Query 018953
Match_columns 348
No_of_seqs 203 out of 1522
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 05:27:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018953.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018953hhsearch_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 4E-41 8.8E-46 306.7 16.8 198 102-315 45-244 (324)
2 KOG1471 Phosphatidylinositol t 100.0 1.5E-38 3.3E-43 299.8 23.4 237 60-318 15-261 (317)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 2.3E-31 5E-36 225.6 12.6 153 151-313 3-159 (159)
4 smart00516 SEC14 Domain in hom 100.0 4.6E-28 9.9E-33 205.1 13.9 144 161-315 14-158 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 3.2E-25 7E-30 186.2 13.7 146 155-313 9-157 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.5 6.7E-14 1.5E-18 117.4 5.6 137 158-315 5-145 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.9 3.2E-09 6.9E-14 73.4 5.9 55 68-130 1-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.0 3.3E-05 7.1E-10 72.9 9.9 120 162-303 89-212 (467)
9 PF14555 UBA_4: UBA-like domai 81.1 5.9 0.00013 25.3 5.1 24 105-128 14-37 (43)
10 PF08938 HBS1_N: HBS1 N-termin 69.7 2.2 4.7E-05 31.5 0.9 52 61-130 18-70 (79)
11 PF06972 DUF1296: Protein of u 66.7 25 0.00055 24.2 5.5 26 104-129 19-44 (60)
12 PF02845 CUE: CUE domain; Int 63.0 18 0.00039 22.8 4.1 27 103-129 14-40 (42)
13 smart00546 CUE Domain that may 58.2 19 0.00042 22.8 3.6 26 103-128 15-40 (43)
14 PF00627 UBA: UBA/TS-N domain; 54.3 48 0.001 20.2 5.0 23 105-127 15-37 (37)
15 cd08816 CARD_RIG-I_1 Caspase a 47.7 52 0.0011 24.5 4.8 60 64-132 1-60 (89)
16 smart00165 UBA Ubiquitin assoc 45.6 36 0.00078 20.5 3.3 24 104-127 13-36 (37)
17 cd00194 UBA Ubiquitin Associat 43.4 41 0.00089 20.4 3.3 25 104-128 13-37 (38)
18 KOG1534 Putative transcription 41.6 53 0.0011 29.3 4.8 103 200-305 75-193 (273)
19 PF03474 DMA: DMRTA motif; In 38.3 62 0.0013 20.4 3.4 25 103-127 14-38 (39)
20 smart00804 TAP_C C-terminal do 36.7 1.5E+02 0.0032 20.8 6.6 47 60-130 5-51 (63)
21 PF01690 PLRV_ORF5: Potato lea 31.9 36 0.00078 33.6 2.5 20 124-143 148-167 (465)
22 KOG0559 Dihydrolipoamide succi 31.5 1.3E+02 0.0028 28.8 5.9 18 65-82 227-244 (457)
23 PF03641 Lysine_decarbox: Poss 31.2 1.1E+02 0.0025 24.6 5.0 59 239-300 67-132 (133)
24 PF14213 DUF4325: Domain of un 30.9 1.9E+02 0.0042 20.5 5.7 46 223-270 20-68 (74)
25 TIGR02364 dha_pts dihydroxyace 29.0 1.3E+02 0.0027 24.2 4.9 52 218-277 59-110 (125)
26 PF06394 Pepsin-I3: Pepsin inh 27.0 49 0.0011 24.2 1.9 39 43-81 20-58 (76)
27 cd01886 EF-G Elongation factor 27.0 1.8E+02 0.0039 26.6 6.2 57 60-135 185-241 (270)
28 PF11964 SpoIIAA-like: SpoIIAA 25.6 2.9E+02 0.0063 20.7 7.1 55 220-276 32-87 (109)
29 COG2961 ComJ Protein involved 25.5 40 0.00086 30.7 1.5 27 255-281 237-263 (279)
30 PRK10363 cpxP periplasmic repr 25.1 3.8E+02 0.0082 22.8 7.1 60 62-137 50-109 (166)
31 PF04378 RsmJ: Ribosomal RNA s 24.4 40 0.00086 30.6 1.3 29 255-283 206-234 (245)
32 TIGR02223 ftsN cell division p 23.3 2.1E+02 0.0045 26.8 5.8 50 33-82 84-133 (298)
33 PF02954 HTH_8: Bacterial regu 22.3 1.5E+02 0.0032 18.5 3.3 25 104-128 5-29 (42)
34 PRK12751 cpxP periplasmic stre 21.8 4.3E+02 0.0094 22.3 6.9 60 61-136 55-114 (162)
35 PF05762 VWA_CoxE: VWA domain 21.3 1.9E+02 0.004 25.6 5.0 32 219-251 58-89 (222)
36 KOG2689 Predicted ubiquitin re 20.6 2.5E+02 0.0055 25.8 5.6 46 22-82 199-244 (290)
37 PF11239 DUF3040: Protein of u 20.3 1.1E+02 0.0025 22.4 2.8 21 62-82 2-22 (82)
38 COG2920 DsrC Dissimilatory sul 20.3 1.3E+02 0.0029 23.3 3.2 33 106-140 45-79 (111)
39 PHA01732 proline-rich protein 20.2 1.4E+02 0.003 22.4 3.1 8 6-13 9-16 (94)
No 1
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=4e-41 Score=306.70 Aligned_cols=198 Identities=30% Similarity=0.567 Sum_probs=177.2
Q ss_pred CCchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCC-CcccCCChhhhccceeeeeccCCCCCcEEEEecCccCcc
Q 018953 102 DERADVILLKFLRARDFRVLDSFNMLEKCLAWRKEFGADG-IVEEDLGFKELEGVVAYMQGYDREGHPVCYNAYGVFRDK 180 (348)
Q Consensus 102 ~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~wR~~~~~~~-i~~~~l~~~~l~~~~~~~~G~Dk~GrpV~~~~~~~~~~~ 180 (348)
..++|.+++|||||++|||++|.+||.++|.||+.+++.. +..+++. .+++.+.+|+.|+|++||||+|++++.....
T Consensus 45 ~~~~d~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~~~~Ev~-~e~~tGK~yi~G~D~~gRPVl~~~~~~~~qn 123 (324)
T KOG1470|consen 45 KWCSDACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEVIEADEVA-AELETGKAYILGHDKDGRPVLYLRPRPHRQN 123 (324)
T ss_pred hcCcHHHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCccccCHHHHH-HHhhcCcEEEecccCCCCeEEEEecCCCCCC
Confidence 3568999999999999999999999999999999999987 6666665 6788889999999999999999977655333
Q ss_pred hhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCCCchhHH-HHHHHHHHHHhhhchhhcceEEE
Q 018953 181 DMYERIFGDDEKLKKFLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDMPKRELR-VASNQILSLFQDNYPEMVARKIF 259 (348)
Q Consensus 181 ~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~s~~~l~-~~~k~~~~~lq~~yPerl~~i~i 259 (348)
. .+.+.+.|+++|+||.++..| +.+++++++++|++|++++++. ...+.++.++|+||||||+..++
T Consensus 124 ~---------~t~~~~~r~~Vy~mE~Ai~~l---p~~qe~~~~L~D~~~fs~sN~d~~~~k~~~~~lq~hYPErLg~a~l 191 (324)
T KOG1470|consen 124 T---------KTQKELERLLVYTLENAILFL---PPGQEQFVWLFDLTGFSMSNPDIKFLKELLHILQDHYPERLGKALL 191 (324)
T ss_pred C---------CCHHHHHHHHHHHHHHHHHhC---CCCcceEEEEEecccCcccCCCcHHHHHHHHHHHHhChHHhhhhhh
Confidence 2 257788999999999998766 6788999999999999999885 89999999999999999999999
Q ss_pred EeCChhHHHHHHHHhhcCCccccccEEEecCCCcHHHHhccCCCCCCCccCCCCCC
Q 018953 260 INVPWYFSMLYSMFSPFLTQRTKSKFVISKEGNVAETLYKFVRPEDIPVQYGGLSR 315 (348)
Q Consensus 260 vN~P~~~~~iw~lvkpfL~~~t~~KI~~~~~~~~~~~L~~~i~~~~LP~~yGG~~~ 315 (348)
+|+||+|..+|+++||||+|+|++||+|..+ .+.|.+|||+++||..|||+..
