChHHHHHHH
Confidence 88899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhcccccc-CeEEEccchhhhhccCCCCCCCcccCC
Q 024946 223 QLTKPLLKSYA-SLAKFCSVETVRKEYFTEATVPDNFRE 260 (260)
Q Consensus 223 ~~vkpfL~~~t-~ki~~~~~~~ll~~~i~~~~LP~~yGg 260 (260)
+++||||+++| +||+|+.+.+.+.+|||+++||..|||
T Consensus 203 kiikpflDp~t~~Kv~F~~~~~~l~~~~d~~~l~s~~GG 241 (324)
T KOG1470|consen 203 KIIKPFLDPKTASKVKFVEPKDDLSEYFDESQLPSLFGG 241 (324)
T ss_pred HHhhhccChhhhceeEEecChhHHHhhCCccccchhhCC
Confidence 99999999998 999999876656899999999999999
No 2
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=4.1e-38 Score=276.69 Aligned_cols=224 Identities=22% Similarity=0.376 Sum_probs=178.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhhcCCCCCChh--
Q 024946 31 VKNCQSDPHESRKLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKWRQEFRVSELNED-- 108 (260)
Q Consensus 31 ~~~~~~~~e~~~~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~wR~~~~~~~i~~~-- 108 (260)
..+.++.++.+++.++++| |+..+ +.++ ....||.+|+|||||++||+++|.+++.+++.||.++.++++..+
T Consensus 12 ~~~~~~~~~~~~~~i~~lr-~~~~~-~~l~---~~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~d~i~~~~~ 86 (317)
T KOG1471|consen 12 KEELNEITESEEAVIAQLR-WLLQK-PHLP---NKYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKLDEIFEDFE 86 (317)
T ss_pred ccccCCCcHHHHHHHHHHH-HHhhc-cCCC---CCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCccHhhccc
Confidence 3566776777788999999 55444 4554 247899999999999999999999999999999999998887654
Q ss_pred hHHHHHhcCceeeccCCCCCCCcEEEEecCccCCCC----CChhhhhHHHH--------HHHHHHHHhCCCCccceEEEE
Q 024946 109 SVRGIAESGKAYVHDFLDINERPVLIVVASKHLPAV----HDPVEDEKLCV--------FFIEKALSKLPPGKEQILGII 176 (260)
Q Consensus 109 ~~~~~l~~~~~~~~g~~D~~Grpv~~~~~~~~~~~~----~~~~~~~r~~~--------~~~E~~~~~~~~~~~~~~~Ii 176 (260)
......+......+| .|++|+|+++.+.|..+... ....+..++.+ ..+|......+.+++|++.|+
T Consensus 87 ~~~~~~~~~~~~~~~-~~~~g~~v~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~~I~ 165 (317)
T KOG1471|consen 87 EDDELLKYYPQGLHG-VDKEGRPVYIERLGKIDPKGLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIVTIF 165 (317)
T ss_pred cchhhhhhccccccc-cCCCCCEEEEeccCCCCcccceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeEEEE
Confidence 122222223456787 79999999999999876542 23444444443 444555544456799999999
Q ss_pred eCCCCCCCCC---CHHHHHHHHHHHhccccccccceEEEcCCcchHHHHHHhhhcccccc-CeEEEc-cc-hhhhhccCC
Q 024946 177 DLRGFGTENA---DLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSYA-SLAKFC-SV-ETVRKEYFT 250 (260)
Q Consensus 177 D~~g~~~~~~---~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~~~t-~ki~~~-~~-~~ll~~~i~ 250 (260)
|++|++++++ .+..++.++..+|++||++++++||||+|++|+++|+++||||+++| +||++. +. .+-+.++|+
T Consensus 166 Dl~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~~~~~~L~k~i~ 245 (317)
T KOG1471|consen 166 DLKGVSLSHLLKPAPTLLKKILKILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHSKDKESLLKYIP 245 (317)
T ss_pred ECCCCcchhHHHHHHHHHHHHHHHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecCCCchhhhhhhCC
Confidence 9999999987 37899999999999999999999999999999999999999999998 898833 32 233479999
Q ss_pred CCCCCcccCC
Q 024946 251 EATVPDNFRE 260 (260)
Q Consensus 251 ~~~LP~~yGg 260 (260)
++.||.+|||
T Consensus 246 ~~~LP~~yGG 255 (317)
T KOG1471|consen 246 PEVLPEEYGG 255 (317)
T ss_pred HhhCccccCC
Confidence 9999999999
No 3
>PF00650 CRAL_TRIO: CRAL/TRIO domain; InterPro: IPR001251 This entry defines the C-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1OLM_E 1O6U_E 3Q8G_A 3B7Q_B 3B7Z_A ....
Probab=99.98 E-value=2.1e-33 Score=222.52 Aligned_cols=148 Identities=30% Similarity=0.569 Sum_probs=123.9
Q ss_pred HHHhcCceeeccCCCCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHhCC--CCccceEEEEeCCCCCCCCCC--
Q 024946 112 GIAESGKAYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLP--PGKEQILGIIDLRGFGTENAD-- 187 (260)
Q Consensus 112 ~~l~~~~~~~~g~~D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~~~--~~~~~~~~IiD~~g~~~~~~~-- 187 (260)
+..+.+..+++| +|++||||++++++++++...+.+++.+++++++|.+++.++ .+.+|+++|+|++|+++++++
T Consensus 2 ~~~~~~~~~~~g-~D~~gr~v~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~~~~~~~~~~~~iiD~~g~~~~~~~~~ 80 (159)
T PF00650_consen 2 EILKSGPFYLHG-RDKDGRPVIYIRLGRFDPKKFSPEDVIRFFVYLLERMLKRMPEGGQVEGIVVIIDLSGFSLSNFDWW 80 (159)
T ss_dssp HHHTTSCEEEEE-E-TTS-EEEEEEGTT--HHTS-HHHHHHHHHHHHHHHHHTHHHTSHHH-EEEEEE-TT--HHHHHCH
T ss_pred HHHCCeeEEECC-CCCCcCEEEEEEcccCCCCcCCHHHHHHHHHHHHHHHHhhhcccccceeEEEEEeCCCceEeccccc
Confidence 346788899999 799999999999999998888899999999999999986543 468999999999999999887
Q ss_pred -HHHHHHHHHHHhccccccccceEEEcCCcchHHHHHHhhhcccccc-CeEEEccchh---hhhccCCCCCCCcccCC
Q 024946 188 -LKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSYA-SLAKFCSVET---VRKEYFTEATVPDNFRE 260 (260)
Q Consensus 188 -~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~~~t-~ki~~~~~~~---ll~~~i~~~~LP~~yGg 260 (260)
.+.++.++++++++||+|++++||+|+|++++++|++++|||++++ +||.+++..+ .+.++|++++||++|||
T Consensus 81 ~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~lP~~~GG 158 (159)
T PF00650_consen 81 PISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQLPVEYGG 158 (159)
T ss_dssp HHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGGSBGGGTS
T ss_pred hhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhHCchhcCC
Confidence 8999999999999999999999999999999999999999999998 9999996532 35899999999999999
No 4
>smart00516 SEC14 Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p). Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and the RasGAP, neurofibromin (NF1). Lipid-binding domain. The SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.97 E-value=4.6e-30 Score=203.11 Aligned_cols=137 Identities=28% Similarity=0.482 Sum_probs=128.7
Q ss_pred cCCCCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHh--CCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhc
Q 024946 123 DFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSK--LPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYY 200 (260)
Q Consensus 123 g~~D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~--~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~ 200 (260)
| +|++||||+++++++++++..+.+++++++++.+|.+++. .+.+.+|+++|+|++|+++++++++.++.++++++.
