Query 011555
Match_columns 483
No_of_seqs 340 out of 1547
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 02:40:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011555.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011555hhsearch_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 1.2E-45 2.7E-50 375.2 23.4 277 70-349 6-287 (317)
2 KOG1470 Phosphatidylinositol t 100.0 6.1E-40 1.3E-44 328.5 19.9 206 106-338 48-253 (324)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 7.7E-31 1.7E-35 238.8 10.1 157 155-321 2-159 (159)
4 smart00516 SEC14 Domain in hom 100.0 4.8E-28 1E-32 220.2 15.2 154 156-323 5-158 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 4.1E-25 9E-30 198.0 15.2 145 164-321 13-157 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.4 6.1E-14 1.3E-18 127.4 2.2 140 164-325 6-147 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.8 9.7E-09 2.1E-13 78.2 5.2 47 85-132 1-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.1 1.1E-05 2.3E-10 83.7 9.9 126 167-313 89-214 (467)
9 PF14555 UBA_4: UBA-like domai 77.8 7.5 0.00016 27.8 5.4 36 86-130 2-37 (43)
10 PF02845 CUE: CUE domain; Int 59.8 32 0.00069 24.3 5.4 38 86-131 3-40 (42)
11 smart00546 CUE Domain that may 48.7 51 0.0011 23.3 5.0 38 86-131 4-41 (43)
12 KOG1838 Alpha/beta hydrolase [ 43.4 1.9E+02 0.004 31.2 10.2 90 168-282 121-216 (409)
13 PRK00117 recX recombination re 34.0 52 0.0011 29.9 3.9 78 50-133 77-154 (157)
14 COG4479 Uncharacterized protei 33.3 1.1E+02 0.0024 24.7 4.9 52 85-136 18-72 (74)
15 PRK14136 recX recombination re 32.9 39 0.00084 34.9 3.0 23 109-131 279-301 (309)
16 PRK11613 folP dihydropteroate 30.6 6E+02 0.013 25.9 12.3 42 222-264 176-217 (282)
17 PRK09261 phospho-2-dehydro-3-d 29.2 3.2E+02 0.0069 28.8 9.1 68 159-237 204-272 (349)
18 PF11964 SpoIIAA-like: SpoIIAA 28.3 2.6E+02 0.0056 23.1 7.0 75 192-285 12-87 (109)
19 TIGR00034 aroFGH phospho-2-deh 26.9 1.2E+02 0.0026 31.9 5.4 68 159-237 199-266 (344)
20 PRK12822 phospho-2-dehydro-3-d 25.9 2.1E+02 0.0046 30.1 7.1 85 159-254 204-288 (356)
21 smart00804 TAP_C C-terminal do 25.0 3E+02 0.0065 21.6 6.1 47 78-133 6-52 (63)
22 PRK14137 recX recombination re 24.6 1.8E+02 0.0038 28.0 5.8 26 109-134 156-181 (195)
23 cd00392 Ribosomal_L13 Ribosoma 22.3 1.8E+02 0.0039 25.6 4.9 49 228-303 2-57 (114)
24 PRK12756 phospho-2-dehydro-3-d 21.6 2.8E+02 0.006 29.2 6.9 84 159-253 203-286 (348)
25 PF04378 RsmJ: Ribosomal RNA s 20.8 58 0.0013 32.5 1.7 29 263-291 205-233 (245)
26 COG2137 OraA Uncharacterized p 20.3 2.9E+02 0.0062 26.2 6.2 45 87-132 120-164 (174)
No 1
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=1.2e-45 Score=375.21 Aligned_cols=277 Identities=45% Similarity=0.755 Sum_probs=246.6
Q ss_pred ccccccccCCCC--HHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCccccc
Q 011555 70 RVSSVSIEDVRD--VEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMED 147 (483)