T Consensus 192 ~~~P~iF~~~wkiikpflDp~t~~Kv~F~~~---~~~l~~~~d~~~l~s~~GG~~~ 244 (324)
T KOG1470|consen 192 VNAPWIFQPFWKIIKPFLDPKTASKVKFVEP---KDDLSEYFDESQLPSLFGGKLL 244 (324)
T ss_pred cCChHHHHHHHHHhhhccChhhhceeEEecC---hhHHHhhCCccccchhhCCCcc
Confidence 9999999999999999999999999999973 4559999999999999999543
No 2
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=1.5e-38 Score=299.80 Aligned_cols=237 Identities=31% Similarity=0.502 Sum_probs=196.6
Q ss_pred cCCCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCC
Q 018953 60 VSQLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKCLAWRKEFGA 139 (348)
Q Consensus 60 l~~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~wR~~~~~ 139 (348)
+.++++.+++.++++| |+.... +++ ....+|.+|+|||||++||+++|.++|.+++.||+++..
T Consensus 15 ~~~~~~~~~~~i~~lr-~~~~~~--------------~l~-~~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~ 78 (317)
T KOG1471|consen 15 LNEITESEEAVIAQLR-WLLQKP--------------HLP-NKYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKL 78 (317)
T ss_pred cCCCcHHHHHHHHHHH-HHhhcc--------------CCC-CCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCC
Confidence 7888999999999999 666653 443 247899999999999999999999999999999999999
Q ss_pred CCCcccCCChhhhcc-ceeeeeccCCCCCcEEEEecCccCcchhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhc-----c
Q 018953 140 DGIVEEDLGFKELEG-VVAYMQGYDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKKFLRWRVQVLERGINLLH-----F 213 (348)
Q Consensus 140 ~~i~~~~l~~~~l~~-~~~~~~G~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~-----~ 213 (348)
+.+....-....+.. .....+|.|++|+||++.+.|..+...++.++ ...+++++.+..+|+....+. .
T Consensus 79 d~i~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~~l~~~~-----~~~~~~~~~~~~~e~~~~~~~e~~~~~ 153 (317)
T KOG1471|consen 79 DEIFEDFEEDDELLKYYPQGLHGVDKEGRPVYIERLGKIDPKGLLKRT-----GSLDYLKYHFKEFEKVFKLVLELELKT 153 (317)
T ss_pred ccHhhccccchhhhhhccccccccCCCCCEEEEeccCCCCcccceeec-----cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 988765111123333 33577899999999999999999999887653 244556666655555543321 1
Q ss_pred CCCCcceEEEEEecCCCCchhHH----HHHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcCCccccccEEEec
Q 018953 214 KPGGVNSIIQVTDLKDMPKRELR----VASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFLTQRTKSKFVISK 289 (348)
Q Consensus 214 ~~~~v~~~v~IiDl~g~s~~~l~----~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL~~~t~~KI~~~~ 289 (348)
...+++|+++|+|++|++++|++ ..++.++.++|++||++++++||||+|++|+++|+++||||+++|++||++.+
T Consensus 154 ~~~~~~g~~~I~Dl~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~ 233 (317)
T KOG1471|consen 154 GERQISGIVTIFDLKGVSLSHLLKPAPTLLKKILKILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLH 233 (317)
T ss_pred hcCCcceeEEEEECCCCcchhHHHHHHHHHHHHHHHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecC
Confidence 24689999999999999999884 57899999999999999999999999999999999999999999999999443
Q ss_pred CCCcHHHHhccCCCCCCCccCCCCCCCCC
Q 018953 290 EGNVAETLYKFVRPEDIPVQYGGLSRPSD 318 (348)
Q Consensus 290 ~~~~~~~L~~~i~~~~LP~~yGG~~~~~~ 318 (348)
+++.++|.++|++++||.+|||++.+.+
T Consensus 234 -~~~~~~L~k~i~~~~LP~~yGG~~~~~~ 261 (317)
T KOG1471|consen 234 -SKDKESLLKYIPPEVLPEEYGGTCGDLD 261 (317)
T ss_pred -CCchhhhhhhCCHhhCccccCCCccccc
Confidence 4689999999999999999999999864
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=99.97 E-value=2.3e-31 Score=225.60 Aligned_cols=153 Identities=31% Similarity=0.640 Sum_probs=125.9
Q ss_pred hhccceeeeeccCCCCCcEEEEecCccCcchhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCC
Q 018953 151 ELEGVVAYMQGYDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKKFLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDM 230 (348)
Q Consensus 151 ~l~~~~~~~~G~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~ 230 (348)
....+..+++|+|++||||++++++++|.... +.++++++.++.+|.+++.+.. ..+++|+++|+|++|+
T Consensus 3 ~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~~~---------~~~~~~~~~~~~~E~~~~~~~~-~~~~~~~~~iiD~~g~ 72 (159)
T PF00650_consen 3 ILKSGPFYLHGRDKDGRPVIYIRLGRFDPKKF---------SPEDVIRFFVYLLERMLKRMPE-GGQVEGIVVIIDLSGF 72 (159)
T ss_dssp HHTTSCEEEEEE-TTS-EEEEEEGTT--HHTS----------HHHHHHHHHHHHHHHHHTHHH-TSHHH-EEEEEE-TT-
T ss_pred HHCCeeEEECCCCCCcCEEEEEEcccCCCCcC---------CHHHHHHHHHHHHHHHHhhhcc-cccceeEEEEEeCCCc
Confidence 34567779999999999999999999988743 3678999999999999976543 3678999999999999
Q ss_pred CchhHH----HHHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcCCccccccEEEecCCCcHHHHhccCCCCCC
Q 018953 231 PKRELR----VASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFLTQRTKSKFVISKEGNVAETLYKFVRPEDI 306 (348)
Q Consensus 231 s~~~l~----~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL~~~t~~KI~~~~~~~~~~~L~~~i~~~~L 306 (348)
+++++. +.++.++.++|++||+|++++||+|+|++|+++|+++++||+++|++||+++++.++.+.|.++|++++|
T Consensus 73 ~~~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~l 152 (159)
T PF00650_consen 73 SLSNFDWWPISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQL 152 (159)
T ss_dssp -HHHHHCHHHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGGS
T ss_pred eEeccccchhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhHC
Confidence 998764 5788999999999999999999999999999999999999999999999999755666899999999999
Q ss_pred CccCCCC
Q 018953 307 PVQYGGL 313 (348)
Q Consensus 307 P~~yGG~ 313 (348)
|.+|||+