T Consensus 14 g-~D~~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~i~D~~~~~~~~~~~~~lk~~~~~~~~ 92 (158)
T smart00516 14 G-YDKDGRPVLIFRAGRFDLKSVTLEELLRYLVYVLEKILQREKKTGGIEGFTVIFDLKGLSMSNPDLSVLRKILKILQD 92 (158)
T ss_pred C-CCCCcCEEEEEeccccccCcCCHHHHHHHHHHHHHHHHHHHhcCCCeeeEEEEEECCCCCcccccHHHHHHHHHHHHH
Confidence 6 7999999999999998888899999999999999999876 567789999999999999999999999999999999
Q ss_pred cccccccceEEEcCCcchHHHHHHhhhcccccc-CeEEEccc--hhhhhccCCCCCCCcccCC
Q 024946 201 YHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSYA-SLAKFCSV--ETVRKEYFTEATVPDNFRE 260 (260)
Q Consensus 201 ~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~~~t-~ki~~~~~--~~ll~~~i~~~~LP~~yGg 260 (260)
+||++++++||+|+|++++++|+++++|+++++ +||+++++ .+.+.++||+++||++|||
T Consensus 93 ~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~L~~~i~~~~lP~~~GG 155 (158)
T smart00516 93 HYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGNDSKEELLEYIDPEQLPEELGG 155 (158)
T ss_pred HhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCCCCHHHHHhhCCHhhCcHhhCC
Confidence 999999999999999999999999999999997 99999986 3445899999999999999
No 5
>cd00170 SEC14 Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.95 E-value=4.8e-28 Score=190.18 Aligned_cols=143 Identities=25% Similarity=0.386 Sum_probs=126.0
Q ss_pred ceeeccCCCCCCCcEEEEecCccCC-CCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCC--CHHHHHHH
Q 024946 118 KAYVHDFLDINERPVLIVVASKHLP-AVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENA--DLKFLTFL 194 (260)
Q Consensus 118 ~~~~~g~~D~~Grpv~~~~~~~~~~-~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~--~~~~~k~~ 194 (260)
.+++.|++|++||||+++++++.+. ...+.++.+++.++.+|...+.......|+++|+|++|++++++ +.+.++.+
T Consensus 9 ~~~~~~~~D~~gr~V~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~D~~~~~~~~~~~~~~~~k~~ 88 (157)
T cd00170 9 KVGYLGGRDKEGRPVLIIRAGNKDLSKSLDSEELLRYLVYTLEKLLQEDDEQVEGFVVIIDLKGLSLSHLLPDPSLLKKI 88 (157)
T ss_pred cccccCCCCCCcCEEEEEecCCcchhhcCCHHHHHHHHHHHHHHHHhhhhhcccceEEEEECCCCChhccchhHHHHHHH
Confidence 3444554899999999999996443 33445889999999999998876666679999999999999988 78999999
Q ss_pred HHHHhccccccccceEEEcCCcchHHHHHHhhhcccccc-CeEEEccc-hhhhhccCCCCCCCcccCC
Q 024946 195 FDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSYA-SLAKFCSV-ETVRKEYFTEATVPDNFRE 260 (260)
Q Consensus 195 ~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~~~t-~ki~~~~~-~~ll~~~i~~~~LP~~yGg 260 (260)
+++++++||++++++||+|+|++++++|+++++|+++++ +||+++++ .+.+.+++++++||.+|||
T Consensus 89 ~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~L~~~i~~~~Lp~~~GG 156 (157)
T cd00170 89 LKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSDKEELLKYIDKEQLPEEYGG 156 (157)
T ss_pred HHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCCHHHHHhhCChhhCcHhhCC
Confidence 999999999999999999999999999999999999997 99999987 4444899999999999999
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.60 E-value=1.3e-15 Score=119.41 Aligned_cols=134 Identities=20% Similarity=0.355 Sum_probs=92.0
Q ss_pred eeeccCCCCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCC-CHHHHHHHHHH
Q 024946 119 AYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENA-DLKFLTFLFDV 197 (260)
Q Consensus 119 ~~~~g~~D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~-~~~~~k~~~~~ 197 (260)
++..| +|++||||+++...+. + +.++..+.+.|++...... ....++++|+|++|.+..+. +...++.+.+.
T Consensus 4 ~~~gG-~d~~g~pV~~~~~~~~-~---~~~~~~~ll~yl~~~l~~~--~~~~~f~vVid~~~~~~~~~~~~~~l~~~~~~ 76 (149)
T PF13716_consen 4 FYPGG-RDREGRPVVVFIASRL-P---SSDDLERLLLYLLSTLSEE--VVDKPFSVVIDHTGFSRSSEPSLSWLKQLYKL 76 (149)
T ss_dssp -EEEE-EBTTS-EEEEEEGGG--C----TTHHHHHHHHHHHHH-TT--TTTS-EEEEEE-TT--GGG---HHHHHHTTTS
T ss_pred EEecc-cCCCcCEEEEEECCcC-c---chhhHHHHHHHHHHhhhHH--hcCCCEEEEEEcCCCccccCCchHHHHHHHHH
Confidence 34455 8999999999997776 3 2346667677776665333 23457999999999997654 68999999999
Q ss_pred HhccccccccceEEEcCCcchHHHH-HHhhhcccccc--CeEEEccc-hhhhhccCCCCCCCcccCC
Q 024946 198 FYYYHPKRLGEVLFVEAPFVFKPFW-QLTKPLLKSYA--SLAKFCSV-ETVRKEYFTEATVPDNFRE 260 (260)
Q Consensus 198 ~~~~yP~rl~~i~ivN~p~~~~~~~-~~vkpfL~~~t--~ki~~~~~-~~ll~~~i~~~~LP~~yGg 260 (260)
+...|+..++++||+|++++++.++ .+.+++.+.+. .||.+++. +++ .++||+++||+++||
T Consensus 77 l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~sl~~L-~~~i~~~qL~~~lp~ 142 (149)
T PF13716_consen 77 LPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSSLSEL-SKHIDPSQLPESLPG 142 (149)
T ss_dssp S-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESSTCGG-GGTSGGGG------H
T ss_pred HHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECCHHHH-HhhCCHHHhcccCCC
Confidence 9999999999999999999999999 56667777764 88888865 455 899999999999986
No 7
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=98.97 E-value=1.6e-09 Score=70.06 Aligned_cols=51 Identities=27% Similarity=0.458 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhccCC---CCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 024946 43 KLVLQVKERLEKDYNS---LPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKA 93 (260)
Q Consensus 43 ~~i~elr~~l~~~~~~---lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~ 93 (260)
+++++|++.+...... ++.......+|.+|+|||||++||+++|.+||.+|
T Consensus 2 ~~l~~l~~~l~~~~~~~~~~~~~~~~~~~d~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 2 QKLKQLREHLSELDEKAPGLWDDEKEDHDDNFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp HHHHHHHHHHHH--GGGTHHHTTHTSS-SHHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchhcccccccCCCCHHHHHHHHHHccCCHHHHHHHHHhC
Confidence 5789999999874210 00111346789999999999999999999999875
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.55 E-value=4.7e-07 Score=79.72 Aligned_cols=127 Identities=18% Similarity=0.214 Sum_probs=95.5
Q ss_pred CceeeccC-CCCCCCcEEEEecCccCCC-CCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCCC-HHHHHH
Q 024946 117 GKAYVHDF-LDINERPVLIVVASKHLPA-VHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENAD-LKFLTF 193 (260)
Q Consensus 117 ~~~~~~g~-~D~~Grpv~~~~~~~~~~~-~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~~-~~~~k~ 193 (260)
..+.+.|. .|++||.|+++.+.+..+. +.+-..++++.++.++..++. .++.++=-.|+...+.+ .+.+..
T Consensus 80 ei~qvi~~~~D~~gr~iivv~a~rlp~~~eld~~~li~~~v~~id~~Ve~------DYt~vYfh~gl~s~nkp~l~~l~~ 153 (467)
T KOG4406|consen 80 EILQVIGDAKDKQGRKIIVVYACRLPSSSELDDIRLISYLVYTIDKYVEN------DYTLVYFHHGLPSDNKPYLQLLFD 153 (467)
T ss_pred heeeeccCcccccCCeeEEEEEecCCchhhhhhHHHHHHHHHHHHHHHhc------cceeeehhcCCcccccchHHHHHH
Confidence 44555553 5999999999988886442 222233788899999988765 26777777788777764 566666
Q ss_pred HHHHHhccccccccceEEEcCCcchHHHHHHhhhccccc-cCeEEEccc-hhhhhccCC
Q 024946 194 LFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSY-ASLAKFCSV-ETVRKEYFT 250 (260)
Q Consensus 194 ~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~~~-t~ki~~~~~-~~ll~~~i~ 250 (260)
...-+-.+|---++.+|||++-|+..++|+++|||++.+ ++||+.++. +++ .+++.
