Query 011327
Match_columns 488
No_of_seqs 342 out of 1557
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 00:07:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011327.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011327hhsearch_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 9.8E-46 2.1E-50 376.5 23.2 274 70-346 6-284 (317)
2 KOG1470 Phosphatidylinositol t 100.0 3.7E-40 8.1E-45 330.5 19.7 206 106-338 48-253 (324)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 8.7E-31 1.9E-35 238.8 9.2 157 155-321 2-159 (159)
4 smart00516 SEC14 Domain in hom 100.0 3.8E-28 8.3E-33 221.1 14.7 154 156-323 5-158 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 3.3E-25 7.2E-30 198.9 14.8 145 164-321 13-157 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.4 2.2E-14 4.7E-19 130.5 2.2 140 164-326 6-148 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.8 9.5E-09 2.1E-13 78.4 5.2 47 85-132 1-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.2 5E-06 1.1E-10 86.3 9.6 127 167-314 89-215 (467)
9 PF14555 UBA_4: UBA-like domai 77.8 8.8 0.00019 27.5 5.7 37 86-131 2-38 (43)
10 PF02845 CUE: CUE domain; Int 65.7 21 0.00046 25.3 5.4 38 86-131 3-40 (42)
11 smart00546 CUE Domain that may 56.6 31 0.00068 24.5 4.9 38 86-131 4-41 (43)
12 KOG1838 Alpha/beta hydrolase [ 36.1 2.6E+02 0.0057 30.1 9.9 90 168-282 121-216 (409)
13 PRK00117 recX recombination re 35.4 48 0.001 30.2 3.9 78 50-133 77-154 (157)
14 PRK14136 recX recombination re 32.7 39 0.00085 34.9 3.0 24 108-131 278-301 (309)
15 PRK11613 folP dihydropteroate 29.0 6.4E+02 0.014 25.7 12.1 43 221-264 175-217 (282)
16 COG4479 Uncharacterized protei 27.8 1.5E+02 0.0033 24.0 4.9 52 85-136 18-72 (74)
17 PRK14137 recX recombination re 25.3 1.6E+02 0.0036 28.3 5.8 26 109-134 156-181 (195)
18 PRK09261 phospho-2-dehydro-3-d 25.0 4.1E+02 0.0088 28.1 9.0 71 159-240 204-276 (349)
19 KOG1534 Putative transcription 24.8 1.8E+02 0.0038 29.0 5.8 50 220-275 93-144 (273)
20 PF11964 SpoIIAA-like: SpoIIAA 23.5 3.2E+02 0.007 22.5 6.8 56 224-285 31-87 (109)
21 TIGR00034 aroFGH phospho-2-deh 23.4 1.5E+02 0.0033 31.2 5.4 67 159-236 199-265 (344)
22 cd00392 Ribosomal_L13 Ribosoma 23.1 1.6E+02 0.0034 26.0 4.8 49 228-303 2-57 (114)
23 PF04378 RsmJ: Ribosomal RNA s 22.1 52 0.0011 32.9 1.7 28 263-290 205-232 (245)
24 PRK12822 phospho-2-dehydro-3-d 21.7 2.8E+02 0.006 29.4 6.9 84 159-254 204-288 (356)
25 COG2961 ComJ Protein involved 21.2 68 0.0015 32.4 2.3 27 263-289 236-262 (279)
26 TIGR02886 spore_II_AA anti-sig 20.8 3.5E+02 0.0077 22.3 6.4 50 226-281 40-89 (106)
27 cd00194 UBA Ubiquitin Associat 20.4 1.5E+02 0.0033 20.0 3.4 22 109-130 16-37 (38)
No 1
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=9.8e-46 Score=376.53 Aligned_cols=274 Identities=46% Similarity=0.766 Sum_probs=245.5
Q ss_pred ccccccccCCCC--HHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCcccc
Q 011327 70 RVSSVSIEDVRD--VEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMED 147 (488)
Q Consensus 70 ~~~s~~ied~~d--~~E~~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L~~~l~WRke~g~d~i~~d 147 (488)
.++.+..+++.+ +.+.+.++++| |+..+++++...+|.++||||||||+||+++|+++|.+++.||.+++.+.|..+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~i~~lr-~~~~~~~l~~~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~d~i~~~ 84 (317)
T KOG1471|consen 6 MLAKVAKEELNEITESEEAVIAQLR-WLLQKPHLPNKYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKLDEIFED 84 (317)
T ss_pred ccccccccccCCCcHHHHHHHHHHH-HHhhccCCCCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCccHhhc
Confidence 444555554444 55677777777 888899999755555799999999999999999999999999999999999876
Q ss_pred hhhHHHHHHHhhcCcccccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeE
Q 011327 148 FEFKEINEVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSST 227 (488)
Q Consensus 148 ~~~~el~evlk~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~t 227 (488)
.....++.++++++++|+|++|+||++.+.|..+...++..+...++.++++..+|+.+..+++.|.....++++|++
T Consensus 85 --~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~ 162 (317)
T KOG1471|consen 85 --FEEDDELLKYYPQGLHGVDKEGRPVYIERLGKIDPKGLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIV 162 (317)
T ss_pred --cccchhhhhhccccccccCCCCCEEEEeccCCCCcccceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeE
Confidence 234445566889999999999999999999999999999999999999999999999999999998887778999999
Q ss_pred EEEeCCCCCCCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCCcchHHHHc
Q 011327 228 SILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLE 307 (488)
Q Consensus 228 vIiDl~G~slk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~~~e~L~e 307 (488)
+|+|++|+++.++....+.+++.++.++|+||||+++++||||+|++|.++|++|||||+++|++||++++.++.+.|.+
T Consensus 163 ~I~Dl~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~~~~~~L~k 242 (317)
T KOG1471|consen 163 TIFDLKGVSLSHLLKPAPTLLKKILKILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHSKDKESLLK 242 (317)
T ss_pred EEEECCCCcchhHHHHHHHHHHHHHHHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecCCCchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999777778899999
Q ss_pred ccCCCCCCccCCCCCCCC---CCCCCccCCCCCCCCHHHHHH
Q 011327 308 IIDARELPEFLGGTCNCA---DQGGCLRSDKGPWQNPEILKM 346 (488)
Q Consensus 308 ~Id~~~LP~e~GGt~~~~---~~ggcl~~~~gpW~~p~~~k~ 346 (488)
+|++++||++|||+|.+. ..++|..++.++|.++.+.+.
