Query 021197
Match_columns 316
No_of_seqs 248 out of 1403
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 08:21:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021197.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021197hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1471 Phosphatidylinositol t 100.0 1E-37 2.3E-42 291.7 17.1 199 30-232 41-259 (317)
2 KOG1470 Phosphatidylinositol t 100.0 1E-36 2.2E-41 277.8 18.2 186 31-232 46-245 (324)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 1.8E-31 4E-36 224.3 10.1 153 65-223 2-157 (159)
4 smart00516 SEC14 Domain in hom 100.0 2.3E-29 5.1E-34 211.2 14.9 152 67-230 6-157 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 3.2E-25 6.9E-30 184.3 13.5 143 72-223 10-155 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.5 4.2E-15 9.1E-20 124.0 4.7 141 72-232 4-146 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.9 1.7E-09 3.7E-14 74.7 4.2 51 4-54 1-51 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.3 6.2E-06 1.3E-10 77.7 10.0 126 77-218 89-215 (467)
9 PF14555 UBA_4: UBA-like domai 81.2 2.9 6.2E-05 26.9 3.7 22 33-54 14-35 (43)
10 PF00627 UBA: UBA/TS-N domain; 78.9 4.7 0.0001 24.9 4.0 23 31-53 13-35 (37)
11 smart00165 UBA Ubiquitin assoc 58.1 22 0.00047 21.6 3.8 23 31-53 12-34 (37)
12 PF02845 CUE: CUE domain; Int 55.9 14 0.00029 23.5 2.6 24 30-53 13-36 (42)
13 KOG1534 Putative transcription 47.1 82 0.0018 28.1 6.8 87 127-217 94-193 (273)
14 smart00546 CUE Domain that may 46.1 27 0.00059 22.1 2.9 24 30-53 14-37 (43)
15 PF07862 Nif11: Nitrogen fixat 43.8 70 0.0015 20.8 4.7 45 3-51 2-46 (49)
16 TIGR02364 dha_pts dihydroxyace 38.9 69 0.0015 25.7 4.8 49 130-188 60-108 (125)
17 cd00194 UBA Ubiquitin Associat 33.5 47 0.001 20.1 2.5 23 31-53 12-34 (38)
18 PF03641 Lysine_decarbox: Poss 33.0 1.3E+02 0.0029 24.1 5.7 43 169-213 86-133 (133)
19 PF14213 DUF4325: Domain of un 27.4 2E+02 0.0044 20.4 5.3 48 134-184 20-69 (74)
20 COG1219 ClpX ATP-dependent pro 27.0 45 0.00098 31.6 2.2 21 34-54 144-164 (408)
21 COG2961 ComJ Protein involved 25.0 44 0.00094 30.4 1.6 26 168-193 237-262 (279)
22 COG2938 Uncharacterized conser 24.2 1.2E+02 0.0027 23.1 3.7 44 2-45 44-89 (94)
23 PF04378 RsmJ: Ribosomal RNA s 24.1 40 0.00086 30.5 1.2 30 167-196 205-234 (245)
24 PRK10553 assembly protein for 22.5 49 0.0011 24.9 1.3 16 283-298 39-54 (87)
25 TIGR02886 spore_II_AA anti-sig 21.1 3.5E+02 0.0077 20.1 6.0 50 133-186 41-90 (106)
No 1
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=1e-37 Score=291.72 Aligned_cols=199 Identities=34% Similarity=0.487 Sum_probs=173.1
Q ss_pred CCCCHHHHHHHHhcCCCChHHHccC-------------CCCCCH-HHHHHHHcccceeecCCCCCCCcEEEEeecCCCCC
Q 021197 30 QGNPTDTLVRFLKARDWNVSKAHKM-------------KPILPA-ELYRAVRDSQLVGVSGYSKEGLPVIAVGVGLSTHD 95 (316)
Q Consensus 30 ~~~~D~~LlRFLrar~fdv~kA~~m-------------~~i~~~-~~~~~l~~~~~~~~~G~Dk~GrPV~~~~~g~~~~~ 95 (316)
...+|.+|+||||||+||+++|.+| +.+... +....+.++.+.+++|.|++|+|+++.+.|..+..