T Consensus 154 aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~n~lseL-~~~l~ 211 (467)
T KOG4406|consen 154 AYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYFNSLSEL-FEALK 211 (467)
T ss_pred HHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEeehHHHH-HHhhh
Confidence 656666678889999999999999999999999999999 599888765 444 45543
No 9
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=92.60 E-value=0.49 Score=28.44 Aligned_cols=36 Identities=17% Similarity=0.310 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHH
Q 024946 43 KLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLT 91 (260)
Q Consensus 43 ~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~ 91 (260)
++|.+|.+... .++.....||.+++||++.|...+-
T Consensus 2 e~i~~F~~iTg-------------~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 2 EKIAQFMSITG-------------ADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHH--------------SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred HHHHHHHHHHC-------------cCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 46777777653 1578899999999999999998763
No 10
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=91.44 E-value=0.86 Score=27.17 Aligned_cols=38 Identities=21% Similarity=0.291 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 024946 43 KLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTK 92 (260)
Q Consensus 43 ~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~ 92 (260)
+.|++|++.+ | ..+...+..-|.++++|++.|...|.+
T Consensus 3 ~~v~~L~~mF----P--------~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 3 EMVQQLQEMF----P--------DLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHS----S--------SS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHC----C--------CCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4677888776 2 457889999999999999999998864
No 11
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=89.72 E-value=1.3 Score=26.42 Aligned_cols=38 Identities=18% Similarity=0.285 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 024946 43 KLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTK 92 (260)
Q Consensus 43 ~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~ 92 (260)
+.+++|++.+ | ..++..+.+-|+++++|++.|...|.+
T Consensus 4 ~~v~~L~~mF----P--------~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 4 EALHDLKDMF----P--------NLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHC----C--------CCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4677777765 3 347888999999999999999988753
No 12
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=82.46 E-value=5.6 Score=25.63 Aligned_cols=40 Identities=30% Similarity=0.371 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 024946 41 SRKLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTK 92 (260)
Q Consensus 41 ~~~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~ 92 (260)
-.+-|+.+|+.... .+|.-+.--|+-|+.|..+|.++|..
T Consensus 5 ~rk~VQ~iKEiv~~------------hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 5 SRKTVQSIKEIVGC------------HSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHHHHHHhcC------------CCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 34567777776542 36788999999999999999999975
No 13
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=81.80 E-value=7.6 Score=22.23 Aligned_cols=23 Identities=13% Similarity=0.059 Sum_probs=18.9
Q ss_pred CHHHHHHHHHhcCCCHHHHHHHH
Q 024946 68 DEDMILWFLKDRKFSIEESLAKL 90 (260)
Q Consensus 68 ~d~~llRfLra~~~dv~~A~~~l 90 (260)
+.....+-|+.+++|+++|.+-|
T Consensus 15 ~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 15 SREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp -HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHhC
Confidence 45578999999999999998754
No 14
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=65.38 E-value=87 Score=28.69 Aligned_cols=85 Identities=13% Similarity=0.048 Sum_probs=59.9
Q ss_pred CCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCC---------CHHHHHHHHH
Q 024946 126 DINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENA---------DLKFLTFLFD 196 (260)
Q Consensus 126 D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~---------~~~~~k~~~~ 196 (260)
|....|++++-+|.-. .+.+.++|+++.. +.+. .=-++|++-+|++-..+ +..-++.+++
T Consensus 121 ~~~~~P~vvilpGltg---~S~~~YVr~lv~~---a~~~-----G~r~VVfN~RG~~g~~LtTpr~f~ag~t~Dl~~~v~ 189 (409)
T KOG1838|consen 121 DDGTDPIVVILPGLTG---GSHESYVRHLVHE---AQRK-----GYRVVVFNHRGLGGSKLTTPRLFTAGWTEDLREVVN 189 (409)
T ss_pred CCCCCcEEEEecCCCC---CChhHHHHHHHHH---HHhC-----CcEEEEECCCCCCCCccCCCceeecCCHHHHHHHHH
Confidence 3456699999988632 3455666665543 3222 14578999999875544 3678999999
Q ss_pred HHhccccccccceEEEcCCcchHHHHH
Q 024946 197 VFYYYHPKRLGEVLFVEAPFVFKPFWQ 223 (260)
Q Consensus 197 ~~~~~yP~rl~~i~ivN~p~~~~~~~~ 223 (260)
.+...||.+ +++.+--+.--++++|
T Consensus 190 ~i~~~~P~a--~l~avG~S~Gg~iL~n 214 (409)
T KOG1838|consen 190 HIKKRYPQA--PLFAVGFSMGGNILTN 214 (409)
T ss_pred HHHHhCCCC--ceEEEEecchHHHHHH
Confidence 999999998 8888887766666665
No 15
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=64.70 E-value=1.9 Score=29.71 Aligned_cols=49 Identities=24% Similarity=0.251 Sum_probs=31.3
Q ss_pred CCChHHHHH---HHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 024946 35 QSDPHESRK---LVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKA 93 (260)
Q Consensus 35 ~~~~e~~~~---~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~ 93 (260)
.+++++++. ++.++|+.|.... . ++..|..-|..++||+++|+.-|.+.
T Consensus 19 ~Ls~ed~~~L~~~l~~vr~~Lg~~~---------~-~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 19 ELSPEDQAQLYSCLPQVREVLGDYV---------P-PEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp H-TCHHHHHHCHHCCCHHHHCCCCC------------CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred cCCHHHHHHHHHHHHHHHHHHcccC---------C-CHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 456665543 4455666554321 1 56678899999999999999988764
No 16
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=64.62 E-value=9.4 Score=31.59 Aligned_cols=38 Identities=26% Similarity=0.337 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcC
Q 024946 43 KLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRK 80 (260)
Q Consensus 43 ~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~ 80 (260)
+..+.+|..|...+..||++..+..|--.|||-||-+.
T Consensus 104 Kvm~~ikavLgaTKiDLPVDINDPYDlGLLLRhLRHHS 141 (238)
T PF02084_consen 104 KVMEDIKAVLGATKIDLPVDINDPYDLGLLLRHLRHHS 141 (238)
T ss_pred HHHHHHHHHhcccccccccccCChhhHHHHHHHHHHHH
Confidence 46678888888888899998888888899999998664
No 17
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=63.46 E-value=15 Score=20.92 Aligned_cols=24 Identities=13% Similarity=0.097 Sum_probs=20.7
Q ss_pred CHHHHHHHHHhcCCCHHHHHHHHH
Q 024946 68 DEDMILWFLKDRKFSIEESLAKLT 91 (260)
Q Consensus 68 ~d~~llRfLra~~~dv~~A~~~l~ 91 (260)
+.....+-|+.+++|+++|...|.
T Consensus 14 ~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 14 SREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHh
Confidence 478899999999999999987653
No 18
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=63.18 E-value=15 Score=20.78 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=19.6
Q ss_pred CHHHHHHHHHhcCCCHHHHHHHH
Q 024946 68 DEDMILWFLKDRKFSIEESLAKL 90 (260)
Q Consensus 68 ~d~~llRfLra~~~dv~~A~~~l 90 (260)
++....+-|+.+++|+++|..-|
T Consensus 14 ~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 14 SREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHH
Confidence 46689999999999999998654
No 19
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=59.50 E-value=47 Score=21.74 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=24.5
Q ss_pred CCHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 024946 67 DDEDMILWFLKDRKFSIEESLAKLTKAI 94 (260)
Q Consensus 67 ~~d~~llRfLra~~~dv~~A~~~l~~~~ 94 (260)
.+..|-.+.|..++||.++|.+.+.+..