Q Consensus 70 ~~~s~~ied~~d--~~E~~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~~l~WRk~~~~d~i~~d 147 (483)
.++.+..+++.+ +.+.+.++++| |+..+++++...+|+.+||||||||+||+++|+++|.+++.||.+++.+.|..+
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 344555545444 66677777777 888899999755555799999999999999999999999999999999999876
Q ss_pred cchHHHHHHHhhcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeE
Q 011555 148 FEFKEINEVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSST 227 (483)
Q Consensus 148 ~~~~el~ev~k~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~t 227 (483)
.....++.++++++++|+|++|+||++.+.|..+...++..+...++.++++..+|+.+..+++.|.....++++|++
T Consensus 85 --~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~ 162 (317)
T KOG1471|consen 85 --FEEDDELLKYYPQGLHGVDKEGRPVYIERLGKIDPKGLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIV 162 (317)
T ss_pred --cccchhhhhhccccccccCCCCCEEEEeccCCCCcccceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeE
Confidence 234445566889999999999999999999999999999999999999999999999999999988877778999999
Q ss_pred EEEeCCCCCCCCCchhHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHc
Q 011555 228 SILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLE 307 (483)
Q Consensus 228 iIiDl~G~sl~~~~~~~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~~~~~L~e 307 (483)
+|+|++|+++.++....+..++.++.++|+||||+++++||||+|++|.++|++|||||+++|++||++++.++.+.|.+
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---CCCCCccCCCCCCCChHHHHHHhc
Q 011555 308 IIDARELPEFLGGTCNCA---DQGGCLRSDKGPWQNPEILKMVLN 349 (483)
Q Consensus 308 ~Id~~~LP~eyGGt~~~~---~~ggc~~~~~gpW~~p~~~k~v~~ 349 (483)
+|++++||++|||+|.+. ..++|...+.++|.++.+.+....
T Consensus 243 ~i~~~~LP~~yGG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (317)
T KOG1471|consen 243 YIPPEVLPEEYGGTCGDLDDPNGGGCDLSDEGPWKEPEIKKGKQE 287 (317)
T ss_pred hCCHhhCccccCCCccccccccCCcCccccccccccccccccccc
Confidence 999999999999999996 357799999999988777654333
No 2
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=6.1e-40 Score=328.47 Aligned_cols=206 Identities=32% Similarity=0.523 Sum_probs=182.7
Q ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCccccccchHHHHHHHhhcCcccccCCCCCCcEEEEEcCCCCcc
Q 011555 106 DDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMEDFEFKEINEVLSYYPHGYHGVDKEGRPVYIERLGKVDSN 185 (483)
Q Consensus 106 dD~~~LLRFLrArkfDvekA~k~l~~~l~WRk~~~~d~i~~d~~~~el~ev~k~~p~~~~G~Dk~GRPVli~rlg~~d~~ 185 (483)
+| .|+|||||||+||+++|.+|+.++|.||+.+++..++ ...++..-+..+.++++|+|++||||+|+++....++
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 2345666778899999999999999999966554444
Q ss_pred hhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCchhHHHHHHHHHHHhcccccccccE
Q 011555 186 KLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQ 265 (483)
Q Consensus 186 kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~~~~~~~~~~lk~ll~ilq~~YPErL~~ 265 (483)
. .+.+++.+++||++|.++..|.+ .++++++++|++|++++|.+ +...+.+++++|+||||||+.