T Consensus 41 ~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~d~i~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~ 120 (317)
T KOG1471|consen 41 KYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKLDEIFEDFEEDDELLKYYPQGLHGVDKEGRPVYIERLGKIDPK 120 (317)
T ss_pred CCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCccHhhccccchhhhhhccccccccCCCCCEEEEeccCCCCcc
Confidence 3677899999999999999999999 112211 22234444678999999999999999999999765
Q ss_pred ----CcCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCCCh--HHHHHHHHHhhhhcCcccccc
Q 021197 96 ----KASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQ--IKLMTVITTIDDLNYPEKTET 169 (316)
Q Consensus 96 ----~~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~~~--~~~~~~~~~i~q~~YPe~l~~ 169 (316)
.....+++++++..+|+..+.+++.+....+++++|++.|+||+|+++++++. +++++.++.++|+||||++++
T Consensus 121 ~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~~I~Dl~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~ 200 (317)
T KOG1471|consen 121 GLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIVTIFDLKGVSLSHLLKPAPTLLKKILKILQDNYPERLKR 200 (317)
T ss_pred cceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeEEEEECCCCcchhHHHHHHHHHHHHHHHHHHhCHHhhce
Confidence 35678899999999999888888877777678999999999999999999853 578999999999999999999
Q ss_pred EEEEcCChhHHHHHHHhcccCCHhhhcceEEeCCCChhHHHhhCCCCCcccccccCCCCcccc
Q 021197 170 YYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLPHFCRKEGSGSSRH 232 (316)
Q Consensus 170 i~iVNaP~~f~~~~~lvkpfL~~~t~~Ki~~~~~~~~~~L~k~i~~~~LP~~yGg~~GG~~~~ 232 (316)
+||||+|++|+++|++|||||+++|++||+++++++.++|+++|++++||.+| ||++.+
T Consensus 201 ~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~~~~~~L~k~i~~~~LP~~y----GG~~~~ 259 (317)
T KOG1471|consen 201 IHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHSKDKESLLKYIPPEVLPEEY----GGTCGD 259 (317)
T ss_pred EEEEcCchhHHHHHHHHhccCCHHHHhhheecCCCchhhhhhhCCHhhCcccc----CCCccc
Confidence 99999999999999999999999999999977888999999999999999999 666655
No 2
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=1e-36 Score=277.78 Aligned_cols=186 Identities=27% Similarity=0.419 Sum_probs=161.4
Q ss_pred CCCHHHHHHHHhcCCCChHHHccC-------------CC-CCCHHHHHHHHcccceeecCCCCCCCcEEEEeecCCCCCC
Q 021197 31 GNPTDTLVRFLKARDWNVSKAHKM-------------KP-ILPAELYRAVRDSQLVGVSGYSKEGLPVIAVGVGLSTHDK 96 (316)
Q Consensus 31 ~~~D~~LlRFLrar~fdv~kA~~m-------------~~-i~~~~~~~~l~~~~~~~~~G~Dk~GrPV~~~~~g~~~~~~ 96 (316)
.++|++++||||||+||+++|.+| .. +...++-.++ +.+.+++.|+|++||||+|+++.......
T Consensus 46 ~~~d~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~~~~Ev~~e~-~tGK~yi~G~D~~gRPVl~~~~~~~~qn~ 124 (324)
T KOG1470|consen 46 WCSDACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEVIEADEVAAEL-ETGKAYILGHDKDGRPVLYLRPRPHRQNT 124 (324)
T ss_pred cCcHHHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCccccCHHHHHHHh-hcCcEEEecccCCCCeEEEEecCCCCCCC
Confidence 568999999999999999999999 12 2223333333 56889999999999999999887766667
Q ss_pred cCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCCChHHHHHHHHHhhhhcCccccccEEEEcCC
Q 021197 97 ASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQIKLMTVITTIDDLNYPEKTETYYIVNAP 176 (316)
Q Consensus 97 ~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~~~~~~~~~~~~i~q~~YPe~l~~i~iVNaP 176 (316)
.+.+.+.|..++++|..+ ..++++++++++++|++|+|+++++ +++.+.+++++|+||||||+..+++|+|
T Consensus 125 ~t~~~~~r~~Vy~mE~Ai--------~~lp~~qe~~~~L~D~~~fs~sN~d-~~~~k~~~~~lq~hYPErLg~a~l~~~P 195 (324)
T KOG1470|consen 125 KTQKELERLLVYTLENAI--------LFLPPGQEQFVWLFDLTGFSMSNPD-IKFLKELLHILQDHYPERLGKALLVNAP 195 (324)
T ss_pred CCHHHHHHHHHHHHHHHH--------HhCCCCcceEEEEEecccCcccCCC-cHHHHHHHHHHHHhChHHhhhhhhcCCh
Confidence 788999999999988753 3567888999999999999999988 8999999999999999999999999999
Q ss_pred hhHHHHHHHhcccCCHhhhcceEEeCCCChhHHHhhCCCCCcccccccCCCCcccc
Q 021197 177 YIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLPHFCRKEGSGSSRH 232 (316)
Q Consensus 177 ~~f~~~~~lvkpfL~~~t~~Ki~~~~~~~~~~L~k~i~~~~LP~~yGg~~GG~~~~ 232 (316)
|+|..+|++|||||++.|++||+|..+ ...|.+|||+++||..| ||+...