T Consensus 25 mn~~~s~~cLe~~~Wd~~~Al~~F~~lk 52 (63)
T smart00804 25 MNAEYSQMCLEDNNWDYERALKNFTELK 52 (63)
T ss_pred CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 4678999999999999999999887753
No 20
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=56.94 E-value=6 Score=32.86 Aligned_cols=64 Identities=16% Similarity=0.127 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhC------CCCccceEEEEeCCCCC--CCCCCHHHHHHHHHHHhccccccccceEEEcCCcchH
Q 024946 153 LCVFFIEKALSKL------PPGKEQILGIIDLRGFG--TENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFK 219 (260)
Q Consensus 153 ~~~~~~E~~~~~~------~~~~~~~~~IiD~~g~~--~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~ 219 (260)
.++||+|..+... .+..++--+|+|+-|-= +.|+ .+++++++-++. .-.++..+|++.+++++.
T Consensus 74 gLv~cmEyl~~NldwL~~~~Gd~eddylifDcPGQIELytH~--pVm~~iv~hl~~-~~F~~c~Vylldsqf~vD 145 (273)
T KOG1534|consen 74 GLVYCMEYLLENLDWLEEEIGDVEDDYLIFDCPGQIELYTHL--PVMPQIVEHLKQ-WNFNVCVVYLLDSQFLVD 145 (273)
T ss_pred cchhHHHHHHHHHHHHHhhccCccCCEEEEeCCCeeEEeecC--hhHHHHHHHHhc-ccCceeEEEEeccchhhh
Confidence 4678888876522 23356777899998854 3444 455666665665 446778888888777654
No 21
>KOG2267 consensus Eukaryotic-type DNA primase, large subunit [Replication, recombination and repair]
Probab=55.90 E-value=31 Score=31.24 Aligned_cols=46 Identities=28% Similarity=0.317 Sum_probs=36.8
Q ss_pred HHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 024946 44 LVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIK 95 (260)
Q Consensus 44 ~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~ 95 (260)
++++|.+.|.+++ +| .+.....+-=||.+.+..+++|.+.++.-++
T Consensus 290 Cmk~lhe~LrkNh-HL-----ry~gR~qygLFLKgiGLS~deal~fwr~sFt 335 (475)
T KOG2267|consen 290 CMKQLHERLRKNH-HL-----RYGGRQQYGLFLKGIGLSVDEALAFWRGSFT 335 (475)
T ss_pred HHHHHHHHHhhcc-cc-----cccchhhhhhhhhccCcCHHHHHHHHHHHHh
Confidence 7889999998764 55 3566777888999999999999998665543
No 22
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=55.44 E-value=42 Score=22.45 Aligned_cols=48 Identities=17% Similarity=0.143 Sum_probs=32.3
Q ss_pred EEEEeCCCCCCCCCCHHHHHHHHHHHhcccc--ccccceEEEcCCcchHHHH
Q 024946 173 LGIIDLRGFGTENADLKFLTFLFDVFYYYHP--KRLGEVLFVEAPFVFKPFW 222 (260)
Q Consensus 173 ~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP--~rl~~i~ivN~p~~~~~~~ 222 (260)
.+++|++|+. .+..+++-.++.-+...|+ +.-.++.++|++.....+.
T Consensus 19 ~V~lDF~gv~--~~~ssFl~eafg~l~~~~~~~~~~~~l~~~~~~~~~~~~I 68 (74)
T PF14213_consen 19 KVVLDFEGVE--SITSSFLNEAFGQLVREFGEEEIKKRLKFKNANESIKEMI 68 (74)
T ss_pred eEEEECCCcc--cccHHHHHHHHHHHHHHcCHHHHhheeEEecCCHHHHHHH
Confidence 3899999984 3445666666666666666 4556788888876655433
No 23
>PF11339 DUF3141: Protein of unknown function (DUF3141); InterPro: IPR024501 This family of proteins appears to be predominantly expressed in Proteobacteria. Their function is unknown.
Probab=54.47 E-value=72 Score=30.25 Aligned_cols=78 Identities=15% Similarity=0.190 Sum_probs=53.0
Q ss_pred CCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhccccccccc
Q 024946 129 ERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYYYHPKRLGE 208 (260)
Q Consensus 129 Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP~rl~~ 208 (260)
|+||+++..-.......+.+|+.++..-.+|.....-+.. ...++|-+|.| -..+.++...+|+.++-
T Consensus 100 GHPvYFV~F~p~P~pgQTl~DV~~ae~~Fv~~V~~~hp~~-~kp~liGnCQg-----------GWa~~mlAA~~Pd~~gp 167 (581)
T PF11339_consen 100 GHPVYFVGFFPEPEPGQTLEDVMRAEAAFVEEVAERHPDA-PKPNLIGNCQG-----------GWAAMMLAALRPDLVGP 167 (581)
T ss_pred CCCeEEEEecCCCCCCCcHHHHHHHHHHHHHHHHHhCCCC-CCceEEeccHH-----------HHHHHHHHhcCcCccCc
Confidence 5565555433322234578888888888888876654433 37788888864 23455678899999999
Q ss_pred eEEEcCCcch
Q 024946 209 VLFVEAPFVF 218 (260)
Q Consensus 209 i~ivN~p~~~ 218 (260)
+.+--+|--.
T Consensus 168 lvlaGaPlsy 177 (581)
T PF11339_consen 168 LVLAGAPLSY 177 (581)
T ss_pred eeecCCCccc
Confidence 9888888654
No 24
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=50.19 E-value=38 Score=19.94 Aligned_cols=24 Identities=4% Similarity=0.191 Sum_probs=20.3
Q ss_pred CCHHHHHHHHHhcCCCHHHHHHHH
Q 024946 67 DDEDMILWFLKDRKFSIEESLAKL 90 (260)
Q Consensus 67 ~~d~~llRfLra~~~dv~~A~~~l 90 (260)
.....|-.-|++|++|+-+|.+.+
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHh
Confidence 356778889999999999999865
No 25
>PF09590 Env-gp36: Lentivirus surface glycoprotein; InterPro: IPR018582 The proteins in this family are envelope glycoproteins from feline immunodeficiency retrovirus. The process of lentiviral envelope glycoprotein-mediated fusion of membranes is essential for viral entry and syncytia formation [].
Probab=48.15 E-value=78 Score=29.82 Aligned_cols=64 Identities=11% Similarity=0.174 Sum_probs=43.5
Q ss_pred CCCCChHHHHH-------HHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHH---hhhcC
Q 024946 33 NCQSDPHESRK-------LVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKW---RQEFR 101 (260)
Q Consensus 33 ~~~~~~e~~~~-------~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~w---R~~~~ 101 (260)
+++.|++++++ .++++|+.+.+. .|-.+ .--...=.||||..+.++-.-...+..++.. |.+.|
T Consensus 40 ~pGiT~~eKqe~ckiLQp~Lq~iK~e~~Eg--kl~~~---~~GK~rr~R~lrysd~~v~~~~~l~~g~~~Yl~~r~~lG 113 (591)
T PF09590_consen 40 VPGITPQEKQEYCKILQPKLQEIKQEMQEG--KLEEG---NAGKFRRARYLRYSDEQVLSIVYLFVGYCRYLYDRNKLG 113 (591)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHhcc--ccccC---CcchhhhhhHhhhhHHHHHHHHHHHhhhhhcccchhhcC
Confidence 56788877665 567788777543 22211 2223456899999999999888887777666 66666
No 26
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=47.29 E-value=95 Score=21.89 Aligned_cols=76 Identities=13% Similarity=0.050 Sum_probs=51.5
Q ss_pred CChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCC-CCCCCCCCHHHHHHHHHHHhccccccccceEEEcCCcchHHHHH
Q 024946 145 HDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLR-GFGTENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQ 223 (260)
Q Consensus 145 ~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~-g~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~ 223 (260)
.+.+++.+ +.-.++..+. ....+.+++|++ ++ ..+++.......+.... ....++++=||-.+.+...+.+
T Consensus 11 ~t~ed~~~-~~~~~~~~~~----~~~~~~ll~d~~~~~--~~~~~~a~~~~~~~~~~-~~~~~~r~AvV~~~~~~~~~~~ 82 (109)
T PF11964_consen 11 LTEEDYKE-LLPALEELIA----DHGKIRLLVDLRRDF--EGWSPEARWEDAKFGLK-HLKHFRRIAVVGDSEWIRMIAN 82 (109)
T ss_dssp E-HHHHHH-HHHHHHHHHT----TSSSEEEEEEEC-CE--EEEHHHHHHHHHHHHCC-CCGGEEEEEEE-SSCCCHHHHH
T ss_pred eCHHHHHH-HHHHHHHHHh----cCCceEEEEEecCcc--CCCCHHHHHHHHHhchh-hhcccCEEEEEECcHHHHHHHH
Confidence 45677777 4444444443 344688899988 54 33345555555555444 8888999999999999999999
Q ss_pred Hhhhc
Q 024946 224 LTKPL 228 (260)
Q Consensus 224 ~vkpf 228 (260)
++.+|
T Consensus 83 ~~~~~ 87 (109)
T PF11964_consen 83 FFAAF 87 (109)
T ss_dssp HHHHH
T ss_pred HHHhc
Confidence 99996
No 27
>cd07322 PriL_PriS_Eukaryotic Eukaryotic core primase: Large subunit, PriL. Primases synthesize the RNA primers required for DNA replication. Primases are grouped into two classes, bacteria/bacteriophage and archaeal/eukaryotic. The proteins in the two classes differ in structure and the replication apparatus components. Archaeal/eukaryotic core primase is a heterodimeric enzyme consisting of a small catalytic subunit (PriS) and a large subunit (PriL). In eukaryotic organisms, a heterotetrameric enzyme formed by DNA polymerase alpha, the B subunit and two primase subunits has primase activity. Although the catalytic activity resides within PriS, the PriL subunit is essential for primase function as disruption of the PriL gene in yeast is lethal. PriL is composed of two structural domains. Several functions have been proposed for PriL such as stabilization of the PriS, involvement in synthesis initiation, improvement of primase processivity, determination of product size and transfer of
Probab=47.17 E-value=1.3e+02 Score=27.34 Aligned_cols=44 Identities=27% Similarity=0.302 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 024946 44 LVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKA 93 (260)
Q Consensus 44 ~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~ 93 (260)
++..+-+.+.+. .+|+ .....-+--||.+.+.++++|.+-++..