T Consensus 153 P~~~GG~ 159 (159)
T PF00650_consen 153 PVEYGGT 159 (159)
T ss_dssp BGGGTSS
T ss_pred chhcCCC
Confidence 9999996
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=99.95 E-value=4.6e-28 Score=205.09 Aligned_cols=144 Identities=33% Similarity=0.661 Sum_probs=129.9
Q ss_pred ccCCCCCcEEEEecCccCcchhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCCCchhHH-HHH
Q 018953 161 GYDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKKFLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDMPKRELR-VAS 239 (348)
Q Consensus 161 G~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~s~~~l~-~~~ 239 (348)
|+|++||||+++++++++.... +.+++++++++.+|.+++. ...+.++.++++|+|++|++++++. +.+
T Consensus 14 g~D~~GrpV~~~~~~~~~~~~~---------~~~~~~~~~~~~~e~~~~~-~~~~~~~~~~~~i~D~~~~~~~~~~~~~l 83 (158)
T smart00516 14 GYDKDGRPVLIFRAGRFDLKSV---------TLEELLRYLVYVLEKILQR-EKKTGGIEGFTVIFDLKGLSMSNPDLSVL 83 (158)
T ss_pred CCCCCcCEEEEEeccccccCcC---------CHHHHHHHHHHHHHHHHHH-HhcCCCeeeEEEEEECCCCCcccccHHHH
Confidence 7999999999999999875432 4788999999999998865 1235788999999999999998874 789
Q ss_pred HHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcCCccccccEEEecCCCcHHHHhccCCCCCCCccCCCCCC
Q 018953 240 NQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFLTQRTKSKFVISKEGNVAETLYKFVRPEDIPVQYGGLSR 315 (348)
Q Consensus 240 k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL~~~t~~KI~~~~~~~~~~~L~~~i~~~~LP~~yGG~~~ 315 (348)
+.++.+++++||++++++||+|+|++++++|+++++|+++++++||+++++ ++.+.|.++||+++||.+|||++.
T Consensus 84 k~~~~~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~-~~~~~L~~~i~~~~lP~~~GG~~~ 158 (158)
T smart00516 84 RKILKILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGN-DSKEELLEYIDPEQLPEELGGTLD 158 (158)
T ss_pred HHHHHHHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCC-CCHHHHHhhCCHhhCcHhhCCCCC
Confidence 999999999999999999999999999999999999999999999999983 457899999999999999999974
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=99.93 E-value=3.2e-25 Score=186.18 Aligned_cols=146 Identities=32% Similarity=0.583 Sum_probs=125.6
Q ss_pred ceeeeeccCCCCCcEEEEecCccCcchhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCCCchh
Q 018953 155 VVAYMQGYDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKKFLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDMPKRE 234 (348)
Q Consensus 155 ~~~~~~G~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~s~~~ 234 (348)
...+..|.|++||||++++++..+..... ..++++++.++.+|.+++... ....|+++|+|++|.++++
T Consensus 9 ~~~~~~~~D~~gr~V~~~~~~~~~~~~~~--------~~~~~~~~~~~~~e~~~~~~~---~~~~~~~~i~D~~~~~~~~ 77 (157)
T cd00170 9 KVGYLGGRDKEGRPVLIIRAGNKDLSKSL--------DSEELLRYLVYTLEKLLQEDD---EQVEGFVVIIDLKGLSLSH 77 (157)
T ss_pred cccccCCCCCCcCEEEEEecCCcchhhcC--------CHHHHHHHHHHHHHHHHhhhh---hcccceEEEEECCCCChhc
Confidence 33355567999999999999976554332 236789999999999887642 3347999999999999887
Q ss_pred H---HHHHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcCCccccccEEEecCCCcHHHHhccCCCCCCCccCC
Q 018953 235 L---RVASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFLTQRTKSKFVISKEGNVAETLYKFVRPEDIPVQYG 311 (348)
Q Consensus 235 l---~~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL~~~t~~KI~~~~~~~~~~~L~~~i~~~~LP~~yG 311 (348)
+ .+.++.++.+++++||++++++||+|+|++++++|+++++|+++++++||+++++. .+.|.++|++++||.+||
T Consensus 78 ~~~~~~~~k~~~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~--~~~L~~~i~~~~Lp~~~G 155 (157)
T cd00170 78 LLPDPSLLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSD--KEELLKYIDKEQLPEEYG 155 (157)
T ss_pred cchhHHHHHHHHHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCC--HHHHHhhCChhhCcHhhC
Confidence 5 36899999999999999999999999999999999999999999999999999732 899999999999999999
Q ss_pred CC
Q 018953 312 GL 313 (348)
Q Consensus 312 G~ 313 (348)
|+
T Consensus 156 G~ 157 (157)
T cd00170 156 GT 157 (157)
T ss_pred CC
Confidence 96
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.46 E-value=6.7e-14 Score=117.43 Aligned_cols=137 Identities=20% Similarity=0.373 Sum_probs=94.6
Q ss_pred eeeccCCCCCcEEEEecCccCcchhhhhhcCCHHHHHHHHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCCCchhH--
Q 018953 158 YMQGYDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKKFLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDMPKREL-- 235 (348)
Q Consensus 158 ~~~G~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~s~~~l-- 235 (348)
+..|+|++||||+++...++ +.. .+.+.++.+++..++.. ....++++|+|++|++..+-
T Consensus 5 ~~gG~d~~g~pV~~~~~~~~-~~~---------~~~~~ll~yl~~~l~~~--------~~~~~f~vVid~~~~~~~~~~~ 66 (149)
T PF13716_consen 5 YPGGRDREGRPVVVFIASRL-PSS---------DDLERLLLYLLSTLSEE--------VVDKPFSVVIDHTGFSRSSEPS 66 (149)
T ss_dssp EEEEEBTTS-EEEEEEGGG--C-T---------THHHHHHHHHHHHH-TT--------TTTS-EEEEEE-TT--GGG---
T ss_pred EecccCCCcCEEEEEECCcC-cch---------hhHHHHHHHHHHhhhHH--------hcCCCEEEEEEcCCCccccCCc
Confidence 56789999999999997776 221 14555666655555211 12346999999999987553
Q ss_pred HHHHHHHHHHHhhhchhhcceEEEEeCChhHHHHH-HHHhhcCCccc-cccEEEecCCCcHHHHhccCCCCCCCccCCCC
Q 018953 236 RVASNQILSLFQDNYPEMVARKIFINVPWYFSMLY-SMFSPFLTQRT-KSKFVISKEGNVAETLYKFVRPEDIPVQYGGL 313 (348)
Q Consensus 236 ~~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw-~lvkpfL~~~t-~~KI~~~~~~~~~~~L~~~i~~~~LP~~yGG~ 313 (348)
++.++++...+...|+..++++||+|+.++++.++ .+.+++.+.+. ..||+++. ..++|.++||+++||..+||.