T Consensus 196 ~iF~~~wkiikpflDp~t~~Kv~F~~~--~~~l~~~~d~~~l~s~~----GG~~~~ 245 (324)
T KOG1470|consen 196 WIFQPFWKIIKPFLDPKTASKVKFVEP--KDDLSEYFDESQLPSLF----GGKLLF 245 (324)
T ss_pred HHHHHHHHHhhhccChhhhceeEEecC--hhHHHhhCCccccchhh----CCCccc
Confidence 999999999999999999999999874 45699999999999999 675443
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=1.8e-31 Score=224.26 Aligned_cols=153 Identities=27% Similarity=0.462 Sum_probs=125.3
Q ss_pred HHHcccceeecCCCCCCCcEEEEeecCCCCCCcCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCccc
Q 021197 65 AVRDSQLVGVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLS 144 (316)
Q Consensus 65 ~l~~~~~~~~~G~Dk~GrPV~~~~~g~~~~~~~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~ 144 (316)
++.+.++++++|+|++||||+|+++|++++.+.+.++++++.++++|...+.. + .+.+++++++|+|++|++++
T Consensus 2 ~~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~-~-----~~~~~~~~~~iiD~~g~~~~ 75 (159)
T PF00650_consen 2 EILKSGPFYLHGRDKDGRPVIYIRLGRFDPKKFSPEDVIRFFVYLLERMLKRM-P-----EGGQVEGIVVIIDLSGFSLS 75 (159)
T ss_dssp HHHTTSCEEEEEE-TTS-EEEEEEGTT--HHTS-HHHHHHHHHHHHHHHHHTH-H-----HTSHHH-EEEEEE-TT--HH
T ss_pred HHHCCeeEEECCCCCCcCEEEEEEcccCCCCcCCHHHHHHHHHHHHHHHHhhh-c-----ccccceeEEEEEeCCCceEe
Confidence 35678899999999999999999999999888888999999999999876421 1 14678999999999999998
Q ss_pred CCCh--HHHHHHHHHhhhhcCccccccEEEEcCChhHHHHHHHhcccCCHhhhcceEEeCC-CChhHHHhhCCCCCcccc
Q 021197 145 ALNQ--IKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQG-NGRDELLKIMDYASLPHF 221 (316)
Q Consensus 145 ~~~~--~~~~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lvkpfL~~~t~~Ki~~~~~-~~~~~L~k~i~~~~LP~~ 221 (316)
+++. +++++.+++++|++|||+++++||||+|++|+++|++++|||+++|++||+++++ ++.++|.++|++++||.+
T Consensus 76 ~~~~~~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~lP~~ 155 (159)
T PF00650_consen 76 NFDWWPISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQLPVE 155 (159)
T ss_dssp HHHCHHHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGGSBGG
T ss_pred ccccchhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhHCchh
Confidence 8753 6789999999999999999999999999999999999999999999999999965 455799999999999999
Q ss_pred cc
Q 021197 222 CR 223 (316)
Q Consensus 222 yG 223 (316)
||
T Consensus 156 ~G 157 (159)
T PF00650_consen 156 YG 157 (159)
T ss_dssp GT
T ss_pred cC
Confidence 93
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=99.96 E-value=2.3e-29 Score=211.22 Aligned_cols=152 Identities=26% Similarity=0.461 Sum_probs=137.1
Q ss_pred HcccceeecCCCCCCCcEEEEeecCCCCCCcCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCC
Q 021197 67 RDSQLVGVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSAL 146 (316)
Q Consensus 67 ~~~~~~~~~G~Dk~GrPV~~~~~g~~~~~~~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~ 146 (316)
+.+.+.++ |+|++||||++++++.++.+..+.+++++++++.+|...+. ...+.+++++++|+|++|++++++
T Consensus 6 ~~~~~~~~-g~D~~GrpV~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~------~~~~~~~~~~~~i~D~~~~~~~~~ 78 (158)
T smart00516 6 KAYIPGGR-GYDKDGRPVLIFRAGRFDLKSVTLEELLRYLVYVLEKILQR------EKKTGGIEGFTVIFDLKGLSMSNP 78 (158)
T ss_pred HHhcCCCC-CCCCCcCEEEEEeccccccCcCCHHHHHHHHHHHHHHHHHH------HhcCCCeeeEEEEEECCCCCcccc
Confidence 34556666 99999999999999999988899999999999999986432 234678899999999999999996
Q ss_pred ChHHHHHHHHHhhhhcCccccccEEEEcCChhHHHHHHHhcccCCHhhhcceEEeCCCChhHHHhhCCCCCcccccccCC
Q 021197 147 NQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLPHFCRKEG 226 (316)
Q Consensus 147 ~~~~~~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lvkpfL~~~t~~Ki~~~~~~~~~~L~k~i~~~~LP~~yGg~~ 226 (316)
+ +++++.++++++++||++++++||||+|++++++|+++++||+++|++||+++++++.+.|.++|++++||.+|
T Consensus 79 ~-~~~lk~~~~~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~L~~~i~~~~lP~~~---- 153 (158)
T smart00516 79 D-LSVLRKILKILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGNDSKEELLEYIDPEQLPEEL---- 153 (158)
T ss_pred c-HHHHHHHHHHHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCCCCHHHHHhhCCHhhCcHhh----
Confidence 5 78999999999999999999999999999999999999999999999999999877789999999999999999
Q ss_pred CCcc
Q 021197 227 SGSS 230 (316)
Q Consensus 227 GG~~ 230 (316)
||++
T Consensus 154 GG~~ 157 (158)
T smart00516 154 GGTL 157 (158)
T ss_pred CCCC
Confidence 6664
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=184.28 Aligned_cols=143 Identities=33% Similarity=0.525 Sum_probs=122.6
Q ss_pred eeecC-CCCCCCcEEEEeecCCCCCC-cCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCCC-h
Q 021197 72 VGVSG-YSKEGLPVIAVGVGLSTHDK-ASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALN-Q 148 (316)
Q Consensus 72 ~~~~G-~Dk~GrPV~~~~~g~~~~~~-~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~~-~ 148 (316)
+++.| .|++||||++.+++..++.. ...++++++.++.+|...+. .....+++++|+|++|++++++. .