T Consensus 227 Cm~~l~~~l~~~-~hL~-----h~gR~ql~lFLk~iGl~~~e~l~~~~~~ 270 (390)
T cd07322 227 CMRQLHEALRKN-HHLK-----HGGRLQLGLFLKGIGLSLEEALKFWRSE 270 (390)
T ss_pred HHHHHHHHHhcC-CCCC-----chhHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence 667777777654 4564 6678889999999999999999987765
No 28
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=42.43 E-value=20 Score=31.83 Aligned_cols=26 Identities=23% Similarity=0.509 Sum_probs=21.9
Q ss_pred CCCCHHHHHHHHHhcCCCHHHHHHHH
Q 024946 65 GRDDEDMILWFLKDRKFSIEESLAKL 90 (260)
Q Consensus 65 ~~~~d~~llRfLra~~~dv~~A~~~l 90 (260)
..+-+..++|-|.+++|||++|.+-+
T Consensus 140 GEDVENillkLlqaadydV~rAerGI 165 (408)
T COG1219 140 GEDVENILLKLLQAADYDVERAERGI 165 (408)
T ss_pred chhHHHHHHHHHHHcccCHHHHhCCe
Confidence 44557899999999999999998655
No 29
>TIGR02364 dha_pts dihydroxyacetone kinase, phosphotransfer subunit. In E. coli and many other bacteria, unlike the yeasts and a few bacteria such as Citrobacter freundii, the dihydroxyacetone kinase (also called glycerone kinase) transfers a phosphate from a phosphoprotein rather than from ATP and contains multiple subunits. This protein, which resembles proteins of PTS transport systems, is found with its gene adjacent to
Probab=41.46 E-value=80 Score=23.70 Aligned_cols=63 Identities=22% Similarity=0.280 Sum_probs=39.6
Q ss_pred HHHHHhCCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhccccccccceEEEcCCcchHHHHHHhhhccc
Q 024946 159 EKALSKLPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLK 230 (260)
Q Consensus 159 E~~~~~~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL~ 230 (260)
+.++.+.....++++++.|+ |-+..+. +. .+.++. ++..+.+..+|.|.+...+-..+.--..
T Consensus 49 ~~ai~~~~~~~dgVlvl~DL-Ggs~~n~--e~---a~~~l~---~~~~~~v~g~nlPlvega~~aa~~~~~g 111 (125)
T TIGR02364 49 IEAIEKADNEADGVLIFYDL-GSAVMNA--EM---AVELLE---DEDRDKVHLVDAPLVEGAFAAAVEAQVG 111 (125)
T ss_pred HHHHHHhcCCCCCEEEEEcC-CCcHhHH--HH---HHHHhc---cccccEEEEechhHHHHHHHHHHHHcCC
Confidence 33344432325699999999 6553321 11 222222 4666889999999999988887765433
No 30
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=35.35 E-value=1.3e+02 Score=23.69 Aligned_cols=106 Identities=15% Similarity=0.238 Sum_probs=63.1
Q ss_pred CCCCChHHHHHHHHHHHHHHHhccCCCCC-----CC---CCCCCHHHHHHHHHh-cCCCHHHHHHHHHHHHHHhhhcC--
Q 024946 33 NCQSDPHESRKLVLQVKERLEKDYNSLPV-----GK---NGRDDEDMILWFLKD-RKFSIEESLAKLTKAIKWRQEFR-- 101 (260)
Q Consensus 33 ~~~~~~e~~~~~i~elr~~l~~~~~~lp~-----~~---~~~~~d~~llRfLra-~~~dv~~A~~~l~~~~~wR~~~~-- 101 (260)
-++ ++++.++++++|++...+....+-. ++ ....-..++-+|+.. +.-.+.+|+=.-...++.++-..
T Consensus 22 ~l~-~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~~~~~~v~~~~~~~~~~~LS~aalEtLAiIAY~QPiTr~ 100 (159)
T PF04079_consen 22 ILG-SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKPEYAEYVEKLFKKPKPPKLSQAALETLAIIAYKQPITRA 100 (159)
T ss_dssp HCT--HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-GGGHHHHHHHHCTCCCHHHHHHHHHHHHHHHHH-SEEHH
T ss_pred HhC-CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhHHHHHHHHHHhccCccCCCCHHHHHHHHHHHhcCCcCHH
Confidence 455 6778888999999999654322211 00 022335677888777 44456666666667777775211
Q ss_pred -CCC---CC-hhhHHHHHhcCceeeccCCCCCCCcEEEEecCc
Q 024946 102 -VSE---LN-EDSVRGIAESGKAYVHDFLDINERPVLIVVASK 139 (260)
Q Consensus 102 -~~~---i~-~~~~~~~l~~~~~~~~g~~D~~Grpv~~~~~~~ 139 (260)
+++ .+ ...+...++.|.+-..|..|..|||++|--..+
T Consensus 101 eIe~IRGv~s~~~i~~L~e~glI~~~gr~~~~Grp~ly~tT~~ 143 (159)
T PF04079_consen 101 EIEEIRGVNSDSVIKTLLERGLIEEVGRKDTPGRPILYGTTDK 143 (159)
T ss_dssp HHHHHHTS--HCHHHHHHHTTSEEEEEE-TTTT--EEEEE-HH
T ss_pred HHHHHcCCChHHHHHHHHHCCCEEecCcCCCCCCCeEeehhHH
Confidence 111 22 234677788999999997788999999987554
No 31
>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]
Probab=34.61 E-value=75 Score=28.13 Aligned_cols=50 Identities=20% Similarity=0.288 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCChhhHHHHHhcCceeeccCCCCCCCc
Q 024946 82 SIEESLAKLTKAIKWRQEFRVSELNEDSVRGIAESGKAYVHDFLDINERP 131 (260)
Q Consensus 82 dv~~A~~~l~~~~~wR~~~~~~~i~~~~~~~~l~~~~~~~~g~~D~~Grp 131 (260)
..+...++++++..|-.+-..-.+.+-+....-....+++|++.|-+||-
T Consensus 333 ~P~dv~~qmq~fv~WLNsE~~~tlhPve~AAlAHYKLV~iHPF~DGNGRT 382 (472)
T KOG3824|consen 333 SPEDVMEQMQDFVDWLNSESTLTLHPVERAALAHYKLVLIHPFTDGNGRT 382 (472)
T ss_pred ChHHHHHHHHHHHHHhccccccccChHHHHHHhhheeEEEeccccCCchH
Confidence 45667788899999986654444555444444455678899998999984
No 32
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=33.45 E-value=2.3e+02 Score=24.69 Aligned_cols=63 Identities=11% Similarity=0.069 Sum_probs=48.3
Q ss_pred CChHHHHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhhcCCC
Q 024946 36 SDPHESRKLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKWRQEFRVS 103 (260)
Q Consensus 36 ~~~e~~~~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~wR~~~~~~ 103 (260)
++.+++...-.++-+.+++.++-|. ..+|-.+.-+|-.++-+++.-.+.+..++++-++.++.