T Consensus 67 ~~~l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~---sl~~L~~~i~~~qL~~~lp~~ 143 (149)
T PF13716_consen 67 LSWLKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVS---SLSELSKHIDPSQLPESLPGV 143 (149)
T ss_dssp HHHHHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEES---STCGGGGTSGGGG------HH
T ss_pred hHHHHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEEC---CHHHHHhhCCHHHhcccCCCE
Confidence 67889999999999999999999999999999999 66678888888 99999985 588999999999999999987
Q ss_pred CC
Q 018953 314 SR 315 (348)
Q Consensus 314 ~~ 315 (348)
.+
T Consensus 144 ~~ 145 (149)
T PF13716_consen 144 LQ 145 (149)
T ss_dssp H-
T ss_pred Ee
Confidence 65
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=98.91 E-value=3.2e-09 Score=73.37 Aligned_cols=55 Identities=35% Similarity=0.630 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHH
Q 018953 68 KKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKC 130 (348)
Q Consensus 68 ~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~ 130 (348)
++++++||+.|.+.... . ..+|. .. ....+|.+|+||||||+|||++|.+||.+|
T Consensus 1 k~~l~~l~~~l~~~~~~---~-~~~~~--~~--~~~~~d~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 1 KQKLKQLREHLSELDEK---A-PGLWD--DE--KEDHDDNFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp HHHHHHHHHHHHH--GG---G-THHHT--TH--TSS-SHHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhccc---h-hcccc--cc--cCCCCHHHHHHHHHHccCCHHHHHHHHHhC
Confidence 46899999999986310 0 00111 12 467899999999999999999999999875
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.03 E-value=3.3e-05 Score=72.94 Aligned_cols=120 Identities=10% Similarity=0.257 Sum_probs=89.1
Q ss_pred cCCCCCcEEEEecCccCcchhhhhhcCCHHHHHH--HHHHHHHHHHHHHHhhccCCCCcceEEEEEecCCCCch--hHHH
Q 018953 162 YDREGHPVCYNAYGVFRDKDMYERIFGDDEKLKK--FLRWRVQVLERGINLLHFKPGGVNSIIQVTDLKDMPKR--ELRV 237 (348)
Q Consensus 162 ~Dk~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~--~~r~~~~~lE~~~~~~~~~~~~v~~~v~IiDl~g~s~~--~l~~ 237 (348)
.|++||.|+++...++-..+ .+++ ++++.++.++..++. -++.++=-.|+... .-.+
T Consensus 89 ~D~~gr~iivv~a~rlp~~~----------eld~~~li~~~v~~id~~Ve~---------DYt~vYfh~gl~s~nkp~l~ 149 (467)
T KOG4406|consen 89 KDKQGRKIIVVYACRLPSSS----------ELDDIRLISYLVYTIDKYVEN---------DYTLVYFHHGLPSDNKPYLQ 149 (467)
T ss_pred ccccCCeeEEEEEecCCchh----------hhhhHHHHHHHHHHHHHHHhc---------cceeeehhcCCcccccchHH
Confidence 69999999999988875432 2333 788888999987742 14444444454432 2234
Q ss_pred HHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcCCccccccEEEecCCCcHHHHhccCCC
Q 018953 238 ASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFLTQRTKSKFVISKEGNVAETLYKFVRP 303 (348)
Q Consensus 238 ~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL~~~t~~KI~~~~~~~~~~~L~~~i~~ 303 (348)
.+.....-+-.+|--.++.+|+|.+-|+..++|+++||+++.|...||+.+. ..++|.++|.-
T Consensus 150 ~l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~n---~lseL~~~l~l 212 (467)
T KOG4406|consen 150 LLFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYFN---SLSELFEALKL 212 (467)
T ss_pred HHHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEee---hHHHHHHhhhh
Confidence 4444444455668888999999999999999999999999999999999994 78888887743
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=81.09 E-value=5.9 Score=25.33 Aligned_cols=24 Identities=13% Similarity=0.314 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHcCCCHHHHHHHHH
Q 018953 105 ADVILLKFLRARDFRVLDSFNMLE 128 (348)
Q Consensus 105 ~D~~LlRFLra~~~dv~~A~~~l~ 128 (348)
++.....||..++||++.|+..+-
T Consensus 14 ~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHHHH
Confidence 567789999999999999998764
No 10
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=69.67 E-value=2.2 Score=31.47 Aligned_cols=52 Identities=13% Similarity=0.121 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCc-hHHHHHHHHHHcCCCHHHHHHHHHHH
Q 018953 61 SQLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDER-ADVILLKFLRARDFRVLDSFNMLEKC 130 (348)
Q Consensus 61 ~~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~-~D~~LlRFLra~~~dv~~A~~~l~~~ 130 (348)
..|+++++..|.+.-..+++... ... ++..|..=|+.++|||++|+..|.+.
T Consensus 18 ~~Ls~ed~~~L~~~l~~vr~~Lg------------------~~~~~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 18 DELSPEDQAQLYSCLPQVREVLG------------------DYVPPEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp HH-TCHHHHHHCHHCCCHHHHCC------------------CCC--CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred ccCCHHHHHHHHHHHHHHHHHHc------------------ccCCCHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 56788888777766666666641 222 67778899999999999999988753
No 11
>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=66.73 E-value=25 Score=24.24 Aligned_cols=26 Identities=8% Similarity=0.146 Sum_probs=23.4
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHHHH
Q 018953 104 RADVILLKFLRARDFRVLDSFNMLEK 129 (348)
Q Consensus 104 ~~D~~LlRFLra~~~dv~~A~~~l~~ 129 (348)
++|.-++-.|+-|+.|+..|.++|..
T Consensus 19 hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 19 HSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 56888999999999999999999865
No 12
>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=63.03 E-value=18 Score=22.85 Aligned_cols=27 Identities=15% Similarity=0.150 Sum_probs=22.8
Q ss_pred CchHHHHHHHHHHcCCCHHHHHHHHHH
Q 018953 103 ERADVILLKFLRARDFRVLDSFNMLEK 129 (348)
Q Consensus 103 ~~~D~~LlRFLra~~~dv~~A~~~l~~ 129 (348)
..+...+.+-|.++++|++.|..+|-.
T Consensus 14 ~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 14 DLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp SS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 457888999999999999999998754
No 13
>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=58.15 E-value=19 Score=22.79 Aligned_cols=26 Identities=19% Similarity=0.165 Sum_probs=22.7
Q ss_pred CchHHHHHHHHHHcCCCHHHHHHHHH
Q 018953 103 ERADVILLKFLRARDFRVLDSFNMLE 128 (348)
Q Consensus 103 ~~~D~~LlRFLra~~~dv~~A~~~l~ 128 (348)
..++..+.+-|+++++|++.|...|.