T Consensus 10 ~~~~~~~D~~gr~V~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~--------~~~~~~~~~~i~D~~~~~~~~~~~~ 81 (157)
T cd00170 10 VGYLGGRDKEGRPVLIIRAGNKDLSKSLDSEELLRYLVYTLEKLLQE--------DDEQVEGFVVIIDLKGLSLSHLLPD 81 (157)
T ss_pred ccccCCCCCCcCEEEEEecCCcchhhcCCHHHHHHHHHHHHHHHHhh--------hhhcccceEEEEECCCCChhccchh
Confidence 34444 59999999999999765543 33488999999988876442 12233799999999999999884 4
Q ss_pred HHHHHHHHHhhhhcCccccccEEEEcCChhHHHHHHHhcccCCHhhhcceEEeCCCChhHHHhhCCCCCcccccc
Q 021197 149 IKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLPHFCR 223 (316)
Q Consensus 149 ~~~~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lvkpfL~~~t~~Ki~~~~~~~~~~L~k~i~~~~LP~~yG 223 (316)
++.++.++.+++++||++++++||||+|++++++|+++++|+++++++||++++++ .++|.++|++++||.+||
T Consensus 82 ~~~~k~~~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~-~~~L~~~i~~~~Lp~~~G 155 (157)
T cd00170 82 PSLLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSD-KEELLKYIDKEQLPEEYG 155 (157)
T ss_pred HHHHHHHHHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCC-HHHHHhhCChhhCcHhhC
Confidence 68899999999999999999999999999999999999999999999999998754 799999999999999994
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.54 E-value=4.2e-15 Score=123.98 Aligned_cols=141 Identities=16% Similarity=0.228 Sum_probs=95.3
Q ss_pred eeecCCCCCCCcEEEEeecCCCCCCcCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCCChHHH
Q 021197 72 VGVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQIKL 151 (316)
Q Consensus 72 ~~~~G~Dk~GrPV~~~~~g~~~~~~~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~~~~~~ 151 (316)
++..|+|++||||+++....+ ++....+.++.+.+..++ + .-...++++|+|+++++..+......
T Consensus 4 ~~~gG~d~~g~pV~~~~~~~~-~~~~~~~~ll~yl~~~l~-------~------~~~~~~f~vVid~~~~~~~~~~~~~~ 69 (149)
T PF13716_consen 4 FYPGGRDREGRPVVVFIASRL-PSSDDLERLLLYLLSTLS-------E------EVVDKPFSVVIDHTGFSRSSEPSLSW 69 (149)
T ss_dssp -EEEEEBTTS-EEEEEEGGG--C-TTHHHHHHHHHHHHH--------T------TTTTS-EEEEEE-TT--GGG---HHH
T ss_pred EEecccCCCcCEEEEEECCcC-cchhhHHHHHHHHHHhhh-------H------HhcCCCEEEEEEcCCCccccCCchHH
Confidence 456789999999999998887 544555666655443321 1 11224699999999998876655788
Q ss_pred HHHHHHhhhhcCccccccEEEEcCChhHHHHH-HHhcccCCHhh-hcceEEeCCCChhHHHhhCCCCCcccccccCCCCc
Q 021197 152 MTVITTIDDLNYPEKTETYYIVNAPYIFSACW-KVVKPLLQERT-RRKMQVLQGNGRDELLKIMDYASLPHFCRKEGSGS 229 (316)
Q Consensus 152 ~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~-~lvkpfL~~~t-~~Ki~~~~~~~~~~L~k~i~~~~LP~~yGg~~GG~ 229 (316)
++++..++...|+..++++||||++++++.+. .+.+++.+.+. ..|++++. ..++|.++||+++||... ||+
T Consensus 70 l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~--sl~~L~~~i~~~qL~~~l----p~~ 143 (149)
T PF13716_consen 70 LKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVS--SLSELSKHIDPSQLPESL----PGV 143 (149)
T ss_dssp HHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEES--STCGGGGTSGGGG----------HH
T ss_pred HHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEEC--CHHHHHhhCCHHHhcccC----CCE
Confidence 99999999999999999999999999999999 56677788888 89999887 489999999999999999 777
Q ss_pred ccc
Q 021197 230 SRH 232 (316)
Q Consensus 230 ~~~ 232 (316)
..+
T Consensus 144 ~~~ 146 (149)
T PF13716_consen 144 LQY 146 (149)
T ss_dssp H--
T ss_pred Eec
Confidence 765
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=98.89 E-value=1.7e-09 Score=74.74 Aligned_cols=51 Identities=29% Similarity=0.585 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhhCchHHHHHHhhccCCCCHHHHHHHHhcCCCChHHHccC