T Consensus 243 ~i~~~~LP~~yGG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 284 (317)
T KOG1471|consen 243 YIPPEVLPEEYGGTCGDLDDPNGGGCDLSDEGPWKEPEIKKG 284 (317)
T ss_pred hCCHhhCccccCCCccccccccCCcCcccccccccccccccc
Confidence 999999999999999996 457799999999988776553
No 2
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=3.7e-40 Score=330.52 Aligned_cols=206 Identities=32% Similarity=0.523 Sum_probs=183.0
Q ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCcccchhhHHHHHHHhhcCcccccCCCCCCcEEEEecCccCcc
Q 011327 106 DDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMEDFEFKEINEVLSYYPHGYHGVDKEGRPVYIERLGKVDSN 185 (488)
Q Consensus 106 dD~~~LLRFLrArkfDvekA~k~L~~~l~WRke~g~d~i~~d~~~~el~evlk~~p~~~~G~Dk~GRPVli~rlg~~d~~ 185 (488)
+| .|++||||||+||+++|.+|+.++|.||+.+++..++ ...|+...++.+++++.|.|++||||+|+++....++
T Consensus 48 ~d-~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~---~~~Ev~~e~~tGK~yi~G~D~~gRPVl~~~~~~~~qn 123 (324)
T KOG1470|consen 48 SD-ACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEVI---EADEVAAELETGKAYILGHDKDGRPVLYLRPRPHRQN 123 (324)
T ss_pred cH-HHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCcccc---CHHHHHHHhhcCcEEEecccCCCCeEEEEecCCCCCC
Confidence 45 6999999999999999999999999999999998722 2345666778899999999999999999976665555
Q ss_pred hhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCChHHHHHHHHHHHHhcccccccccE
Q 011327 186 KLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQ 265 (488)
Q Consensus 186 kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~slk~~~~~~~~lik~l~kilq~~YPErL~r 265 (488)
. .+.+++.+++||+||.++..+.+ .++++++|+|++|++++|.+ +.+.+.+++++|+||||||+.
T Consensus 124 ~----~t~~~~~r~~Vy~mE~Ai~~lp~--------~qe~~~~L~D~~~fs~sN~d---~~~~k~~~~~lq~hYPErLg~ 188 (324)
T KOG1470|consen 124 T----KTQKELERLLVYTLENAILFLPP--------GQEQFVWLFDLTGFSMSNPD---IKFLKELLHILQDHYPERLGK 188 (324)
T ss_pred C----CCHHHHHHHHHHHHHHHHHhCCC--------CcceEEEEEecccCcccCCC---cHHHHHHHHHHHHhChHHhhh
Confidence 4 48999999999999999987544 57889999999999999888 789999999999999999999
Q ss_pred EEEEecChHHHHHHHHHHhccChhhhcceEEcCCcchHHHHcccCCCCCCccCCCCCCCCCCCCCccCCCCCC
Q 011327 266 MFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGTCNCADQGGCLRSDKGPW 338 (488)
Q Consensus 266 I~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~~~e~L~e~Id~~~LP~e~GGt~~~~~~ggcl~~~~gpW 338 (488)
++|+|+||+|..+|++|||||||+|++||.|+.+. ..|.+|||+++||..|||+..+.+ .++.+|
T Consensus 189 a~l~~~P~iF~~~wkiikpflDp~t~~Kv~F~~~~--~~l~~~~d~~~l~s~~GG~~~~~y------~~e~~~ 253 (324)
T KOG1470|consen 189 ALLVNAPWIFQPFWKIIKPFLDPKTASKVKFVEPK--DDLSEYFDESQLPSLFGGKLLFEY------THEEYW 253 (324)
T ss_pred hhhcCChHHHHHHHHHhhhccChhhhceeEEecCh--hHHHhhCCccccchhhCCCccccc------CCcchh
Confidence 99999999999999999999999999999999774 559999999999999999888866 344577
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=8.7e-31 Score=238.77 Aligned_cols=157 Identities=37% Similarity=0.585 Sum_probs=130.9
Q ss_pred HHHhhcCcccccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCC
Q 011327 155 EVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQG 234 (488)
Q Consensus 155 evlk~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G 234 (488)
++++.++.+++|+|++||||+|++++++|+.+ .+.+++++++++.+|.+++...+ ..+++++++|+|++|
T Consensus 2 ~~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~~----~~~~~~~~~~~~~~E~~~~~~~~------~~~~~~~~~iiD~~g 71 (159)
T PF00650_consen 2 EILKSGPFYLHGRDKDGRPVIYIRLGRFDPKK----FSPEDVIRFFVYLLERMLKRMPE------GGQVEGIVVIIDLSG 71 (159)