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 3 38999999999999999987544 57889999999999999888 789999999999999999999
Q ss_pred EEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHcccCCCCCCcccCCCCCCCCCCCCccCCCCCC
Q 011555 266 MFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGTCNCADQGGCLRSDKGPW 338 (483)
Q Consensus 266 i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~~~~~L~e~Id~~~LP~eyGGt~~~~~~ggc~~~~~gpW 338 (483)
.+|+|+||+|..+|+++||||||+|++||.|..+. ..|.+|||+++||..|||+..+.+ .++.+|
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 569999999999999999988876 445577
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=7.7e-31 Score=238.79 Aligned_cols=157 Identities=37% Similarity=0.594 Sum_probs=131.2
Q ss_pred HHHhhcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCC
Q 011555 155 EVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQG 234 (483)
Q Consensus 155 ev~k~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G 234 (483)
++.+.++.+++|+|++||||+|++++++|+.++ +.+++++++++.+|.+++.+.+ ..+++++++|+|++|
T Consensus 2 ~~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~~~----~~~~~~~~~~~~~E~~~~~~~~------~~~~~~~~~iiD~~g 71 (159)
T PF00650_consen 2 EILKSGPFYLHGRDKDGRPVIYIRLGRFDPKKF----SPEDVIRFFVYLLERMLKRMPE------GGQVEGIVVIIDLSG 71 (159)
T ss_dssp HHHTTSCEEEEEE-TTS-EEEEEEGTT--HHTS-----HHHHHHHHHHHHHHHHHTHHH------TSHHH-EEEEEE-TT
T ss_pred HHHCCeeEEECCCCCCcCEEEEEEcccCCCCcC----CHHHHHHHHHHHHHHHHhhhcc------cccceeEEEEEeCCC
Confidence 367889999999999999999999999999863 6889999999999999875321 356899999999999
Q ss_pred CCCCCCchhHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCC-CchhHHHcccCCCC
Q 011555 235 VGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGN-KYQSKLLEIIDARE 313 (483)
Q Consensus 235 ~sl~~~~~~~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~-~~~~~L~e~Id~~~ 313 (483)
++++++.....++++.+++++|++||+|++++||||+|++|+++|+++++||+++|++||+|+++ ++.+.|.++||+++
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 99998876558999999999999999999999999999999999999999999999999999965 45578999999999
Q ss_pred CCcccCCC
Q 011555 314 LPEFLGGT 321 (483)
Q Consensus 314 LP~eyGGt 321 (483)
||.+|||+
T Consensus 152 lP~~~GG~ 159 (159)
T PF00650_consen 152 LPVEYGGT 159 (159)
T ss_dssp SBGGGTSS
T ss_pred CchhcCCC
Confidence 99999997
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=4.8e-28 Score=220.16 Aligned_cols=154 Identities=40% Similarity=0.651 Sum_probs=139.0
Q ss_pred HHhhcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCC
Q 011555 156 VLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGV 235 (483)
Q Consensus 156 v~k~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~ 235 (483)
...+.++++ |+|++||||+++++++++++. .+.+++++++++.+|.++... ....+++++++|+|++|+
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 445667776 899999999999999998765 489999999999999988641 134578999999999999
Q ss_pred CCCCCchhHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHcccCCCCCC
Q 011555 236 GLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELP 315 (483)
Q Consensus 236 sl~~~~~~~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~~~~~L~e~Id~~~LP 315 (483)
+++++. .+.++.++++++++||++++++||||+|++++++|+++++|+++++++||+++++++.+.|.++||+++||
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 78999999999999999999999999999999999999999999999999999987678999999999999
Q ss_pred cccCCCCC
Q 011555 316 EFLGGTCN 323 (483)
Q Consensus 316 ~eyGGt~~ 323 (483)
++|||++.
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=4.1e-25 Score=198.01 Aligned_cols=145 Identities=39% Similarity=0.621 Sum_probs=129.1
Q ss_pred cccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCchh
Q 011555 164 YHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKN 243 (483)
Q Consensus 164 ~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~~~~~~ 243 (483)
..|.|++||||+++++++.++... .+.+++++++++.+|.++.... ....++++|+|++|+++.++. .
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 345699999999999997666543 2458999999999999987532 223799999999999999986 6
Q ss_pred HHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHcccCCCCCCcccCCC
Q 011555 244 ARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGT 321 (483)
Q Consensus 244 ~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~~~~~L~e~Id~~~LP~eyGGt 321 (483)
..+.++.++++++++||++++++||||+|++|+.+|+++++|+++++++||++++++ .+.|.++||+++||.+|||+
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=99.41 E-value=6.1e-14 Score=127.39 Aligned_cols=140 Identities=20% Similarity=0.340 Sum_probs=94.1
Q ss_pred cccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCchh
Q 011555 164 YHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKN 243 (483)
Q Consensus 164 ~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~~~~~~ 243 (483)
..|+|++||||+++...+. ++. .+.+.++.|++..++..+ ...++++|+|+.+++..+-.