T Consensus 113 ~~~~~~~~ra~~iy~~mKk~H~fLT-----s~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~ 175 (297)
T PF13170_consen 113 EDYDEIIQRAKEIYKEMKKKHPFLT-----SPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFK 175 (297)
T ss_pred ccHHHHHHHHHHHHHHHHHhCcccc-----CccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCC
Confidence 3445555566788888888877665 34566666778888889999999999999999887754
No 33
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=32.09 E-value=77 Score=18.51 Aligned_cols=22 Identities=14% Similarity=0.073 Sum_probs=18.3
Q ss_pred HHHHHHHHHhcCCCHHHHHHHH
Q 024946 69 EDMILWFLKDRKFSIEESLAKL 90 (260)
Q Consensus 69 d~~llRfLra~~~dv~~A~~~l 90 (260)
..++..-|..++||+.+|++.|
T Consensus 7 ~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 7 KQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHhCCCHHHHHHHH
Confidence 4678889999999999999987
No 34
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=31.53 E-value=2.3e+02 Score=28.49 Aligned_cols=75 Identities=20% Similarity=0.282 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHH-------hhhcCCCCCChhhHHHHH--
Q 024946 44 LVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKW-------RQEFRVSELNEDSVRGIA-- 114 (260)
Q Consensus 44 ~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~w-------R~~~~~~~i~~~~~~~~l-- 114 (260)
.|+||-+++-.+. ++ ....|-..+||+ |++.|+..-+. ..+++...+..+++...+
T Consensus 38 yI~ELs~Mvp~~~-~~----~RK~DK~tVLr~----------aV~~lr~~k~~~~~~~~~~~d~KpSflS~~eL~~LmLe 102 (803)
T KOG3561|consen 38 YIEELSEMVPTNA-SL----SRKPDKLTVLRM----------AVDHLRLIKEQESENSSIDQDYKPSFLSNDELTHLILE 102 (803)
T ss_pred HHHHHHHhhhcch-hc----ccCchHHHHHHH----------HHHHHHHHhhhhcccccccccccccccchHHHHHHHHH
Confidence 4555555553321 11 134566667765 55555555443 112334445556655432
Q ss_pred -hcCceeeccCCCCCCCcEEEEe
Q 024946 115 -ESGKAYVHDFLDINERPVLIVV 136 (260)
Q Consensus 115 -~~~~~~~~g~~D~~Grpv~~~~ 136 (260)
-.|.+++.+ +| |+.|+|-.
T Consensus 103 AlDGF~fvV~-cd--G~IvyVSe 122 (803)
T KOG3561|consen 103 ALDGFLFVVN-CD--GRIVYVSE 122 (803)
T ss_pred HhcCeEEEEe-cC--ceEEEEec
Confidence 478888887 66 99888863
No 35
>PF04378 RsmJ: Ribosomal RNA small subunit methyltransferase D, RsmJ; InterPro: IPR007473 This is a bacterial protein of unknown function, possibly secreted.; PDB: 2OO3_A.
Probab=30.86 E-value=30 Score=29.37 Aligned_cols=26 Identities=15% Similarity=0.310 Sum_probs=19.3
Q ss_pred cceEEEcCCcchHHHHHHhhhccccc
Q 024946 207 GEVLFVEAPFVFKPFWQLTKPLLKSY 232 (260)
Q Consensus 207 ~~i~ivN~p~~~~~~~~~vkpfL~~~ 232 (260)
..++|||+||-+....+-+-|+|.+.
T Consensus 206 SGm~iiNPPw~l~~~l~~~l~~L~~~ 231 (245)
T PF04378_consen 206 SGMLIINPPWTLDEELEEILPWLAET 231 (245)
T ss_dssp EEEEEES--TTHHHHHHHHHHHHHHH
T ss_pred ceEEEEcCCccHHHHHHHHHHHHHHH
Confidence 35999999999998888887777653
No 36
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=30.80 E-value=34 Score=29.14 Aligned_cols=26 Identities=12% Similarity=0.394 Sum_probs=22.4
Q ss_pred cceEEEcCCcchHHHHHHhhhccccc
Q 024946 207 GEVLFVEAPFVFKPFWQLTKPLLKSY 232 (260)
Q Consensus 207 ~~i~ivN~p~~~~~~~~~vkpfL~~~ 232 (260)
..++|||+||-+..-...+-|+|...
T Consensus 237 SGMivINPPwtle~ql~~~LP~L~~~ 262 (279)
T COG2961 237 SGMIVINPPWTLEQQLRAALPWLTTL 262 (279)
T ss_pred eeEEEECCCccHHHHHHHHHHHHHHH
Confidence 36999999999999888888888764
No 37
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=29.57 E-value=43 Score=20.81 Aligned_cols=26 Identities=12% Similarity=0.202 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHhcCCCHHHHHHHHHH
Q 024946 67 DDEDMILWFLKDRKFSIEESLAKLTK 92 (260)
Q Consensus 67 ~~d~~llRfLra~~~dv~~A~~~l~~ 92 (260)
.+..|-.+.|..++||.++|.+.+.+
T Consensus 13 mn~~~s~~CL~~n~Wd~~~A~~~F~~ 38 (51)
T PF03943_consen 13 MNLEWSQKCLEENNWDYERALQNFEE 38 (51)
T ss_dssp S-CCHHHHHHHHTTT-CCHHHHHHHH
T ss_pred CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 35578899999999999999988764
No 38
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=29.37 E-value=1.3e+02 Score=22.67 Aligned_cols=57 Identities=19% Similarity=0.292 Sum_probs=34.9
Q ss_pred HHHHhCCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhccccccccceEEEcCCcchHHHHHHhhhcc
Q 024946 160 KALSKLPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLL 229 (260)
Q Consensus 160 ~~~~~~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~vkpfL 229 (260)
.++.+... +|++++.|+ |-+..| ....+..+ .+- .+++++++|..=..+-..+.-..
T Consensus 50 ~ai~~~~~--dGVlVltDL-Gssp~n-----~~~a~e~~----~~~-~~v~~~daPlVEGa~~Aav~~~~ 106 (124)
T PRK14484 50 EAIEKNES--DGVLIFFDL-GSAEMN-----AEMAIEML----DGE-KKIIIIDAPIVEGAFTAAVLLSA 106 (124)
T ss_pred HHHHhcCc--CCeEEEEeC-CChHHH-----HHHHHHhc----CCC-CcEEEECCcHHHHHHHHHHHHcC
Confidence 33444433 899999999 655333 11122222 222 89999999988776666665443
No 39
>PF11385 DUF3189: Protein of unknown function (DUF3189); InterPro: IPR021525 This family of proteins with unknown function appears to be restricted to Firmicutes
Probab=28.31 E-value=2.3e+02 Score=22.01 Aligned_cols=54 Identities=13% Similarity=0.045 Sum_probs=35.2
Q ss_pred hcCceeeccCCCCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHHHhCCCCccceEEEEeCCC
Q 024946 115 ESGKAYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRG 180 (260)
Q Consensus 115 ~~~~~~~~g~~D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~~~~~~~~~~~~~IiD~~g 180 (260)
+.|..+..| .|..|+.|+++-.+.. .+.+.+++.-+++..- . ..+=++++|+..