Q 021197 4 QEEIKQFQTLMEDLDDSLKETFKNVHQGNPTDTLVRFLKARDWNVSKAHKM 54 (316)
Q Consensus 4 ~~~i~elr~~l~~~~~~l~~~~~~~~~~~~D~~LlRFLrar~fdv~kA~~m 54 (316)
++++++|++.+..............+...+|.+|+||||||+||+++|.+|
T Consensus 1 k~~l~~l~~~l~~~~~~~~~~~~~~~~~~~d~~llRFLRARkf~v~~A~~m 51 (55)
T PF03765_consen 1 KQKLKQLREHLSELDEKAPGLWDDEKEDHDDNFLLRFLRARKFDVEKAFKM 51 (55)
T ss_dssp HHHHHHHHHHHHH--GGGTHHHTTHTSS-SHHHHHHHHHHTTT-HHHHHHH
T ss_pred CHHHHHHHHHHHHhccchhcccccccCCCCHHHHHHHHHHccCCHHHHHHH
Confidence 589999999998864322111123456789999999999999999999987
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.25 E-value=6.2e-06 Score=77.74 Aligned_cols=126 Identities=17% Similarity=0.209 Sum_probs=98.2
Q ss_pred CCCCCCcEEEEeecCCCCCC-cCHHHHHHHHHHHHHHHHhhcchhhhhhhCCCcccEEEEEeCCCCcccCCChHHHHHHH
Q 021197 77 YSKEGLPVIAVGVGLSTHDK-ASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQIKLMTVI 155 (316)
Q Consensus 77 ~Dk~GrPV~~~~~g~~~~~~-~~~~~~l~~~i~~~E~~~~~~l~~~~~~~~~~v~~~v~I~Dl~g~s~~~~~~~~~~~~~ 155 (316)
+|++||+|+++.+.++...+ ..--.++++.++..++.++ +..+.++=-.|+...+...++++.+.
T Consensus 89 ~D~~gr~iivv~a~rlp~~~eld~~~li~~~v~~id~~Ve--------------~DYt~vYfh~gl~s~nkp~l~~l~~a 154 (467)
T KOG4406|consen 89 KDKQGRKIIVVYACRLPSSSELDDIRLISYLVYTIDKYVE--------------NDYTLVYFHHGLPSDNKPYLQLLFDA 154 (467)
T ss_pred ccccCCeeEEEEEecCCchhhhhhHHHHHHHHHHHHHHHh--------------ccceeeehhcCCcccccchHHHHHHH
Confidence 69999999999999986532 2222377777776665422 11444554567777777667777777
Q ss_pred HHhhhhcCccccccEEEEcCChhHHHHHHHhcccCCHhhhcceEEeCCCChhHHHhhCCCCCc
Q 021197 156 TTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASL 218 (316)
Q Consensus 156 ~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lvkpfL~~~t~~Ki~~~~~~~~~~L~k~i~~~~L 218 (316)
..-+..+|--.++.+|+|.+-|+..++|+++|||++.+..+||.-+. ..++|.+++.-++|
T Consensus 155 Yke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~n--~lseL~~~l~l~rL 215 (467)
T KOG4406|consen 155 YKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYFN--SLSELFEALKLNRL 215 (467)
T ss_pred HHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEee--hHHHHHHhhhhhhh
Confidence 77777899999999999999999999999999999999999999876 58999998875544
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=81.15 E-value=2.9 Score=26.87 Aligned_cols=22 Identities=23% Similarity=0.622 Sum_probs=17.7
Q ss_pred CHHHHHHHHhcCCCChHHHccC
Q 021197 33 PTDTLVRFLKARDWNVSKAHKM 54 (316)
Q Consensus 33 ~D~~LlRFLrar~fdv~kA~~m 54 (316)
++..-..||.+++||++.|...
T Consensus 14 ~~~~A~~~L~~~~wdle~Av~~ 35 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLEAAVNA 35 (43)
T ss_dssp SHHHHHHHHHHTTT-HHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHH
Confidence 4558899999999999999764
No 10
>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=78.92 E-value=4.7 Score=24.87 Aligned_cols=23 Identities=26% Similarity=0.254 Sum_probs=19.0
Q ss_pred CCCHHHHHHHHhcCCCChHHHcc
Q 021197 31 GNPTDTLVRFLKARDWNVSKAHK 53 (316)
Q Consensus 31 ~~~D~~LlRFLrar~fdv~kA~~ 53 (316)
+++.....+-|+++++|++.|..
T Consensus 13 Gf~~~~~~~AL~~~~~nve~A~~ 35 (37)
T PF00627_consen 13 GFSREQAREALRACNGNVERAVD 35 (37)
T ss_dssp TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred CCCHHHHHHHHHHcCCCHHHHHH
Confidence 67777889999999999999864
No 11
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=58.07 E-value=22 Score=21.57 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHhcCCCChHHHcc
Q 021197 31 GNPTDTLVRFLKARDWNVSKAHK 53 (316)
Q Consensus 31 ~~~D~~LlRFLrar~fdv~kA~~ 53 (316)
++++....+-|+++++|+++|..