T Consensus 6 ~gG~d~~g~pV~~~~~~~~-~~~----~~~~~ll~yl~~~l~~~~-------------~~~~f~vVid~~~~~~~~~~-- 65 (149)
T PF13716_consen 6 PGGRDREGRPVVVFIASRL-PSS----DDLERLLLYLLSTLSEEV-------------VDKPFSVVIDHTGFSRSSEP-- 65 (149)
T ss_dssp EEEEBTTS-EEEEEEGGG--C-T----THHHHHHHHHHHHH-TTT-------------TTS-EEEEEE-TT--GGG----
T ss_pred ecccCCCcCEEEEEECCcC-cch----hhHHHHHHHHHHhhhHHh-------------cCCCEEEEEEcCCCccccCC--
Confidence 3589999999999997777 432 256666666655552111 13469999999999875432
Q ss_pred HHHHHHHHHHHhcccccccccEEEEEecChHHHHHH-HHHHhcCChhh-hccEEEeCCCchhHHHcccCCCCCCcccCCC
Q 011555 244 ARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLW-NTVKSFLDPKT-TSKIHVLGNKYQSKLLEIIDARELPEFLGGT 321 (483)
Q Consensus 244 ~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw-~ivKpFLdpkT-r~KI~f~~~~~~~~L~e~Id~~~LP~eyGGt 321 (483)
....++.+.+.+...|+..|+++||||++++++.++ .+.+++++.+. ..||+++.+ .++|.++||+++||..+||+
T Consensus 66 ~~~~l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~s--l~~L~~~i~~~qL~~~lp~~ 143 (149)
T PF13716_consen 66 SLSWLKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSS--LSELSKHIDPSQLPESLPGV 143 (149)
T ss_dssp -HHHHHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESS--TCGGGGTSGGGG------HH
T ss_pred chHHHHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECC--HHHHHhhCCHHHhcccCCCE
Confidence 368899999999999999999999999999999999 55567778888 999999865 58999999999999999988
Q ss_pred CCCC
Q 011555 322 CNCA 325 (483)
Q Consensus 322 ~~~~ 325 (483)
+...
T Consensus 144 ~~~d 147 (149)
T PF13716_consen 144 LQYD 147 (149)
T ss_dssp H---
T ss_pred EecC
Confidence 7663
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=9.7e-09 Score=78.22 Aligned_cols=47 Identities=40% Similarity=0.591 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhC--------CCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Q 011555 85 LQAVDAFRQSLIMD--------ELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEM 132 (483)
Q Consensus 85 ~~aL~efRe~L~~~--------~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~~ 132 (483)
+++|++|++.|... ......++| .+||||||||+||+++|.+||.+|
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 699999999999999999999875
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.14 E-value=1.1e-05 Score=83.74 Aligned_cols=126 Identities=21% Similarity=0.279 Sum_probs=97.9
Q ss_pred CCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCchhHHH
Q 011555 167 VDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNARE 246 (483)
Q Consensus 167 ~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~~~~~~~~~ 246 (483)
.|+.||+|+++-.-++-+.+= ..-.++++|.++.++..++. -+++++=-.|+...+.. .++
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 699999999998888766541 12334899999999998864 26666666666665543 355
Q ss_pred HHHHHHHHhcccccccccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHcccCCCC
Q 011555 247 LILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARE 313 (483)
Q Consensus 247 ~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~~~~~L~e~Id~~~ 313 (483)
++....+-+-.+|=--++.+|+|.+-|+.+++|+++|||++.+...||+-+ ++.++|.++|.-++
T Consensus 150 ~l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~--n~lseL~~~l~l~r 214 (467)
T KOG4406|consen 150 LLFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYF--NSLSELFEALKLNR 214 (467)
T ss_pred HHHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEe--ehHHHHHHhhhhhh
Confidence 555555555567888999999999999999999999999999999999988 55788888876443