T ss_dssp HHHTTSCEEEEEE-TTS-EEEEEEGTT--HHT----S-HHHHHHHHHHHHHHHHHTHHH------TSHHH-EEEEEE-TT
T ss_pred HHHCCeeEEECCCCCCcCEEEEEEcccCCCCc----CCHHHHHHHHHHHHHHHHhhhcc------cccceeEEEEEeCCC
Confidence 36788999999999999999999999999986 36889999999999999865221 357899999999999
Q ss_pred CCCCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCC-cchHHHHcccCCCC
Q 011327 235 VGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGN-KYQSKLLEIIDARE 313 (488)
Q Consensus 235 ~slk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~-~~~e~L~e~Id~~~ 313 (488)
++++++.....++++.+++++|++||+|++++||||+|++|+++|+++++||+++|++||+|+++ ++.+.|.++||+++
T Consensus 72 ~~~~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~ 151 (159)
T PF00650_consen 72 FSLSNFDWWPISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQ 151 (159)
T ss_dssp --HHHHHCHHHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGG
T ss_pred ceEeccccchhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhH
Confidence 99998875558999999999999999999999999999999999999999999999999999965 55578999999999
Q ss_pred CCccCCCC
Q 011327 314 LPEFLGGT 321 (488)
Q Consensus 314 LP~e~GGt 321 (488)
||.+|||+
T Consensus 152 lP~~~GG~ 159 (159)
T PF00650_consen 152 LPVEYGGT 159 (159)
T ss_dssp SBGGGTSS
T ss_pred CchhcCCC
Confidence 99999996
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=3.8e-28 Score=221.10 Aligned_cols=154 Identities=40% Similarity=0.651 Sum_probs=138.9
Q ss_pred HHhhcCcccccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCC
Q 011327 156 VLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGV 235 (488)
Q Consensus 156 vlk~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~ 235 (488)
...+.++++ |+|++||||+++++++++++. .+.+++++++++.+|.++... ....+++++++|+|++|+
T Consensus 5 ~~~~~~~~~-g~D~~GrpV~~~~~~~~~~~~----~~~~~~~~~~~~~~e~~~~~~------~~~~~~~~~~~i~D~~~~ 73 (158)
T smart00516 5 GKAYIPGGR-GYDKDGRPVLIFRAGRFDLKS----VTLEELLRYLVYVLEKILQRE------KKTGGIEGFTVIFDLKGL 73 (158)
T ss_pred HHHhcCCCC-CCCCCcCEEEEEeccccccCc----CCHHHHHHHHHHHHHHHHHHH------hcCCCeeeEEEEEECCCC
Confidence 445667666 899999999999999998765 489999999999999988641 134678999999999999
Q ss_pred CCCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCCcchHHHHcccCCCCCC
Q 011327 236 GLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELP 315 (488)
Q Consensus 236 slk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~~~e~L~e~Id~~~LP 315 (488)
+++++. .++++.++++++++||++++++||||+|++++++|+++++||++++++||+++++++.+.|.++||+++||
T Consensus 74 ~~~~~~---~~~lk~~~~~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~L~~~i~~~~lP 150 (158)
T smart00516 74 SMSNPD---LSVLRKILKILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGNDSKEELLEYIDPEQLP 150 (158)
T ss_pred Cccccc---HHHHHHHHHHHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCCCCHHHHHhhCCHhhCc
Confidence 999865 78999999999999999999999999999999999999999999999999999986678999999999999
Q ss_pred ccCCCCCC
Q 011327 316 EFLGGTCN 323 (488)
Q Consensus 316 ~e~GGt~~ 323 (488)
++|||++.
T Consensus 151 ~~~GG~~~ 158 (158)
T smart00516 151 EELGGTLD 158 (158)
T ss_pred HhhCCCCC
Confidence 99999974
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=3.3e-25 Score=198.91 Aligned_cols=145 Identities=39% Similarity=0.621 Sum_probs=129.0
Q ss_pred cccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCChH
Q 011327 164 YHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKN 243 (488)
Q Consensus 164 ~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~slk~~~~~ 243 (488)
..|.|++||||+++++++.++... ...+++++++++.+|.++.... ...+++++|+|++|++++++. .