T Consensus 15 ~l~~~~I~~~L~~~~g~ve~~i~~LL 40 (43)
T smart00546 15 NLDEEVIKAVLEANNGNVEATINNLL 40 (43)
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 45688899999999999999998875
No 14
>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=54.30 E-value=48 Score=20.17 Aligned_cols=23 Identities=22% Similarity=0.081 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHcCCCHHHHHHHH
Q 018953 105 ADVILLKFLRARDFRVLDSFNML 127 (348)
Q Consensus 105 ~D~~LlRFLra~~~dv~~A~~~l 127 (348)
+.....+-|+.+++|+++|...|
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 45578899999999999998764
No 15
>cd08816 CARD_RIG-I_1 Caspase activation and recruitment domain found in RIG-I, first repeat. Caspase activation and recruitment domain (CARD) found in RIG-I (Retinoic acid Inducible Gene I, also known as Ddx58), first repeat. RIG-I is a cytoplasmic RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. RIG-I contains two N-terminal CARD domains and a C-terminal RNA helicase. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I recognizes different sets of viruses compared to MDA5, a related RNA helicase. RIG-I associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction doma
Probab=47.75 E-value=52 Score=24.54 Aligned_cols=60 Identities=13% Similarity=0.153 Sum_probs=37.1
Q ss_pred CHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 018953 64 KSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKCLA 132 (348)
Q Consensus 64 ~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~ 132 (348)
++++++.|+.|+..|++... |.++-.+-.+++ .|....+-+--++-.+..|.+++..++.
T Consensus 1 ~~~~k~nL~af~~yi~ktl~---P~yIl~~m~~~~------~~e~v~~I~aEe~kg~~~AaqlfL~~l~ 60 (89)
T cd08816 1 TAAEKRNLQRFRDYIKKILR---PSYILGFMTTWL------EDEEVERILSEEEKGVTSAAQLFLDYVL 60 (89)
T ss_pred CHHHHHHHHHHHHHHHHhhc---hHHHHHHHHHhc------CHHHHHHHHHHhccChHHHHHHHHHHHH
Confidence 46889999999999999973 222222222333 3444555554455567777777666554
No 16
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=45.56 E-value=36 Score=20.53 Aligned_cols=24 Identities=29% Similarity=0.117 Sum_probs=19.9
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHH
Q 018953 104 RADVILLKFLRARDFRVLDSFNML 127 (348)
Q Consensus 104 ~~D~~LlRFLra~~~dv~~A~~~l 127 (348)
.+.....+-|+.+++|+++|...|
T Consensus 13 f~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 13 FSREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHH
Confidence 346678999999999999998765
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=43.41 E-value=41 Score=20.37 Aligned_cols=25 Identities=24% Similarity=0.048 Sum_probs=20.8
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHHH
Q 018953 104 RADVILLKFLRARDFRVLDSFNMLE 128 (348)
Q Consensus 104 ~~D~~LlRFLra~~~dv~~A~~~l~ 128 (348)
.+.....+-|+.+++|+++|...|.
T Consensus 13 f~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 13 FSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 3467789999999999999987763
No 18
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=41.64 E-value=53 Score=29.28 Aligned_cols=103 Identities=18% Similarity=0.191 Sum_probs=60.1
Q ss_pred HHHHHHHHHHhhc---cCCCCcceEEEEEecCCCC--chhHHHHHHHHHHHHhhhchhhcceEEEEeCC------hhHHH
Q 018953 200 RVQVLERGINLLH---FKPGGVNSIIQVTDLKDMP--KRELRVASNQILSLFQDNYPEMVARKIFINVP------WYFSM 268 (348)
Q Consensus 200 ~~~~lE~~~~~~~---~~~~~v~~~v~IiDl~g~s--~~~l~~~~k~~~~~lq~~yPerl~~i~ivN~P------~~~~~ 268 (348)
++++||+.+..++ ..-+.++.=.+|+||-|-= ..|+ ..+++++.-++. .-.++..+|++..+ ++++.
T Consensus 75 Lv~cmEyl~~NldwL~~~~Gd~eddylifDcPGQIELytH~-pVm~~iv~hl~~-~~F~~c~Vylldsqf~vD~~KfiSG 152 (273)
T KOG1534|consen 75 LVYCMEYLLENLDWLEEEIGDVEDDYLIFDCPGQIELYTHL-PVMPQIVEHLKQ-WNFNVCVVYLLDSQFLVDSTKFISG 152 (273)
T ss_pred chhHHHHHHHHHHHHHhhccCccCCEEEEeCCCeeEEeecC-hhHHHHHHHHhc-ccCceeEEEEeccchhhhHHHHHHH
Confidence 4566776665543 2235667777999999832 2333 356777777766 44456666666555 45555
Q ss_pred HHHHHhhcCCcc-----ccccEEEecCCCcHHHHhccCCCCC
Q 018953 269 LYSMFSPFLTQR-----TKSKFVISKEGNVAETLYKFVRPED 305 (348)
Q Consensus 269 iw~lvkpfL~~~-----t~~KI~~~~~~~~~~~L~~~i~~~~ 305 (348)
++..+..++.-. ..+|.-+++ +.+.+.|.++++++.
T Consensus 153 ~lsAlsAMi~lE~P~INvlsKMDLlk-~~~k~~l~~Fl~~d~ 193 (273)
T KOG1534|consen 153 CLSALSAMISLEVPHINVLSKMDLLK-DKNKKELERFLNPDE 193 (273)
T ss_pred HHHHHHHHHHhcCcchhhhhHHHHhh-hhhHHHHHHhcCCch
Confidence 565555544322 244444444 345677777877654
No 19
>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=38.31 E-value=62 Score=20.39 Aligned_cols=25 Identities=12% Similarity=0.174 Sum_probs=20.4
Q ss_pred CchHHHHHHHHHHcCCCHHHHHHHH
Q 018953 103 ERADVILLKFLRARDFRVLDSFNML 127 (348)
Q Consensus 103 ~~~D~~LlRFLra~~~dv~~A~~~l 127 (348)
......|..-|++|++||-+|.+.+
T Consensus 14 ~~kr~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 14 HQKRSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred CCChHHHHHHHHHcCCcHHHHHHHh
Confidence 3445678889999999999999865
No 20
>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=36.70 E-value=1.5e+02 Score=20.77 Aligned_cols=47 Identities=6% Similarity=0.080 Sum_probs=34.0
Q ss_pred cCCCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHH
Q 018953 60 VSQLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKC 130 (348)
Q Consensus 60 l~~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~ 130 (348)
...+++.+++.+.+|-..- ...-.+-.++|...+||.++|.+.+.+-
T Consensus 5 ~~~~~~~q~~~v~~~~~~T------------------------gmn~~~s~~cLe~~~Wd~~~Al~~F~~l 51 (63)
T smart00804 5 KPTLSPEQQEMVQAFSAQT------------------------GMNAEYSQMCLEDNNWDYERALKNFTEL 51 (63)
T ss_pred CCCCCHHHHHHHHHHHHHH------------------------CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3456677766666654432 2356778999999999999999987753
No 21
>PF01690 PLRV_ORF5: Potato leaf roll virus readthrough protein; InterPro: IPR002929 This family consists mainly of the Potato leafroll virus (PLrV) read through protein otherwise known as the minor capsid protein. This is generated via a readthrough of open reading frame 3, the coat protein, allowing transcription of open reading frame 5 to give an extended coat protein with a large C-terminal addition or read through domain []. The read through protein is essential for the circulative aphid transmission of PLrV [] and Beet western yellows virus []. The N-terminal region of the luteovirus readthrough domain determines virus binding to Buchnera GroEL and is essential for virus persistence in the aphid [].; GO: 0019028 viral capsid
Probab=31.90 E-value=36 Score=33.59 Aligned_cols=20 Identities=5% Similarity=0.041 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHhCCCCCc
Q 018953 124 FNMLEKCLAWRKEFGADGIV 143 (348)
Q Consensus 124 ~~~l~~~l~wR~~~~~~~i~ 143 (348)
+..++..-.||.-|+...+.