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=77.83 E-value=7.5 Score=27.82 Aligned_cols=36 Identities=17% Similarity=0.410 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHH
Q 011555 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWA 130 (483)
Q Consensus 86 ~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~ 130 (483)
+.|.+|..... .++ .....||.+.+||++.|+..+-
T Consensus 2 e~i~~F~~iTg--------~~~-~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 2 EKIAQFMSITG--------ADE-DVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHH---------SSH-HHHHHHHHHTTT-HHHHHHHHH
T ss_pred HHHHHHHHHHC--------cCH-HHHHHHHHHcCCCHHHHHHHHH
Confidence 57888887773 123 5789999999999999998864
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=59.81 E-value=32 Score=24.32 Aligned_cols=38 Identities=21% Similarity=0.357 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 011555 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (483)
Q Consensus 86 ~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~ 131 (483)
+.|+.+++.. |. .+. ..+..-|.++++|++.|+.+|-+
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 4566666654 32 333 57899999999999999998864
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=48.72 E-value=51 Score=23.33 Aligned_cols=38 Identities=16% Similarity=0.338 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 011555 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (483)
Q Consensus 86 ~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~ 131 (483)
+.++++++.. |. .+. ..+.+.|++++.|++.|++.|.+
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 4566666554 33 333 46889999999999999988753
No 12
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=43.36 E-value=1.9e+02 Score=31.19 Aligned_cols=90 Identities=17% Similarity=0.286 Sum_probs=65.5
Q ss_pred CCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCCCCch-----
Q 011555 168 DKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSK----- 242 (483)
Q Consensus 168 Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~~~~~----- 242 (483)
|....|++++.+|.-.- +.+.|+++++....+ ..--++|++-.|++-..+..
T Consensus 121 ~~~~~P~vvilpGltg~-------S~~~YVr~lv~~a~~----------------~G~r~VVfN~RG~~g~~LtTpr~f~ 177 (409)
T KOG1838|consen 121 DDGTDPIVVILPGLTGG-------SHESYVRHLVHEAQR----------------KGYRVVVFNHRGLGGSKLTTPRLFT 177 (409)
T ss_pred CCCCCcEEEEecCCCCC-------ChhHHHHHHHHHHHh----------------CCcEEEEECCCCCCCCccCCCceee
Confidence 34567999999997543 577899988654322 11346888988866544421
Q ss_pred -hHHHHHHHHHHHhcccccccccEEEEEecChHHHHHHHHH
Q 011555 243 -NARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTV 282 (483)
Q Consensus 243 -~~~~~lk~ll~ilq~~YPErL~~i~IVNaP~~f~~lw~iv 282 (483)
--..-++.+++.+...||.+ +++.+-.+.+-.++++-+
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 12467888999999999998 899999999999998843
No 13
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=34.03 E-value=52 Score=29.91 Aligned_cols=78 Identities=15% Similarity=0.208 Sum_probs=40.1
Q ss_pred hcchhhhhhhcccCCCCCCCccccccccCCCCHHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHH
Q 011555 50 ASTKFKHSLKKKSSRRKSDGRVSSVSIEDVRDVEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMW 129 (483)
Q Consensus 50 ~s~~~~~s~~k~~~~~~~~~~~~s~~ied~~d~~E~~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l 129 (483)
...++++.|.+|| -. ..+..-.++++..++++.+...+..........+. ..-.-+.+||..++|+.+.+.+.|
T Consensus 77 g~~~I~~~L~~kG---i~-~~~I~~~l~~~~~d~~e~a~~~~~k~~~~~~~~~~--~~k~Ki~~~L~rkGF~~~~I~~~l 150 (157)
T PRK00117 77 GPRRIRQELRQKG---VD-REIIEEALAELDIDWEELARELARKKFRRPLPDDA--KEKAKLVRFLARRGFSMDVIQRVL 150 (157)