T Consensus 13 ~~~~D~~gr~V~~~~~~~~~~~~~---~~~~~~~~~~~~~~e~~~~~~~--------~~~~~~~~i~D~~~~~~~~~~-~ 80 (157)
T cd00170 13 LGGRDKEGRPVLIIRAGNKDLSKS---LDSEELLRYLVYTLEKLLQEDD--------EQVEGFVVIIDLKGLSLSHLL-P 80 (157)
T ss_pred cCCCCCCcCEEEEEecCCcchhhc---CCHHHHHHHHHHHHHHHHhhhh--------hcccceEEEEECCCCChhccc-h
Confidence 345799999999999997666543 2448999999999999987532 223799999999999999986 5
Q ss_pred HHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCCcchHHHHcccCCCCCCccCCCC
Q 011327 244 ARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGT 321 (488)
Q Consensus 244 ~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~~~e~L~e~Id~~~LP~e~GGt 321 (488)
..+.++.++++++++||++++++||||+|++|+++|+++++|+++++++||++++++ .+.|.++||+++||.+|||+
T Consensus 81 ~~~~~k~~~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~-~~~L~~~i~~~~Lp~~~GG~ 157 (157)
T cd00170 81 DPSLLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSD-KEELLKYIDKEQLPEEYGGT 157 (157)
T ss_pred hHHHHHHHHHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCC-HHHHHhhCChhhCcHhhCCC
Confidence 689999999999999999999999999999999999999999999999999999876 68999999999999999996
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.45 E-value=2.2e-14 Score=130.52 Aligned_cols=140 Identities=21% Similarity=0.346 Sum_probs=95.0
Q ss_pred cccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHH-HHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCCh
Q 011327 164 YHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGF-EKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSK 242 (488)
Q Consensus 164 ~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~-E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~slk~~~~ 242 (488)
..|+|++||||+++...+. ++. ...+.++.|++..+ +.+ ...++++|+|+.+++..+-
T Consensus 6 ~gG~d~~g~pV~~~~~~~~-~~~----~~~~~ll~yl~~~l~~~~--------------~~~~f~vVid~~~~~~~~~-- 64 (149)
T PF13716_consen 6 PGGRDREGRPVVVFIASRL-PSS----DDLERLLLYLLSTLSEEV--------------VDKPFSVVIDHTGFSRSSE-- 64 (149)
T ss_dssp EEEEBTTS-EEEEEEGGG--C-T----THHHHHHHHHHHHH-TTT--------------TTS-EEEEEE-TT--GGG---
T ss_pred ecccCCCcCEEEEEECCcC-cch----hhHHHHHHHHHHhhhHHh--------------cCCCEEEEEEcCCCccccC--
Confidence 4589999999999998777 432 25666766666555 221 1346999999999987543
Q ss_pred HHHHHHHHHHHHhcccccccccEEEEEecChHHHHHH-HHHHhccChhh-hcceEEcCCcchHHHHcccCCCCCCccCCC
Q 011327 243 NARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLW-NTVKSFLDPKT-TSKIHVLGNKYQSKLLEIIDARELPEFLGG 320 (488)
Q Consensus 243 ~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lw-klVKpFLdpkT-r~KI~fl~~~~~e~L~e~Id~~~LP~e~GG 320 (488)
+....++++.+.+...|+..|+++||||++++++.++ .+.+++++.+. ..||+++.+ .++|.++||+++||..+||
T Consensus 65 ~~~~~l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~s--l~~L~~~i~~~qL~~~lp~ 142 (149)
T PF13716_consen 65 PSLSWLKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSS--LSELSKHIDPSQLPESLPG 142 (149)
T ss_dssp --HHHHHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESS--TCGGGGTSGGGG------H
T ss_pred CchHHHHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECC--HHHHHhhCCHHHhcccCCC
Confidence 2368899999999999999999999999999999999 55567778988 999999865 5899999999999999999
Q ss_pred CCCCCC
Q 011327 321 TCNCAD 326 (488)
Q Consensus 321 t~~~~~ 326 (488)
++..++
T Consensus 143 ~~~~d~ 148 (149)
T PF13716_consen 143 VLQYDH 148 (149)
T ss_dssp HH----
T ss_pred EEecCc
Confidence 876643
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=98.78 E-value=9.5e-09 Score=78.39 Aligned_cols=47 Identities=40% Similarity=0.591 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHhC--------CCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Q 011327 85 LQAVDAFRQSLIMD--------ELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEM 132 (488)
Q Consensus 85 ~~aV~efR~~L~~~--------~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L~~~ 132 (488)
+++|++|++.|... ......++| .+||||||||+||+++|.+||.+|
T Consensus 1 k~~l~~l~~~l~~~~~~~~~~~~~~~~~~~d-~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 1 KQKLKQLREHLSELDEKAPGLWDDEKEDHDD-NFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp HHHHHHHHHHHHH--GGGTHHHTTHTSS-SH-HHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhccchhcccccccCCCCH-HHHHHHHHHccCCHHHHHHHHHhC
Confidence 47899999999873 345556777 599999999999999999999875
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.22 E-value=5e-06 Score=86.29 Aligned_cols=127 Identities=22% Similarity=0.287 Sum_probs=101.5
Q ss_pred CCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCChHHHH
Q 011327 167 VDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNARE 246 (488)
Q Consensus 167 ~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~slk~~~~~~~~ 246 (488)
.|+.||.|+++-..++.+.+- ..--++++|.++.++..++. .+++++=-.|+...+.. .++
T Consensus 89 ~D~~gr~iivv~a~rlp~~~e---ld~~~li~~~v~~id~~Ve~--------------DYt~vYfh~gl~s~nkp--~l~ 149 (467)
T KOG4406|consen 89 KDKQGRKIIVVYACRLPSSSE---LDDIRLISYLVYTIDKYVEN--------------DYTLVYFHHGLPSDNKP--YLQ 149 (467)
T ss_pred ccccCCeeEEEEEecCCchhh---hhhHHHHHHHHHHHHHHHhc--------------cceeeehhcCCcccccc--hHH
Confidence 699999999998888776541 12223899999999998864 26777767777765544 467
Q ss_pred HHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCCcchHHHHcccCCCCC
Q 011327 247 LILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDAREL 314 (488)
Q Consensus 247 lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~~~e~L~e~Id~~~L 314 (488)