T Consensus 148 ItN~~~~nt~~~GHpD~e~N 167 (465)
T PF01690_consen 148 ITNYKADNTWKYGHPDLELN 167 (465)
T ss_pred EecccccCcccCCCCCceec
Confidence 34455556666655544443
No 22
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=31.47 E-value=1.3e+02 Score=28.84 Aligned_cols=18 Identities=17% Similarity=0.377 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHhhc
Q 018953 65 SSEKKALQELKNRLADSH 82 (348)
Q Consensus 65 ~~e~~~l~~Lr~~l~~~~ 82 (348)
.+++-....||.+|.+.+
T Consensus 227 ~E~RVkMnRmR~RIA~RL 244 (457)
T KOG0559|consen 227 SERRVKMNRMRLRIAERL 244 (457)
T ss_pred chhhhhhHHHHHHHHHHH
Confidence 467788999999999987
No 23
>PF03641 Lysine_decarbox: Possible lysine decarboxylase; InterPro: IPR005269 This entry represents a cytokinin-activating enzyme working in the direct activation pathway. It is a phosphoribohydrolase that converts inactive cytokinin nucleotides to the biologically active free-base forms [, ]. The proteins in this entry belong to the LOG family of proteins.; PDB: 1YDH_B 2Q4D_A 1RCU_C 1WEH_B 3SBX_F 3BQ9_B 2PMB_D 3GH1_D 1WEK_C 3QUA_A ....
Probab=31.16 E-value=1.1e+02 Score=24.58 Aligned_cols=59 Identities=8% Similarity=0.155 Sum_probs=40.4
Q ss_pred HHHHHHHHhhhchhh-cc-eEEEEeCChhHHHHHHHH-----hhcCCccccccEEEecCCCcHHHHhcc
Q 018953 239 SNQILSLFQDNYPEM-VA-RKIFINVPWYFSMLYSMF-----SPFLTQRTKSKFVISKEGNVAETLYKF 300 (348)
Q Consensus 239 ~k~~~~~lq~~yPer-l~-~i~ivN~P~~~~~iw~lv-----kpfL~~~t~~KI~~~~~~~~~~~L~~~ 300 (348)
+-+++.+++-.+=.. -+ -++++|..-++.-++.++ ..|+++...+.+.++. +.+++.++
T Consensus 67 l~El~~~~~~~~l~~~~~~Piil~~~~g~w~~l~~~l~~~~~~g~i~~~~~~~~~~~d---~~~e~~~~ 132 (133)
T PF03641_consen 67 LDELFEALTLMQLGRHNKVPIILLNIDGFWDPLLEFLDRMIEEGFISPDDLDLLHFVD---DPEEALEY 132 (133)
T ss_dssp HHHHHHHHHHHHTTSSTS-EEEEEECGGCCHHHHHHHHHHHHTTSSSHHHHCCEEEES---SHHHHHHH
T ss_pred HHHHHHHHHHHhhccccCCCEEEeCCcchHHHHHHHHHHHHHCCCCCHHHCCeEEEeC---CHHHHHhh
Confidence 344444444322222 33 699999887888888877 5789999999999995 56666654
No 24
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=30.94 E-value=1.9e+02 Score=20.53 Aligned_cols=46 Identities=15% Similarity=0.161 Sum_probs=29.9
Q ss_pred EEEecCCCCc-hhHHHHHHHHHHHHhhhch--hhcceEEEEeCChhHHHHH
Q 018953 223 QVTDLKDMPK-RELRVASNQILSLFQDNYP--EMVARKIFINVPWYFSMLY 270 (348)
Q Consensus 223 ~IiDl~g~s~-~~l~~~~k~~~~~lq~~yP--erl~~i~ivN~P~~~~~iw 270 (348)
+++|++|+.. .+ +++-.++..+...|+ +.-.++.++|+......+.
T Consensus 20 V~lDF~gv~~~~s--sFl~eafg~l~~~~~~~~~~~~l~~~~~~~~~~~~I 68 (74)
T PF14213_consen 20 VVLDFEGVESITS--SFLNEAFGQLVREFGEEEIKKRLKFKNANESIKEMI 68 (74)
T ss_pred EEEECCCcccccH--HHHHHHHHHHHHHcCHHHHhheeEEecCCHHHHHHH
Confidence 7899999952 22 455556665555566 4557788888876655443
No 25
>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=29.01 E-value=1.3e+02 Score=24.21 Aligned_cols=52 Identities=10% Similarity=0.147 Sum_probs=35.2
Q ss_pred cceEEEEEecCCCCchhHHHHHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhcC
Q 018953 218 VNSIIQVTDLKDMPKRELRVASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPFL 277 (348)
Q Consensus 218 v~~~v~IiDl~g~s~~~l~~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpfL 277 (348)
-.+++++.|+ |-+..+.- ..+.++. ++..+.+..+|+|.+..++-..+..-.
T Consensus 59 ~dgVlvl~DL-Ggs~~n~e----~a~~~l~---~~~~~~v~g~nlPlvega~~aa~~~~~ 110 (125)
T TIGR02364 59 ADGVLIFYDL-GSAVMNAE----MAVELLE---DEDRDKVHLVDAPLVEGAFAAAVEAQV 110 (125)
T ss_pred CCCEEEEEcC-CCcHhHHH----HHHHHhc---cccccEEEEechhHHHHHHHHHHHHcC
Confidence 3689999999 65532211 1223332 456688999999999999888776543
No 26
>PF06394 Pepsin-I3: Pepsin inhibitor-3-like repeated domain; InterPro: IPR010480 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The members of this group of proteins belong to MEROPS inhibitor family I33, clan IR; the nematode aspartyl protease inhibitors or Aspins. They are restricted to parasitic nematode species. Structural features common to the nematode Aspins include the presence of a signal peptide sequence and the conservation of all four cysteine residues in the mature protein. The Y[V.A]RDLT sequence motif has been suggested as being of crucial functional importance in several filarial nematode inhibitors [], this sequence is not conserved in Tco-API-1 from Trichostrongylus colubriformis (Black scour worm) and it has been demonstrated that Tco-API-1, is not an Aspin as it does not inhibit porcine pepsin []. Related inhibitors from Onchocerca volvulus, Ov33 [] and Ascaris suum (Pig roundworm), PI-3 [] inhibit the in vitro activity of aspartyl proteases such as pepsin and cathepsin E (MEROPS peptidase family A1). Aspin may facilitate the safe passage of the eggs of Ascaris through the host stomach without digestion by pepsin [, ]. The other parasitic nematodes known to express homologous proteins do not pass through the stomach of their hosts []. Several proteins in the family are potent allergens in mammals. The three-dimensional structures of pepsin inhibitor-3 (PI-3) from A. suum and of the complex between PI-3 and porcine pepsin at 1. 75 A and 2.45 A resolution, respectively, have revealed the mechanism of aspartic protease inhibition. PI-3 has a new fold consisting of two identical domains, each comprising an antiparallel beta-sheet flanked by an alpha-helix. In the enzyme-inhibitor complex, the N-terminal beta-strand of PI-3 pairs with one strand of the 'active site flap' (residues 70-82) of pepsin, thus forming an eight-stranded beta-sheet that spans the two proteins. PI-3 has a novel mode of inhibition, using its N-terminal residues to occupy and therefore block the first three binding pockets in pepsin for substrate residues C-terminal to the scissile bond (S1'-S3') [].; PDB: 1F32_A 1F34_B.