T Consensus 48 d~G~l~y~G-~De~gn~VY~lG~~~~------~~~~~~al~~l~~i~~----~-~~~~i~~vdt~~ 101 (148)
T PF11385_consen 48 DIGRLIYMG-TDEYGNEVYILGRKNN------GKIVERALKSLLEILG----I-ENEEIILVDTSP 101 (148)
T ss_pred cCceEEEEE-EcCCCCEEEEEecCCh------HHHHHHHHHHHHHHhC----C-CCCcEEEEeccc
Confidence 567888999 8999999999976652 2445555555554431 1 134557778653
No 40
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=27.82 E-value=87 Score=21.60 Aligned_cols=23 Identities=13% Similarity=0.273 Sum_probs=18.2
Q ss_pred CCCCChHHHHHHHHHHHHHHHhc
Q 024946 33 NCQSDPHESRKLVLQVKERLEKD 55 (260)
Q Consensus 33 ~~~~~~e~~~~~i~elr~~l~~~ 55 (260)
..+.|+|++++.|++|++.+...
T Consensus 49 gi~~s~eeq~~~i~~Le~~i~~k 71 (83)
T PF07544_consen 49 GIDRSVEEQEEEIEELEEQIRKK 71 (83)
T ss_pred CccCCHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888654
No 41
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=27.02 E-value=2.7e+02 Score=23.80 Aligned_cols=117 Identities=14% Similarity=0.066 Sum_probs=61.1
Q ss_pred CCCCCcEEEEecC--ccC-C--CC------CChhhhhH--------HHHHHHHHHHH-------hCCCCccceEEEEeCC
Q 024946 126 DINERPVLIVVAS--KHL-P--AV------HDPVEDEK--------LCVFFIEKALS-------KLPPGKEQILGIIDLR 179 (260)
Q Consensus 126 D~~Grpv~~~~~~--~~~-~--~~------~~~~~~~r--------~~~~~~E~~~~-------~~~~~~~~~~~IiD~~ 179 (260)
..-||++.+++.- +.. + -. .+.++++. .+.|++|..-. ..+. -.+--+++|+-
T Consensus 27 s~~gr~~~vVNLDPaNd~~~Y~~~v~I~elit~edvm~~~~LGPNg~l~yc~E~l~~~idwl~~~l~~-~~~~Y~lFDcP 105 (290)
T KOG1533|consen 27 SAIGRPVAVVNLDPANDNLPYECAVDIRELITVEDVMEELGLGPNGALKYCMEYLEANIDWLLEKLKP-LTDHYVLFDCP 105 (290)
T ss_pred HHhCCceEEEecCCcccCCCCCCcccHHHHccHHHHHHHhCCCCchhHHHHHHHHHhhhHHHHHHhhh-ccCcEEEEeCC
Confidence 4568988888743 311 1 11 23344443 36677776532 2222 34566899998
Q ss_pred CCC--CCCC--CHHHHHHHHHHHhcccc---ccccceEEEcCCcchHHHHHHhhhccccccCeEEEccchhhh
Q 024946 180 GFG--TENA--DLKFLTFLFDVFYYYHP---KRLGEVLFVEAPFVFKPFWQLTKPLLKSYASLAKFCSVETVR 245 (260)
Q Consensus 180 g~~--~~~~--~~~~~k~~~~~~~~~yP---~rl~~i~ivN~p~~~~~~~~~vkpfL~~~t~ki~~~~~~~ll 245 (260)
|-- ..+- ..++++.+.+ .++=+ ..+...|.-|+..+++++....+.++.=....|.++++-+++
T Consensus 106 GQVELft~h~~l~~I~~~Lek--~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tMl~melphVNvlSK~Dl~ 176 (290)
T KOG1533|consen 106 GQVELFTHHDSLNKIFRKLEK--LDYRLVAVNLIDSHYCSDPSKFISSLLVSLATMLHMELPHVNVLSKADLL 176 (290)
T ss_pred CcEEEEeccchHHHHHHHHHH--cCceEEEEEeeeceeeCChHHHHHHHHHHHHHHHhhcccchhhhhHhHHH
Confidence 865 2222 2355555544 11111 123344555777777777766666654333445555554443
No 42
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=26.68 E-value=2.4e+02 Score=20.20 Aligned_cols=50 Identities=18% Similarity=0.170 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhCCCCccceEEEEeCCCCCCCCCCHHHHHHHHHHHhccccccccceEEEc
Q 024946 153 LCVFFIEKALSKLPPGKEQILGIIDLRGFGTENADLKFLTFLFDVFYYYHPKRLGEVLFVE 213 (260)
Q Consensus 153 ~~~~~~E~~~~~~~~~~~~~~~IiD~~g~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~ivN 213 (260)
+-...++.++...+ ...++.|=|-. +-|+.....+ ...||+++..|||=+
T Consensus 50 ~K~~~i~~i~~~fP--~~kfiLIGDsg-----q~DpeiY~~i----a~~~P~~i~ai~IR~ 99 (100)
T PF09949_consen 50 HKRDNIERILRDFP--ERKFILIGDSG-----QHDPEIYAEI----ARRFPGRILAIYIRD 99 (100)
T ss_pred HHHHHHHHHHHHCC--CCcEEEEeeCC-----CcCHHHHHHH----HHHCCCCEEEEEEEe
Confidence 44566777777654 34899999964 4667776665 457899999999844
No 43
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=25.79 E-value=2.3e+02 Score=19.76 Aligned_cols=49 Identities=16% Similarity=0.212 Sum_probs=32.8
Q ss_pred eEEEEeCCCCCCCCCC-HHHHHHHHHHHhccccccccceEEEcCCcchHHHHHH
Q 024946 172 ILGIIDLRGFGTENAD-LKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQL 224 (260)
Q Consensus 172 ~~~IiD~~g~~~~~~~-~~~~k~~~~~~~~~yP~rl~~i~ivN~p~~~~~~~~~ 224 (260)
-.+|+|+++++.-..+ ...+..+.+-++ .+=.+++++|.+.-+.-++..
T Consensus 40 ~~vilDls~v~~iDssgi~~L~~~~~~~~----~~g~~l~l~~~~~~v~~~l~~ 89 (106)
T TIGR02886 40 KHLILNLKNVTFMDSSGLGVILGRYKKIK----NEGGEVIVCNVSPAVKRLFEL 89 (106)
T ss_pred CEEEEECCCCcEecchHHHHHHHHHHHHH----HcCCEEEEEeCCHHHHHHHHH
Confidence 4689999998865543 454444444443 244789999998877766654
No 44
>PF14048 MBD_C: C-terminal domain of methyl-CpG binding protein 2 and 3; PDB: 2L2L_B.
Probab=25.26 E-value=84 Score=22.50 Aligned_cols=50 Identities=18% Similarity=0.195 Sum_probs=12.1
Q ss_pred ccccccCCCccccccccCCCCCcc---CCCCCCCCChH---HHHHHHHHHHHHHHh
Q 024946 5 TCQNFASPFVSSIKLTKKPIRNFK---APVKNCQSDPH---ESRKLVLQVKERLEK 54 (260)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~p~~~~~---~~~~~~~~~~e---~~~~~i~elr~~l~~ 54 (260)
+++++..|++++..+=.+|....- |.-+...-|++ .+++.+.+.|++|++
T Consensus 39 ~~~Pi~gQ~~~~~~~e~~P~~~~~~~QPLc~~~~VT~eDIr~QE~rVk~aR~RLae 94 (96)
T PF14048_consen 39 SSQPITGQTSSKDALEKNPGVGLNPPQPLCKQFVVTEEDIRRQERRVKKARKRLAE 94 (96)
T ss_dssp ------------------------------T-----HHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCcCCccchhhhccCcccccCCCcccccCCccCHHHHHHHHHHHHHHHHHHHH
Confidence 445677777777777777755532 22222223444 455678888888865
No 45
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=25.16 E-value=1.7e+02 Score=25.00 Aligned_cols=57 Identities=16% Similarity=0.179 Sum_probs=44.6
Q ss_pred ChHHHHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhhcC
Q 024946 37 DPHESRKLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKWRQEFR 101 (260)
Q Consensus 37 ~~e~~~~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~wR~~~~ 101 (260)
-|++..+.+++.|+.+-+.- ...||..+-|||-.-..+.++-.+.|++.+.-+.-++
T Consensus 188 ip~~~~~~~~~~r~~l~e~v--------ae~dd~L~e~yl~~~~~~~~el~~~l~~~~~~~~~~P 244 (270)
T cd01886 188 IPEDLLEEAEEAREELIETL--------AEFDDELMEKYLEGEEITEEEIKAAIRKGTIANKIVP 244 (270)
T ss_pred CCHHHHHHHHHHHHHHHHHH--------hcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHcCcEEE
Confidence 35666677888888886542 2468999999999999999999999998877666555
No 46
>COG2994 HlyC ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]
Probab=23.88 E-value=1.2e+02 Score=23.34 Aligned_cols=80 Identities=18% Similarity=0.117 Sum_probs=43.3
Q ss_pred HHHHhcCceeeccCCCCCCCcEEEEecCccCCCCCChhhhhHHHHHHHHHHH--HhCCCCccceEEEEeCCCCCCCCCCH
Q 024946 111 RGIAESGKAYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKAL--SKLPPGKEQILGIIDLRGFGTENADL 188 (260)
Q Consensus 111 ~~~l~~~~~~~~g~~D~~Grpv~~~~~~~~~~~~~~~~~~~r~~~~~~E~~~--~~~~~~~~~~~~IiD~~g~~~~~~~~ 188 (260)
...++.|.+.+. +|++|+||.+..-+..+. +.-.+ .+|... +-.+-.+++-+.|+|.= .+.