++....+-+-.+|---++.+|||.+-|+.+++|+++|||++.+...||+-+ ++.++|.++|.-++|
T Consensus 150 ~l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~--n~lseL~~~l~l~rL 215 (467)
T KOG4406|consen 150 LLFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYF--NSLSELFEALKLNRL 215 (467)
T ss_pred HHHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEe--ehHHHHHHhhhhhhh
Confidence 777777777778999999999999999999999999999999999999988 557888888764443
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=77.78 E-value=8.8 Score=27.53 Aligned_cols=37 Identities=16% Similarity=0.424 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 011327 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (488)
Q Consensus 86 ~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L~~ 131 (488)
+.|.+|..... .++ .....||.+.+||++.|+..+-+
T Consensus 2 e~i~~F~~iTg--------~~~-~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 2 EKIAQFMSITG--------ADE-DVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHH---------SSH-HHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHC--------cCH-HHHHHHHHHcCCCHHHHHHHHHh
Confidence 67888887772 133 47899999999999999988743
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=65.68 E-value=21 Score=25.31 Aligned_cols=38 Identities=21% Similarity=0.357 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 011327 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (488)
Q Consensus 86 ~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L~~ 131 (488)
+.|++|++.. |. .+. +.+..-|.++++|++.|+.+|.+
T Consensus 3 ~~v~~L~~mF------P~-~~~-~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 3 EMVQQLQEMF------PD-LDR-EVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHS------SS-S-H-HHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHC------CC-CCH-HHHHHHHHHcCCCHHHHHHHHHc
Confidence 4567777665 32 333 57899999999999999998865
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=56.58 E-value=31 Score=24.48 Aligned_cols=38 Identities=16% Similarity=0.338 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 011327 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (488)
Q Consensus 86 ~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L~~ 131 (488)
+.+++|++.. |. .+. ..+.+.|+++++|++.|++.|.+
T Consensus 4 ~~v~~L~~mF------P~-l~~-~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 4 EALHDLKDMF------PN-LDE-EVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHC------CC-CCH-HHHHHHHHHcCCCHHHHHHHHHc
Confidence 4566666654 33 333 46889999999999999988753
No 12
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=36.14 E-value=2.6e+02 Score=30.15 Aligned_cols=90 Identities=17% Similarity=0.282 Sum_probs=64.9
Q ss_pred CCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCCh-----
Q 011327 168 DKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSK----- 242 (488)
Q Consensus 168 Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~slk~~~~----- 242 (488)
|....|++++-+|.-. .+.+.|+++++....+ . .=-++|++-.|++-..+..
T Consensus 121 ~~~~~P~vvilpGltg-------~S~~~YVr~lv~~a~~---~-------------G~r~VVfN~RG~~g~~LtTpr~f~ 177 (409)
T KOG1838|consen 121 DDGTDPIVVILPGLTG-------GSHESYVRHLVHEAQR---K-------------GYRVVVFNHRGLGGSKLTTPRLFT 177 (409)
T ss_pred CCCCCcEEEEecCCCC-------CChhHHHHHHHHHHHh---C-------------CcEEEEECCCCCCCCccCCCceee
Confidence 4466799999998744 3567899988643322 1 1347888998876554431
Q ss_pred -HHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHH
Q 011327 243 -NARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTV 282 (488)
Q Consensus 243 -~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklV 282 (488)
-...-++.+++.+...||.+ +++.+-...+-.++||-+
T Consensus 178 ag~t~Dl~~~v~~i~~~~P~a--~l~avG~S~Gg~iL~nYL 216 (409)
T KOG1838|consen 178 AGWTEDLREVVNHIKKRYPQA--PLFAVGFSMGGNILTNYL 216 (409)
T ss_pred cCCHHHHHHHHHHHHHhCCCC--ceEEEEecchHHHHHHHh
Confidence 12466888899999999998 899999999888888743
No 13
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=35.42 E-value=48 Score=30.24 Aligned_cols=78 Identities=17% Similarity=0.229 Sum_probs=40.4
Q ss_pred hcchhhhhhhcccCCCCCCCccccccccCCCCHHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHH
Q 011327 50 ASTKFKHSLKKKSSRRKSDGRVSSVSIEDVRDVEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMW 129 (488)
Q Consensus 50 ~s~~~~~s~~k~~~~r~~~~~~~s~~ied~~d~~E~~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~L 129 (488)
...++++.|.+||- +..+-.-.++++..++++.+...+..........+. ....-+.+||..++|+.+.+.+.|
T Consensus 77 g~~~I~~~L~~kGi----~~~~I~~~l~~~~~d~~e~a~~~~~k~~~~~~~~~~--~~k~Ki~~~L~rkGF~~~~I~~~l 150 (157)
T PRK00117 77 GPRRIRQELRQKGV----DREIIEEALAELDIDWEELARELARKKFRRPLPDDA--KEKAKLVRFLARRGFSMDVIQRVL 150 (157)
T ss_pred hHHHHHHHHHHcCC----CHHHHHHHHHHcCccHHHHHHHHHHHHcCCCCCCCH--HHHHHHHHHHHHCCCCHHHHHHHH
Confidence 34567888888872 222222233333322333333333332211111000 112468999999999999888777
Q ss_pred HHHH
Q 011327 130 AEML 133 (488)
Q Consensus 130 ~~~l 133 (488)
.+.+
T Consensus 151 ~~~~ 154 (157)
T PRK00117 151 RNAL 154 (157)
T ss_pred Hhhh
Confidence 6643
No 14
>PRK14136 recX recombination regulator RecX; Provisional
Probab=32.71 E-value=39 Score=34.88 Aligned_cols=24 Identities=25% Similarity=0.259 Sum_probs=19.7
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Q 011327 108 YHMMLRFLKARKFDIDKAKHMWAE 131 (488)
Q Consensus 108 ~~~LLRFLrArkfDvekA~k~L~~ 131 (488)
..-+.|||..+.|+.+...+.|..