Probab=27.05 E-value=49 Score=24.17 Aligned_cols=39 Identities=10% Similarity=0.319 Sum_probs=25.3
Q ss_pred ecccccCCCCccccccccCCCCHHHHHHHHHHHHHHHhh
Q 018953 43 MEAATLRSPSFKEDSYFVSQLKSSEKKALQELKNRLADS 81 (348)
Q Consensus 43 ~~~~~~~~~s~k~~~~~l~~l~~~e~~~l~~Lr~~l~~~ 81 (348)
..++.++...+=--..++++||++|.+.|+.+.+.+..-
T Consensus 20 ~~GC~V~~nklyvng~~~R~Lt~~E~~eL~~y~~~v~~y 58 (76)
T PF06394_consen 20 FDGCVVQNNKLYVNGKYARDLTPDEQQELKTYQKKVAAY 58 (76)
T ss_dssp ETTEEEETTEEEETTCEEEE--HHHHHHHHHHHHHHHHH
T ss_pred eeeeEEECCEEEECCEeeccCCHHHHHHHHHHHHHHHHH
Confidence 344444444433334468999999999999999888765
No 27
>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=26.95 E-value=1.8e+02 Score=26.61 Aligned_cols=57 Identities=14% Similarity=0.175 Sum_probs=46.3
Q ss_pred cCCCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q 018953 60 VSQLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKCLAWRK 135 (348)
Q Consensus 60 l~~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~wR~ 135 (348)
..+++++..+.+++.|+.|-+.. ...||.++-|||-.-..+.+...+.|++.+.-++
T Consensus 185 ~~~ip~~~~~~~~~~r~~l~e~v-------------------ae~dd~L~e~yl~~~~~~~~el~~~l~~~~~~~~ 241 (270)
T cd01886 185 ETEIPEDLLEEAEEAREELIETL-------------------AEFDDELMEKYLEGEEITEEEIKAAIRKGTIANK 241 (270)
T ss_pred EecCCHHHHHHHHHHHHHHHHHH-------------------hcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHcCc
Confidence 34667788888999999998875 3579999999999999999998888887765443
No 28
>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=25.57 E-value=2.9e+02 Score=20.67 Aligned_cols=55 Identities=16% Similarity=0.152 Sum_probs=36.1
Q ss_pred eEEEEEecC-CCCchhHHHHHHHHHHHHhhhchhhcceEEEEeCChhHHHHHHHHhhc
Q 018953 220 SIIQVTDLK-DMPKRELRVASNQILSLFQDNYPEMVARKIFINVPWYFSMLYSMFSPF 276 (348)
Q Consensus 220 ~~v~IiDl~-g~s~~~l~~~~k~~~~~lq~~yPerl~~i~ivN~P~~~~~iw~lvkpf 276 (348)
.+.+++|+. ++.--.. .......++... +...++++=+|..+.+...+.+++..+
T Consensus 32 ~~~ll~d~~~~~~~~~~-~a~~~~~~~~~~-~~~~~~r~AvV~~~~~~~~~~~~~~~~ 87 (109)
T PF11964_consen 32 KIRLLVDLRRDFEGWSP-EARWEDAKFGLK-HLKHFRRIAVVGDSEWIRMIANFFAAF 87 (109)
T ss_dssp SEEEEEEEC-CEEEEHH-HHHHHHHHHHCC-CCGGEEEEEEE-SSCCCHHHHHHHHHH
T ss_pred ceEEEEEecCccCCCCH-HHHHHHHHhchh-hhcccCEEEEEECcHHHHHHHHHHHhc
Confidence 466778887 6532121 222223333344 788889999999999999999999887
No 29
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=25.47 E-value=40 Score=30.66 Aligned_cols=27 Identities=30% Similarity=0.460 Sum_probs=23.1
Q ss_pred ceEEEEeCChhHHHHHHHHhhcCCccc
Q 018953 255 ARKIFINVPWYFSMLYSMFSPFLTQRT 281 (348)
Q Consensus 255 ~~i~ivN~P~~~~~iw~lvkpfL~~~t 281 (348)
..++|||+||-+.--...+-|||....
T Consensus 237 SGMivINPPwtle~ql~~~LP~L~~~L 263 (279)
T COG2961 237 SGMIVINPPWTLEQQLRAALPWLTTLL 263 (279)
T ss_pred eeEEEECCCccHHHHHHHHHHHHHHHh
Confidence 579999999999999998888886553
No 30
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=25.13 E-value=3.8e+02 Score=22.76 Aligned_cols=60 Identities=12% Similarity=0.154 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHh
Q 018953 62 QLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKCLAWRKEF 137 (348)
Q Consensus 62 ~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~wR~~~ 137 (348)
+||++|++.+.+|++.-...- +-. ....-.-+...+.+-+||-.++...+++..+-+.+.
T Consensus 50 dLTdaQRqQmRdLm~~~r~~~-------------~~~---~~~er~amh~LI~ad~FDEaavra~a~kma~~~~e~ 109 (166)
T PRK10363 50 SLTEHQRQQMRDLMQQARHEQ-------------PPV---NVSEMETMHRLVTAENFDENAVRAQAEKMAQEQVAR 109 (166)
T ss_pred CCCHHHHHHHHHHHHHHHhcc-------------ccc---CHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 689999999999996655432 111 122335566888999999988888887776666543
No 31
>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=24.42 E-value=40 Score=30.58 Aligned_cols=29 Identities=21% Similarity=0.449 Sum_probs=21.3
Q ss_pred ceEEEEeCChhHHHHHHHHhhcCCccccc
Q 018953 255 ARKIFINVPWYFSMLYSMFSPFLTQRTKS 283 (348)
Q Consensus 255 ~~i~ivN~P~~~~~iw~lvkpfL~~~t~~ 283 (348)
..++|||+||-+.....-+-++|.+....
T Consensus 206 SGm~iiNPPw~l~~~l~~~l~~L~~~L~~ 234 (245)
T PF04378_consen 206 SGMLIINPPWTLDEELEEILPWLAETLAQ 234 (245)
T ss_dssp EEEEEES--TTHHHHHHHHHHHHHHHSST
T ss_pred ceEEEEcCCccHHHHHHHHHHHHHHHhCc
Confidence 57999999999998888887777665443
No 32
>TIGR02223 ftsN cell division protein FtsN. FtsN is a poorly conserved protein active in cell division in a number of Proteobacteria. The N-terminal 30 residue region tends to by Lys/Arg-rich, and is followed by a membrane-spanning region. This is followed by an acidic low-complexity region of variable length and a well-conserved C-terminal domain of two tandem regions matched by Pfam model pfam05036 (Sporulation related repeat), found in several cell division and sporulation proteins. The role of FtsN as a suppressor for other cell division mutations is poorly understood; it may involve cell wall hydrolysis.