T Consensus 12 Gf~~~~a~~aL~~~~~d~~~A~~ 34 (37)
T smart00165 12 GFSREEALKALRAANGNVERAAE 34 (37)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHH
Confidence 88888999999999999999853
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=55.85 E-value=14 Score=23.46 Aligned_cols=24 Identities=17% Similarity=0.163 Sum_probs=20.9
Q ss_pred CCCCHHHHHHHHhcCCCChHHHcc
Q 021197 30 QGNPTDTLVRFLKARDWNVSKAHK 53 (316)
Q Consensus 30 ~~~~D~~LlRFLrar~fdv~kA~~ 53 (316)
++++...+.+-|+++++|++.|..
T Consensus 13 P~~~~~~I~~~L~~~~~~ve~ai~ 36 (42)
T PF02845_consen 13 PDLDREVIEAVLQANNGDVEAAID 36 (42)
T ss_dssp SSS-HHHHHHHHHHTTTTHHHHHH
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHH
Confidence 688889999999999999999865
No 13
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=47.07 E-value=82 Score=28.13 Aligned_cols=87 Identities=15% Similarity=0.282 Sum_probs=52.8
Q ss_pred CCcccEEEEEeCCCCc--ccCCChHHHHHHHHHhhhhcCccccccEEEEc------CChhHHHHHHHhcccCCH-----h
Q 021197 127 RYIGTSLKVLDMTGLK--LSALNQIKLMTVITTIDDLNYPEKTETYYIVN------APYIFSACWKVVKPLLQE-----R 193 (316)
Q Consensus 127 ~~v~~~v~I~Dl~g~s--~~~~~~~~~~~~~~~i~q~~YPe~l~~i~iVN------aP~~f~~~~~lvkpfL~~-----~ 193 (316)
+.++.-.+|+||-|-= +.|+ .++++++.-++. .=-++..+|++. +..+++.+.+.++.++.- .
T Consensus 94 Gd~eddylifDcPGQIELytH~---pVm~~iv~hl~~-~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~IN 169 (273)
T KOG1534|consen 94 GDVEDDYLIFDCPGQIELYTHL---PVMPQIVEHLKQ-WNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHIN 169 (273)
T ss_pred cCccCCEEEEeCCCeeEEeecC---hhHHHHHHHHhc-ccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchh
Confidence 4566778899998742 3454 457777766655 334555555555 455666666665555432 2
Q ss_pred hhcceEEeCCCChhHHHhhCCCCC
Q 021197 194 TRRKMQVLQGNGRDELLKIMDYAS 217 (316)
Q Consensus 194 t~~Ki~~~~~~~~~~L~k~i~~~~ 217 (316)
..+|.-.+++..++.|.++.+|+.
T Consensus 170 vlsKMDLlk~~~k~~l~~Fl~~d~ 193 (273)
T KOG1534|consen 170 VLSKMDLLKDKNKKELERFLNPDE 193 (273)
T ss_pred hhhHHHHhhhhhHHHHHHhcCCch
Confidence 455666555556777777777663
No 14
>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=46.12 E-value=27 Score=22.11 Aligned_cols=24 Identities=17% Similarity=0.169 Sum_probs=21.5
Q ss_pred CCCCHHHHHHHHhcCCCChHHHcc
Q 021197 30 QGNPTDTLVRFLKARDWNVSKAHK 53 (316)
Q Consensus 30 ~~~~D~~LlRFLrar~fdv~kA~~ 53 (316)
+..++..+.+-|+++++|++.|..
T Consensus 14 P~l~~~~I~~~L~~~~g~ve~~i~ 37 (43)
T smart00546 14 PNLDEEVIKAVLEANNGNVEATIN 37 (43)
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHH
Confidence 688888999999999999999874
No 15
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=43.78 E-value=70 Score=20.79 Aligned_cols=45 Identities=16% Similarity=0.327 Sum_probs=32.1
Q ss_pred hHHHHHHHHHHHhhCchHHHHHHhhccCCCCHHHHHHHHhcCCCChHHH
Q 021197 3 HQEEIKQFQTLMEDLDDSLKETFKNVHQGNPTDTLVRFLKARDWNVSKA 51 (316)
Q Consensus 3 ~~~~i~elr~~l~~~~~~l~~~~~~~~~~~~D~~LlRFLrar~fdv~kA 51 (316)
|.+.++.|.+.++..+ .|+..+... -+..-++++.+..+|++..+
T Consensus 2 S~~~l~~Fl~~~~~d~-~l~~~l~~~---~~~~e~~~lA~~~Gy~ft~~ 46 (49)
T PF07862_consen 2 SIESLKAFLEKVKSDP-ELREQLKAC---QNPEEVVALAREAGYDFTEE 46 (49)
T ss_pred CHHHHHHHHHHHhcCH-HHHHHHHhc---CCHHHHHHHHHHcCCCCCHH
Confidence 5677888888886554 466666442 26678899999999987654
No 16
>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=38.89 E-value=69 Score=25.69 Aligned_cols=49 Identities=18% Similarity=0.253 Sum_probs=34.6
Q ss_pred ccEEEEEeCCCCcccCCChHHHHHHHHHhhhhcCccccccEEEEcCChhHHHHHHHhcc
Q 021197 130 GTSLKVLDMTGLKLSALNQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKP 188 (316)
Q Consensus 130 ~~~v~I~Dl~g~s~~~~~~~~~~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lvkp 188 (316)
++++++.|+ |-+..+.. .++.+++ ++..+++..+|+|.+..++-..+..