T Consensus 278 k~K~iRfL~rRGFS~D~I~~vLk~ 301 (309)
T PRK14136 278 RAKQARFLAARGFSSATIVKLLKV 301 (309)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHh
Confidence 346799999999999988777754
No 15
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=28.96 E-value=6.4e+02 Score=25.74 Aligned_cols=43 Identities=23% Similarity=0.303 Sum_probs=29.5
Q ss_pred CCCCCeEEEEeCCCCCCCCCChHHHHHHHHHHHHhccccccccc
Q 011327 221 RHIDSSTSILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLH 264 (488)
Q Consensus 221 ~~i~g~tvIiDl~G~slk~~~~~~~~lik~l~kilq~~YPErL~ 264 (488)
..+...-+|+|- |+|+..-......+++.+-.+-.-.||-.++
T Consensus 175 ~GI~~~~IilDP-GiGF~k~~~~n~~ll~~l~~l~~lg~Pilvg 217 (282)
T PRK11613 175 AGIAKEKLLLDP-GFGFGKNLSHNYQLLARLAEFHHFNLPLLVG 217 (282)
T ss_pred cCCChhhEEEeC-CCCcCCCHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 345556789998 6776443345678888887776667886554
No 16
>COG4479 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.82 E-value=1.5e+02 Score=23.99 Aligned_cols=52 Identities=19% Similarity=0.432 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHc---CCCHHHHHHHHHHHHHHH
Q 011327 85 LQAVDAFRQSLIMDELLPERHDDYHMMLRFLKAR---KFDIDKAKHMWAEMLQWR 136 (488)
Q Consensus 85 ~~aV~efR~~L~~~~~Lp~~~dD~~~LLRFLrAr---kfDvekA~k~L~~~l~WR 136 (488)
...+.+|-...-++..+|...+|++.+-+||... -|++..--+.|++|+.|-
T Consensus 18 ~d~~~~lAn~af~D~sFPK~t~Df~~is~YLE~~a~f~~~m~~FDeiwe~Yle~~ 72 (74)
T COG4479 18 KDDKTELANLAFDDHSFPKHTDDFHEISDYLETNADFLFNMSVFDEIWEEYLEHL 72 (74)
T ss_pred CChHHHHHHHHhhcccCCCCCccHHHHHHHHHhcCCcccchhhHHHHHHHHHHHh
Confidence 3445566677767778898889999999999854 345555557777777764
No 17
>PRK14137 recX recombination regulator RecX; Provisional
Probab=25.25 E-value=1.6e+02 Score=28.28 Aligned_cols=26 Identities=19% Similarity=0.084 Sum_probs=21.8
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHH
Q 011327 109 HMMLRFLKARKFDIDKAKHMWAEMLQ 134 (488)
Q Consensus 109 ~~LLRFLrArkfDvekA~k~L~~~l~ 134 (488)
.-+.+||..++|+.+.+...|.+.+.