Probab=23.32 E-value=2.1e+02 Score=26.84 Aligned_cols=50 Identities=14% Similarity=0.137 Sum_probs=31.3
Q ss_pred CCccceeEeeecccccCCCCccccccccCCCCHHHHHHHHHHHHHHHhhc
Q 018953 33 SNKKSFVASLMEAATLRSPSFKEDSYFVSQLKSSEKKALQELKNRLADSH 82 (348)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~s~k~~~~~l~~l~~~e~~~l~~Lr~~l~~~~ 82 (348)
+|.+.|-........-..+|-..+-.-...|+++|++.|+++..-.....
T Consensus 84 ~YikeLe~r~v~v~~~~~~~~~~~~~~~~~lt~eq~q~leq~~~d~r~~~ 133 (298)
T TIGR02223 84 SYIEELEAREVLINDPEEPSNGGGVEESAQLTAEQRQLLEQMQADMRAAE 133 (298)
T ss_pred cccccccCcccccCCccccccccccccccccCHHHHHHHHHHHHHHhhhh
Confidence 56666665544444322233223323357899999999999888877654
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=22.32 E-value=1.5e+02 Score=18.53 Aligned_cols=25 Identities=12% Similarity=0.030 Sum_probs=20.2
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHHH
Q 018953 104 RADVILLKFLRARDFRVLDSFNMLE 128 (348)
Q Consensus 104 ~~D~~LlRFLra~~~dv~~A~~~l~ 128 (348)
....++..-|..++||+.+|++.|.
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lg 29 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLG 29 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHC
Confidence 3457788999999999999999884
No 34
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=21.78 E-value=4.3e+02 Score=22.29 Aligned_cols=60 Identities=20% Similarity=0.231 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHHHhhcCCCCCCccccccccCCCCCCCchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Q 018953 61 SQLKSSEKKALQELKNRLADSHNGSGENECSMWGIPLLGTGDERADVILLKFLRARDFRVLDSFNMLEKCLAWRKE 136 (348)
Q Consensus 61 ~~l~~~e~~~l~~Lr~~l~~~~~~~~~~~~~~~~~p~l~~~~~~~D~~LlRFLra~~~dv~~A~~~l~~~l~wR~~ 136 (348)
-+||++++++|.++.+.=.... +.. ...+-.-+..-|++-+||..++...+.+..+-+.+
T Consensus 55 l~LTd~QR~qmr~im~~~r~~~-------------~~~---~~~~~~~m~~Li~Ad~FDeaAvra~~~kma~~~~e 114 (162)
T PRK12751 55 INLTEQQRQQMRDLMRQSHQSQ-------------PRL---DLEDREAMHKLITADKFDEAAVRAQAEKMSQNQIE 114 (162)
T ss_pred CCCCHHHHHHHHHHHHHhhhcc-------------cch---hHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 4789999988888776544432 100 12244567889999999999988888776665554
No 35
>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown. It is found as part of a CO oxidising (Cox) system operon in several bacteria [].
Probab=21.27 E-value=1.9e+02 Score=25.57 Aligned_cols=32 Identities=9% Similarity=0.130 Sum_probs=22.8
Q ss_pred ceEEEEEecCCCCchhHHHHHHHHHHHHhhhch
Q 018953 219 NSIIQVTDLKDMPKRELRVASNQILSLFQDNYP 251 (348)
Q Consensus 219 ~~~v~IiDl~g~s~~~l~~~~k~~~~~lq~~yP 251 (348)
..+++++|.+| ||..+..++-.++..+...++
T Consensus 58 ~~lvvl~DvSG-SM~~~s~~~l~~~~~l~~~~~ 89 (222)
T PF05762_consen 58 RRLVVLCDVSG-SMAGYSEFMLAFLYALQRQFR 89 (222)
T ss_pred ccEEEEEeCCC-ChHHHHHHHHHHHHHHHHhCC
Confidence 37999999999 666655555556666666666
No 36
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=20.59 E-value=2.5e+02 Score=25.82 Aligned_cols=46 Identities=15% Similarity=0.297 Sum_probs=30.0
Q ss_pred CCCCCCCCCCCCCccceeEeeecccccCCCCccccccccCCCCHHHHHHHHHHHHHHHhhc
Q 018953 22 PPPEASPKPYTSNKKSFVASLMEAATLRSPSFKEDSYFVSQLKSSEKKALQELKNRLADSH 82 (348)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~k~~~~~l~~l~~~e~~~l~~Lr~~l~~~~ 82 (348)
+++..+|+.| +...|-.....+.+++ +... -++.|+++|.|+.-+-
T Consensus 199 ~~~~spp~~y--s~crlQiRl~DG~Tl~-----~tF~--------a~E~L~~VR~wVd~n~ 244 (290)
T KOG2689|consen 199 APSQSPPTDY--SQCRLQIRLPDGQTLT-----QTFN--------ARETLAAVRLWVDLNR 244 (290)
T ss_pred ccccCCCCcc--cceEEEEEcCCCCeee-----eecC--------chhhHHHHHHHHHHhc
Confidence 5566667766 6666666666665522 2211 1568999999999885
No 37
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=20.32 E-value=1.1e+02 Score=22.37 Aligned_cols=21 Identities=24% Similarity=0.480 Sum_probs=18.6
Q ss_pred CCCHHHHHHHHHHHHHHHhhc
Q 018953 62 QLKSSEKKALQELKNRLADSH 82 (348)
Q Consensus 62 ~l~~~e~~~l~~Lr~~l~~~~ 82 (348)
.||++|++.|+|+-+.|....
T Consensus 2 ~LSe~E~r~L~eiEr~L~~~D 22 (82)
T PF11239_consen 2 PLSEHEQRRLEEIERQLRADD 22 (82)
T ss_pred CCCHHHHHHHHHHHHHHHhcC
Confidence 489999999999999998874
No 38
>COG2920 DsrC Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]
Probab=20.25 E-value=1.3e+02 Score=23.28 Aligned_cols=33 Identities=24% Similarity=0.462 Sum_probs=25.7
Q ss_pred HHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHhCCC
Q 018953 106 DVILLKFLRAR--DFRVLDSFNMLEKCLAWRKEFGAD 140 (348)
Q Consensus 106 D~~LlRFLra~--~~dv~~A~~~l~~~l~wR~~~~~~ 140 (348)
.+-++||+|.. .|+..-|.+||.++.+- +++.+
T Consensus 45 HWevv~fvR~fy~ef~tsPaiRMLvK~~~~--~~g~~ 79 (111)
T COG2920 45 HWEVVRFVREFYEEFNTSPAIRMLVKAMAK--KLGEE 79 (111)
T ss_pred HHHHHHHHHHHHHHHCCCchHHHHHHHHHH--HhCcc
Confidence 35689999986 68999999999988764 45443
No 39
>PHA01732 proline-rich protein
Probab=20.18 E-value=1.4e+02 Score=22.37 Aligned_cols=8 Identities=25% Similarity=0.360 Sum_probs=2.8
Q ss_pred cCCCCCCC
Q 018953 6 VPESSPSP 13 (348)
Q Consensus 6 ~~~~~~~~ 13 (348)
+|++.|+|
T Consensus 9 ~p~ppPpP 16 (94)
T PHA01732 9 PPEPPAPL 16 (94)
T ss_pred CCCCCCCC
Confidence 33333333
Done!