T ss_pred hHHHHHHHHHHcC---CC-HHHHHHHHHHcCccHHHHHHHHHHHHcCCCCCCCH--HHHHHHHHHHHHCCCCHHHHHHHH
Confidence 3456788888887 22 22222233333322232333333333211111000 112468999999999999888777
Q ss_pred HHHH
Q 011555 130 AEML 133 (483)
Q Consensus 130 ~~~l 133 (483)
.+.+
T Consensus 151 ~~~~ 154 (157)
T PRK00117 151 RNAL 154 (157)
T ss_pred Hhhh
Confidence 6543
No 14
>COG4479 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.26 E-value=1.1e+02 Score=24.72 Aligned_cols=52 Identities=19% Similarity=0.443 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcC---CCHHHHHHHHHHHHHHH
Q 011555 85 LQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARK---FDIDKAKHMWAEMLQWR 136 (483)
Q Consensus 85 ~~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArk---fDvekA~k~l~~~l~WR 136 (483)
.....+|-+..-.+...|...+|++.+-+||.... |++..--+.|++|+.|-
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 34455666666667778888899999999998764 55666667788888774
No 15
>PRK14136 recX recombination regulator RecX; Provisional
Probab=32.93 E-value=39 Score=34.85 Aligned_cols=23 Identities=26% Similarity=0.296 Sum_probs=19.1
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHH
Q 011555 109 HMMLRFLKARKFDIDKAKHMWAE 131 (483)
Q Consensus 109 ~~LLRFLrArkfDvekA~k~l~~ 131 (483)
.-+.|||..+.|+.+...+.|..
T Consensus 279 ~K~iRfL~rRGFS~D~I~~vLk~ 301 (309)
T PRK14136 279 AKQARFLAARGFSSATIVKLLKV 301 (309)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHh
Confidence 46789999999999987777753
No 16
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=30.55 E-value=6e+02 Score=25.90 Aligned_cols=42 Identities=24% Similarity=0.315 Sum_probs=29.3
Q ss_pred CCCCeEEEEeCCCCCCCCCchhHHHHHHHHHHHhccccccccc
Q 011555 222 HIDSSTSILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLH 264 (483)
Q Consensus 222 ~i~g~tiIiDl~G~sl~~~~~~~~~~lk~ll~ilq~~YPErL~ 264 (483)
.+...-+|+|- |+++..-....+.+++.+-.+-.-.||-.++
T Consensus 176 GI~~~~IilDP-GiGF~k~~~~n~~ll~~l~~l~~lg~Pilvg 217 (282)
T PRK11613 176 GIAKEKLLLDP-GFGFGKNLSHNYQLLARLAEFHHFNLPLLVG 217 (282)
T ss_pred CCChhhEEEeC-CCCcCCCHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 45556789999 6777544445678888887776667886554
No 17
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=29.23 E-value=3.2e+02 Score=28.82 Aligned_cols=68 Identities=16% Similarity=0.286 Sum_probs=41.4
Q ss_pred hcCcccccCCCCCCcEEEEEcCCCCcchhhhcc-cHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCC
Q 011555 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVT-TMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGL 237 (483)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~-t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl 237 (483)
..||.+.|.|++|++.++.-.|+-|.--+++-. +...|-+..+......+.. ... ..-+|||++..+-
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 357778899999999999988887765433321 3334444444333333321 112 4668999987543
No 18
>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=28.31 E-value=2.6e+02 Score=23.07 Aligned_cols=75 Identities=15% Similarity=0.205 Sum_probs=48.3
Q ss_pred cHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCC-CCCCCCCchhHHHHHHHHHHHhcccccccccEEEEEe
Q 011555 192 TMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQ-GVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIIN 270 (483)
Q Consensus 192 t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~-G~sl~~~~~~~~~~lk~ll~ilq~~YPErL~~i~IVN 270 (483)
+.+++-+ ++..++..++ .-..+.+++|+. ++. .+. .+.+....++... +...+.++-||.