T Consensus 156 ~K~~~~L~rRGFs~~~I~~al~~~~~ 181 (195)
T PRK14137 156 ASAYAFLARRGFSGAVIWPAIREVAA 181 (195)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence 46889999999999988888887544
No 18
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=24.96 E-value=4.1e+02 Score=28.10 Aligned_cols=71 Identities=17% Similarity=0.288 Sum_probs=42.5
Q ss_pred hcCcccccCCCCCCcEEEEecCccCcchhhhcc-cHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCC-
Q 011327 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVT-TMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVG- 236 (488)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~-t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~s- 236 (488)
..+|.+.|.|++|++.++...|+-+.--+++-. +...|-+..+......+.. ... ..-+|||++..+
T Consensus 204 ~~~H~fl~~~~~G~~~~i~t~GN~~~hlilRGg~~~pNy~~~~i~~~~~~l~k----------~~l-~~~v~VD~SH~ns 272 (349)
T PRK09261 204 SAPHHFLGITKDGRSAIVSTTGNPDCHVILRGGNKGPNYDAESVAEAKERLEK----------AGL-PPRIMIDCSHANS 272 (349)
T ss_pred hCCceeeecCCCCcEEEEECCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHH----------cCC-CCCEEEECCCccc
Confidence 357778899999999999988887765443322 2333444433333332221 112 466899998855
Q ss_pred CCCC
Q 011327 237 LKNF 240 (488)
Q Consensus 237 lk~~ 240 (488)
-+++
T Consensus 273 ~k~~ 276 (349)
T PRK09261 273 GKDH 276 (349)
T ss_pred Ccch
Confidence 4444
No 19
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=24.79 E-value=1.8e+02 Score=28.98 Aligned_cols=50 Identities=6% Similarity=0.134 Sum_probs=34.7
Q ss_pred hCCCCCeEEEEeCCCCC--CCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHH
Q 011327 220 KRHIDSSTSILDVQGVG--LKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGF 275 (488)
Q Consensus 220 ~~~i~g~tvIiDl~G~s--lk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f 275 (488)
.+..+.-.+|+||-|-= +.|++ ++++++.-++. .-.+++.+|++..++++
T Consensus 93 ~Gd~eddylifDcPGQIELytH~p-----Vm~~iv~hl~~-~~F~~c~Vylldsqf~v 144 (273)
T KOG1534|consen 93 IGDVEDDYLIFDCPGQIELYTHLP-----VMPQIVEHLKQ-WNFNVCVVYLLDSQFLV 144 (273)
T ss_pred ccCccCCEEEEeCCCeeEEeecCh-----hHHHHHHHHhc-ccCceeEEEEeccchhh
Confidence 45678889999998842 23443 55666666665 44578889988887754
No 20
>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=23.52 E-value=3.2e+02 Score=22.50 Aligned_cols=56 Identities=13% Similarity=0.176 Sum_probs=39.2
Q ss_pred CCeEEEEeCC-CCCCCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhc
Q 011327 224 DSSTSILDVQ-GVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSF 285 (488)
Q Consensus 224 ~g~tvIiDl~-G~slk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwklVKpF 285 (488)
..+.+++|+. ++. .+. .+......++... +...++++-||-.+.+.+.+.+++..|
T Consensus 31 ~~~~ll~d~~~~~~--~~~---~~a~~~~~~~~~~-~~~~~~r~AvV~~~~~~~~~~~~~~~~ 87 (109)
T PF11964_consen 31 GKIRLLVDLRRDFE--GWS---PEARWEDAKFGLK-HLKHFRRIAVVGDSEWIRMIANFFAAF 87 (109)
T ss_dssp SSEEEEEEEC-CEE--EEH---HHHHHHHHHHHCC-CCGGEEEEEEE-SSCCCHHHHHHHHHH
T ss_pred CceEEEEEecCccC--CCC---HHHHHHHHHhchh-hhcccCEEEEEECcHHHHHHHHHHHhc
Confidence 4688899988 652 222 3334444444444 778899999999999999998988886
No 21
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=23.44 E-value=1.5e+02 Score=31.19 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=40.3
Q ss_pred hcCcccccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCC
Q 011327 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVG 236 (488)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~s 236 (488)
..+|.+.|.|++|++.++...|+-|.--+.+-.....|-+..+......+.. .+.. -.+|||++..+
T Consensus 199 ~~~H~fl~~~~~G~~~~i~t~GN~~~hlilRGg~~pNy~~~di~~~~~~l~~----------~~lp-~~vmVD~SH~n 265 (344)
T TIGR00034 199 AAPHYFLSVTKDGQMAIVQTSGNPDGHIILRGGKKPNYSAADVAAAKKQLEK----------AGLP-PHLMIDFSHGN 265 (344)
T ss_pred hCCceeeecCCCCcEEEEECCCCCCEEEEecCCCCCCCCHHHHHHHHHHHHH----------cCCC-CeEEEeCCCcc
Confidence 4688899999999999999888877643333111133333333333333321 1222 34899998865
No 22
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=23.09 E-value=1.6e+02 Score=25.97 Aligned_cols=49 Identities=24% Similarity=0.385 Sum_probs=33.5
Q ss_pred EEEeCCCCCCCCCChHHHHHHHHHHHHhcc-----cccc--cccEEEEEecChHHHHHHHHHHhccChhhhcceEEcCCc
Q 011327 228 SILDVQGVGLKNFSKNARELILRLQKIDGD-----NYPE--TLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNK 300 (488)
Q Consensus 228 vIiDl~G~slk~~~~~~~~lik~l~kilq~-----~YPE--rL~rI~IVNaP~~f~~lwklVKpFLdpkTr~KI~fl~~~ 300 (488)
+|||++|..+. .+...+.++|+. +.|. .=..|+|||+ ++|.|.|++
T Consensus 2 ~viDA~~~~lG-------RlAs~iA~~L~gKhKp~y~p~~d~Gd~VvViNa--------------------~~i~~tG~k 54 (114)
T cd00392 2 HVIDAKGQVLG-------RLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNA--------------------EKIVITGKK 54 (114)
T ss_pred EEEeCCCCchH-------HHHHHHHHHHcCCCCCCcCCCccCCCEEEEEec--------------------cEEEEeCch
Confidence 58999996654 344445566665 4554 3456999999 789999886
Q ss_pred chH
Q 011327 301 YQS 303 (488)
Q Consensus 301 ~~e 303 (488)
+..