T Consensus 60 dgVlvl~DL-Ggs~~n~e------~a~~~l~---~~~~~~v~g~nlPlvega~~aa~~~ 108 (125)
T TIGR02364 60 DGVLIFYDL-GSAVMNAE------MAVELLE---DEDRDKVHLVDAPLVEGAFAAAVEA 108 (125)
T ss_pred CCEEEEEcC-CCcHhHHH------HHHHHhc---cccccEEEEechhHHHHHHHHHHHH
Confidence 689999999 76653311 1223332 4666899999999999998887654
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=33.54 E-value=47 Score=20.09 Aligned_cols=23 Identities=26% Similarity=0.331 Sum_probs=20.7
Q ss_pred CCCHHHHHHHHhcCCCChHHHcc
Q 021197 31 GNPTDTLVRFLKARDWNVSKAHK 53 (316)
Q Consensus 31 ~~~D~~LlRFLrar~fdv~kA~~ 53 (316)
+++.....+-|+++++|+++|..
T Consensus 12 Gf~~~~~~~AL~~~~~d~~~A~~ 34 (38)
T cd00194 12 GFSREEARKALRATNNNVERAVE 34 (38)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHH
Confidence 78888999999999999999864
No 18
>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=33.02 E-value=1.3e+02 Score=24.06 Aligned_cols=43 Identities=7% Similarity=0.197 Sum_probs=34.9
Q ss_pred cEEEEcCChhHHHHHHHh-----cccCCHhhhcceEEeCCCChhHHHhhC
Q 021197 169 TYYIVNAPYIFSACWKVV-----KPLLQERTRRKMQVLQGNGRDELLKIM 213 (316)
Q Consensus 169 ~i~iVNaP~~f~~~~~lv-----kpfL~~~t~~Ki~~~~~~~~~~L~k~i 213 (316)
-++++|..-++..+++++ .-|++++....+.++. +.+++.++|
T Consensus 86 Piil~~~~g~w~~l~~~l~~~~~~g~i~~~~~~~~~~~d--~~~e~~~~i 133 (133)
T PF03641_consen 86 PIILLNIDGFWDPLLEFLDRMIEEGFISPDDLDLLHFVD--DPEEALEYI 133 (133)
T ss_dssp EEEEEECGGCCHHHHHHHHHHHHTTSSSHHHHCCEEEES--SHHHHHHHH
T ss_pred CEEEeCCcchHHHHHHHHHHHHHCCCCCHHHCCeEEEeC--CHHHHHhhC
Confidence 699999987778887776 5799999999999976 477777654
No 19
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=27.36 E-value=2e+02 Score=20.37 Aligned_cols=48 Identities=17% Similarity=0.081 Sum_probs=29.5
Q ss_pred EEEeCCCCcccCCChHHHHHHHHHhhhhcCc--cccccEEEEcCChhHHHHHH
Q 021197 134 KVLDMTGLKLSALNQIKLMTVITTIDDLNYP--EKTETYYIVNAPYIFSACWK 184 (316)
Q Consensus 134 ~I~Dl~g~s~~~~~~~~~~~~~~~i~q~~YP--e~l~~i~iVNaP~~f~~~~~ 184 (316)
+++|+.|+..-. -+++-.+..-+...|| +.-.++.++|+......+.+
T Consensus 20 V~lDF~gv~~~~---ssFl~eafg~l~~~~~~~~~~~~l~~~~~~~~~~~~I~ 69 (74)
T PF14213_consen 20 VVLDFEGVESIT---SSFLNEAFGQLVREFGEEEIKKRLKFKNANESIKEMIK 69 (74)
T ss_pred EEEECCCccccc---HHHHHHHHHHHHHHcCHHHHhheeEEecCCHHHHHHHH
Confidence 789999995322 2455555544445556 45567778887666554443
No 20
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=27.01 E-value=45 Score=31.60 Aligned_cols=21 Identities=29% Similarity=0.613 Sum_probs=19.7
Q ss_pred HHHHHHHHhcCCCChHHHccC
Q 021197 34 TDTLVRFLKARDWNVSKAHKM 54 (316)
Q Consensus 34 D~~LlRFLrar~fdv~kA~~m 54 (316)
+..|+|.|.|++|||++|.+=
T Consensus 144 ENillkLlqaadydV~rAerG 164 (408)
T COG1219 144 ENILLKLLQAADYDVERAERG 164 (408)
T ss_pred HHHHHHHHHHcccCHHHHhCC
Confidence 689999999999999999876
No 21
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=25.04 E-value=44 Score=30.41 Aligned_cols=26 Identities=15% Similarity=0.359 Sum_probs=22.5
Q ss_pred ccEEEEcCChhHHHHHHHhcccCCHh
Q 021197 168 ETYYIVNAPYIFSACWKVVKPLLQER 193 (316)
Q Consensus 168 ~~i~iVNaP~~f~~~~~lvkpfL~~~ 193 (316)
..++|||+||.+..-...+-|+|...