T Consensus 46 LPalk~~Qf~ly--~de~g~Piaf~~WA~vde-----~~e~~----lL~~~~~l~p~dW~SG~~iwii~~i------APf 108 (148)
T COG2994 46 LPALKLGQFALY--FDEHGRPIAFCTWAFVDE-----QAEEE----LLENDRNLSPEDWASGNNIWIIDWI------APF 108 (148)
T ss_pred hHHHhcCceEEE--EcCCCCeeEEEEEeecCH-----HHHHH----HHhCCCCCChhhccCCCeeEEEEEE------ccC
Confidence 344556654443 699999999987665432 11111 111110 00112345667788862 233
Q ss_pred HHHHHHH-HHHhcccccccc
Q 024946 189 KFLTFLF-DVFYYYHPKRLG 207 (260)
Q Consensus 189 ~~~k~~~-~~~~~~yP~rl~ 207 (260)
.-.+.+. ++.++.||.+..
T Consensus 109 Gh~r~~~~dl~~~lFp~~~v 128 (148)
T COG2994 109 GHSRQMVKDLHRNLFPDRTV 128 (148)
T ss_pred CchHHHHHHHHHHhCchhhh
Confidence 4445555 788999998843
No 47
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=21.80 E-value=2.2e+02 Score=27.67 Aligned_cols=48 Identities=15% Similarity=0.142 Sum_probs=32.7
Q ss_pred HHHHHHHHhhhcCC-CCCChhhHHHHHhcCceeeccCCCCCCCcEEEEe
Q 024946 89 KLTKAIKWRQEFRV-SELNEDSVRGIAESGKAYVHDFLDINERPVLIVV 136 (260)
Q Consensus 89 ~l~~~~~wR~~~~~-~~i~~~~~~~~l~~~~~~~~g~~D~~Grpv~~~~ 136 (260)
.+....+.|..... +.++.+++...++.-...-.++...+|||+++--
T Consensus 557 ~~las~ACr~AIk~g~~Ls~~E~~~Ll~~L~~~~~P~~CPHGRPt~i~l 605 (617)
T PRK00095 557 ELLATMACHGAIRAGRRLTLEEMNALLRQLEATENPGTCPHGRPTYIEL 605 (617)
T ss_pred HHHHHHHHHHhhhccCCCCHHHHHHHHHHHHhcccccCCCCCCeeEEEC
Confidence 56677777877664 5577777776665433344556788999999863
No 48
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=21.50 E-value=2.4e+02 Score=25.52 Aligned_cols=36 Identities=28% Similarity=0.377 Sum_probs=24.8
Q ss_pred CCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 024946 57 NSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKA 93 (260)
Q Consensus 57 ~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~ 93 (260)
+.+|.|- ..-|+.-.|--|.-|+||.++|.++++-.
T Consensus 234 p~~P~gt-~vkDnEqAL~~LvkcnfDteeAlrr~rfn 269 (445)
T KOG4329|consen 234 PCPPEGT-EVKDNEQALYELVKCNFDTEEALRRLRFN 269 (445)
T ss_pred CCCCccc-cccccHHHHHHHHHcCCcHHHHHHhcCCc
Confidence 4455443 23455667778899999999999876533
No 49
>PF10542 Vitelline_membr: Vitelline membrane cysteine-rich region; InterPro: IPR013135 In Drosophila melanogaster (Fruit fly) the vitelline membrane (VM) is the first layer of the eggshell produced by the follicular epithelium. It is composed of at least four different proteins. VM proteins are similarly organised with a central highly conserved 38-amino acid domain which is flanked by unrelated regions. Since the surrounding regions have diverged significantly, it is possible that the VM domain is of key importance in VM protein structure [, ]. The VM domain contains three highly conserved cysteines.
Probab=21.32 E-value=46 Score=19.07 Aligned_cols=14 Identities=14% Similarity=0.064 Sum_probs=11.9
Q ss_pred cccCCCcccccccc
Q 024946 8 NFASPFVSSIKLTK 21 (260)
Q Consensus 8 ~~~~~~~~~~~~~~ 21 (260)
+|++||-+-+++|+
T Consensus 1 svpsPpCpknY~FS 14 (38)
T PF10542_consen 1 SVPSPPCPKNYVFS 14 (38)
T ss_pred CCCCCCCCcceeEe
Confidence 57889999999987
No 50
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=21.10 E-value=3.5e+02 Score=21.35 Aligned_cols=62 Identities=15% Similarity=0.189 Sum_probs=37.8
Q ss_pred CCCCCChHHHHHHHHHHHHHHHhccCCCCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhh
Q 024946 32 KNCQSDPHESRKLVLQVKERLEKDYNSLPVGKNGRDDEDMILWFLKDRKFSIEESLAKLTKAIKWRQE 99 (260)
Q Consensus 32 ~~~~~~~e~~~~~i~elr~~l~~~~~~lp~~~~~~~~d~~llRfLra~~~dv~~A~~~l~~~~~wR~~ 99 (260)
..+++|++.+. ++|+.+.......+. ....+..-+..-+++-+||..++...+.+..+-+.+
T Consensus 53 ~~l~LTd~QR~----qmr~im~~~r~~~~~--~~~~~~~~m~~Li~Ad~FDeaAvra~~~kma~~~~e 114 (162)
T PRK12751 53 DGINLTEQQRQ----QMRDLMRQSHQSQPR--LDLEDREAMHKLITADKFDEAAVRAQAEKMSQNQIE 114 (162)
T ss_pred ccCCCCHHHHH----HHHHHHHHhhhcccc--hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 46888876653 344444333222221 112244667889999999999888887776655543
No 51
>COG5005 Mu-like prophage protein gpG [General function prediction only]
Probab=21.06 E-value=2.1e+02 Score=21.66 Aligned_cols=36 Identities=8% Similarity=0.163 Sum_probs=29.3
Q ss_pred cccCCCCCccCCCCCCCCChHHHHHHHHHHHHHHHh
Q 024946 19 LTKKPIRNFKAPVKNCQSDPHESRKLVLQVKERLEK 54 (260)
Q Consensus 19 ~~~~p~~~~~~~~~~~~~~~e~~~~~i~elr~~l~~ 54 (260)
+.++|-....|+++-++++|+.+.+..+++++.++.
T Consensus 101 ~~gr~~k~~IpARpfl~l~~~deqei~d~i~~yf~~ 136 (140)
T COG5005 101 KTGRPRKVAIPARPFLGLTPDDEQEIMDDIQDYFSE 136 (140)
T ss_pred cCCCCccCccCCCcccccChhhHHHHHHHHHHHHHH
Confidence 345677778888888999999888888899988865
Done!