T Consensus 55 ~~~ 57 (114)
T cd00392 55 WRQ 57 (114)
T ss_pred hhc
Confidence 533
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=22.11 E-value=52 Score=32.93 Aligned_cols=28 Identities=18% Similarity=0.101 Sum_probs=19.7
Q ss_pred ccEEEEEecChHHHHHHHHHHhccChhh
Q 011327 263 LHQMFIINAGPGFRLLWNTVKSFLDPKT 290 (488)
Q Consensus 263 L~rI~IVNaP~~f~~lwklVKpFLdpkT 290 (488)
=..|+|||+||.+.-..+-+-++|.+..
T Consensus 205 GSGm~iiNPPw~l~~~l~~~l~~L~~~L 232 (245)
T PF04378_consen 205 GSGMLIINPPWTLDEELEEILPWLAETL 232 (245)
T ss_dssp EEEEEEES--TTHHHHHHHHHHHHHHHS
T ss_pred cceEEEEcCCccHHHHHHHHHHHHHHHh
Confidence 3579999999999888777777665543
No 24
>PRK12822 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=21.74 E-value=2.8e+02 Score=29.38 Aligned_cols=84 Identities=13% Similarity=0.005 Sum_probs=47.3
Q ss_pred hcCcccccCCCCCCcEEEEecCccCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCC-
Q 011327 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGL- 237 (488)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tvIiDl~G~sl- 237 (488)
..||.+.|.|++|++.++...|+-|..-+++-.....|-...+......+.. .... -.++|||+.-+-
T Consensus 204 ~~pH~Fl~i~~~G~~aiv~T~GN~~~HvILRGg~~PNY~~~~v~~a~~~l~~----------~~l~-~~vmVDcSH~NS~ 272 (356)
T PRK12822 204 RSPHLVTVPGLTGCISTLLSDGNPHGHIILRGGREPNYGLSDVTKASKLLHD----------EGLN-HRLIIDCSHGNSQ 272 (356)
T ss_pred cCCCeEEecCCCCcEEEEEcCCCCCceEEEeCCCCCCCCHHHHHHHHHHHHH----------CCCC-CcEEEECCCccCC
Confidence 4578889999999999999988877765544222222322223323322221 1122 458999988763
Q ss_pred CCCChHHHHHHHHHHHH
Q 011327 238 KNFSKNARELILRLQKI 254 (488)
Q Consensus 238 k~~~~~~~~lik~l~ki 254 (488)
++..+ -..++..++.-
T Consensus 273 K~~~~-Q~~V~~~v~~q 288 (356)
T PRK12822 273 KVAKN-QISVARELCDQ 288 (356)
T ss_pred CCHHH-HHHHHHHHHHH
Confidence 33332 23444444443
No 25
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=21.17 E-value=68 Score=32.38 Aligned_cols=27 Identities=15% Similarity=0.084 Sum_probs=21.7
Q ss_pred ccEEEEEecChHHHHHHHHHHhccChh
Q 011327 263 LHQMFIINAGPGFRLLWNTVKSFLDPK 289 (488)
Q Consensus 263 L~rI~IVNaP~~f~~lwklVKpFLdpk 289 (488)
=..|+|||+||.+.--...+-|||...
T Consensus 236 gSGMivINPPwtle~ql~~~LP~L~~~ 262 (279)
T COG2961 236 GSGMIVINPPWTLEQQLRAALPWLTTL 262 (279)
T ss_pred ceeEEEECCCccHHHHHHHHHHHHHHH
Confidence 357999999999988888887776543
No 26
>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=20.77 E-value=3.5e+02 Score=22.29 Aligned_cols=50 Identities=18% Similarity=0.242 Sum_probs=33.9
Q ss_pred eEEEEeCCCCCCCCCChHHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHH
Q 011327 226 STSILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNT 281 (488)
Q Consensus 226 ~tvIiDl~G~slk~~~~~~~~lik~l~kilq~~YPErL~rI~IVNaP~~f~~lwkl 281 (488)
-.+|+|+++++.- +...+..+..+.+-++ ..=.+++++|++.-+.-++..
T Consensus 40 ~~vilDls~v~~i--Dssgi~~L~~~~~~~~----~~g~~l~l~~~~~~v~~~l~~ 89 (106)
T TIGR02886 40 KHLILNLKNVTFM--DSSGLGVILGRYKKIK----NEGGEVIVCNVSPAVKRLFEL 89 (106)
T ss_pred CEEEEECCCCcEe--cchHHHHHHHHHHHHH----HcCCEEEEEeCCHHHHHHHHH
Confidence 4789999999854 4444555555554444 255789999998877666553
No 27
>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=20.37 E-value=1.5e+02 Score=19.96 Aligned_cols=22 Identities=14% Similarity=0.175 Sum_probs=18.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHH
Q 011327 109 HMMLRFLKARKFDIDKAKHMWA 130 (488)
Q Consensus 109 ~~LLRFLrArkfDvekA~k~L~ 130 (488)
+...+-|+++++|+++|...|.
T Consensus 16 ~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 16 EEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHhCCCHHHHHHHHh
Confidence 4689999999999999987663
Done!