T Consensus 237 SGMivINPPwtle~ql~~~LP~L~~~ 262 (279)
T COG2961 237 SGMIVINPPWTLEQQLRAALPWLTTL 262 (279)
T ss_pred eeEEEECCCccHHHHHHHHHHHHHHH
Confidence 46899999999999999988888764
No 22
>COG2938 Uncharacterized conserved protein [Function unknown]
Probab=24.17 E-value=1.2e+02 Score=23.10 Aligned_cols=44 Identities=25% Similarity=0.333 Sum_probs=32.0
Q ss_pred chHHHHHHHHHHHhhCchHHHHHHhh--ccCCCCHHHHHHHHhcCC
Q 021197 2 AHQEEIKQFQTLMEDLDDSLKETFKN--VHQGNPTDTLVRFLKARD 45 (316)
Q Consensus 2 ~~~~~i~elr~~l~~~~~~l~~~~~~--~~~~~~D~~LlRFLrar~ 45 (316)
.|++.+.+|.++++..+..|=.|+-+ .+++..+.-+++-+++..
T Consensus 44 lsd~el~~f~~LLe~~D~dL~~Wi~g~~~~~~~~~~~mv~~I~~~~ 89 (94)
T COG2938 44 LSDEELDEFERLLECEDNDLFNWIMGHGEPPDAELTPMVRKIQARR 89 (94)
T ss_pred CCHHHHHHHHHHHcCCcHHHHHHHhCCCCCCcHHHHHHHHHHHHHh
Confidence 36788999999999888778888843 355565666777666543
No 23
>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=24.09 E-value=40 Score=30.50 Aligned_cols=30 Identities=20% Similarity=0.367 Sum_probs=21.7
Q ss_pred cccEEEEcCChhHHHHHHHhcccCCHhhhc
Q 021197 167 TETYYIVNAPYIFSACWKVVKPLLQERTRR 196 (316)
Q Consensus 167 l~~i~iVNaP~~f~~~~~lvkpfL~~~t~~ 196 (316)
=.-++|||+||-+....+-+-|+|.+....
T Consensus 205 GSGm~iiNPPw~l~~~l~~~l~~L~~~L~~ 234 (245)
T PF04378_consen 205 GSGMLIINPPWTLDEELEEILPWLAETLAQ 234 (245)
T ss_dssp EEEEEEES--TTHHHHHHHHHHHHHHHSST
T ss_pred cceEEEEcCCccHHHHHHHHHHHHHHHhCc
Confidence 356899999999999888888877765443
No 24
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=22.54 E-value=49 Score=24.86 Aligned_cols=16 Identities=13% Similarity=0.171 Sum_probs=13.1
Q ss_pred Cccceeeeeecccccc
Q 021197 283 PEGAKITKKIESEFHR 298 (316)
Q Consensus 283 ~~~~~~~~~~~~~~~~ 298 (316)
++.||||.|||.+...
T Consensus 39 ~~~GKiVVtiE~~~~~ 54 (87)
T PRK10553 39 APSGQLIVVVEAEDSE 54 (87)
T ss_pred CCCCeEEEEEEeCChH
Confidence 4789999999987654
No 25
>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=21.13 E-value=3.5e+02 Score=20.05 Aligned_cols=50 Identities=4% Similarity=0.042 Sum_probs=33.6
Q ss_pred EEEEeCCCCcccCCChHHHHHHHHHhhhhcCccccccEEEEcCChhHHHHHHHh
Q 021197 133 LKVLDMTGLKLSALNQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVV 186 (316)
Q Consensus 133 v~I~Dl~g~s~~~~~~~~~~~~~~~i~q~~YPe~l~~i~iVNaP~~f~~~~~lv 186 (316)
.+|+||++++.=..+.+..+..+..-++ ..=.+++++|++.-+.-++.+.
T Consensus 41 ~vilDls~v~~iDssgi~~L~~~~~~~~----~~g~~l~l~~~~~~v~~~l~~~ 90 (106)
T TIGR02886 41 HLILNLKNVTFMDSSGLGVILGRYKKIK----NEGGEVIVCNVSPAVKRLFELS 90 (106)
T ss_pred EEEEECCCCcEecchHHHHHHHHHHHHH----HcCCEEEEEeCCHHHHHHHHHh
Confidence 6899999998765544444444443333 2447899999988777766543
Done!