T Consensus 12 t~ed~~~-~~~~~~~~~~------------~~~~~~ll~d~~~~~~--~~~---~~a~~~~~~~~~~-~~~~~~r~AvV~ 72 (109)
T PF11964_consen 12 TEEDYKE-LLPALEELIA------------DHGKIRLLVDLRRDFE--GWS---PEARWEDAKFGLK-HLKHFRRIAVVG 72 (109)
T ss_dssp -HHHHHH-HHHHHHHHHT------------TSSSEEEEEEEC-CEE--EEH---HHHHHHHHHHHCC-CCGGEEEEEEE-
T ss_pred CHHHHHH-HHHHHHHHHh------------cCCceEEEEEecCccC--CCC---HHHHHHHHHhchh-hhcccCEEEEEE
Confidence 4555555 4445555443 235688899988 652 222 3444444555445 788899999999
Q ss_pred cChHHHHHHHHHHhc
Q 011555 271 AGPGFRLLWNTVKSF 285 (483)
Q Consensus 271 aP~~f~~lw~ivKpF 285 (483)
.+.+.+++.+++..|
T Consensus 73 ~~~~~~~~~~~~~~~ 87 (109)
T PF11964_consen 73 DSEWIRMIANFFAAF 87 (109)
T ss_dssp SSCCCHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHhc
Confidence 999999998988886
No 19
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=26.91 E-value=1.2e+02 Score=31.90 Aligned_cols=68 Identities=16% Similarity=0.237 Sum_probs=40.9
Q ss_pred hcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCC
Q 011555 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGL 237 (483)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl 237 (483)
..||.+.|.+++|++.++...|+-|.--+.+-.....|-+..+......+.. .+.. -.+|||++..+-
T Consensus 199 ~~~H~fl~~~~~G~~~~i~t~GN~~~hlilRGg~~pNy~~~di~~~~~~l~~----------~~lp-~~vmVD~SH~ns 266 (344)
T TIGR00034 199 AAPHYFLSVTKDGQMAIVQTSGNPDGHIILRGGKKPNYSAADVAAAKKQLEK----------AGLP-PHLMIDFSHGNS 266 (344)
T ss_pred hCCceeeecCCCCcEEEEECCCCCCEEEEecCCCCCCCCHHHHHHHHHHHHH----------cCCC-CeEEEeCCCccc
Confidence 5688899999999999999888876543332111133433334333333321 1222 358999987553
No 20
>PRK12822 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=25.92 E-value=2.1e+02 Score=30.12 Aligned_cols=85 Identities=14% Similarity=0.043 Sum_probs=47.8
Q ss_pred hcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCC
Q 011555 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLK 238 (483)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~ 238 (483)
..||.+.|.|++|++.++...|+-|..-+++-.....|-...+......+.. ... .-.++|||+.-+-.
T Consensus 204 ~~pH~Fl~i~~~G~~aiv~T~GN~~~HvILRGg~~PNY~~~~v~~a~~~l~~----------~~l-~~~vmVDcSH~NS~ 272 (356)
T PRK12822 204 RSPHLVTVPGLTGCISTLLSDGNPHGHIILRGGREPNYGLSDVTKASKLLHD----------EGL-NHRLIIDCSHGNSQ 272 (356)
T ss_pred cCCCeEEecCCCCcEEEEEcCCCCCceEEEeCCCCCCCCHHHHHHHHHHHHH----------CCC-CCcEEEECCCccCC
Confidence 4578889999999999999999877665444222222322233333333321 112 24589999876543
Q ss_pred CCchhHHHHHHHHHHH
Q 011555 239 NFSKNARELILRLQKI 254 (483)
Q Consensus 239 ~~~~~~~~~lk~ll~i 254 (483)
.-...-..++..++.-
T Consensus 273 K~~~~Q~~V~~~v~~q 288 (356)
T PRK12822 273 KVAKNQISVARELCDQ 288 (356)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 3222224445554443
No 21
>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=24.98 E-value=3e+02 Score=21.59 Aligned_cols=47 Identities=17% Similarity=0.241 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 011555 78 DVRDVEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEML 133 (483)
Q Consensus 78 d~~d~~E~~aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~~l 133 (483)
...++.+++.|.+|-..-. + +- .+-.++|...+||.+.|.+.+.+..
T Consensus 6 ~~~~~~q~~~v~~~~~~Tg---m-----n~-~~s~~cLe~~~Wd~~~Al~~F~~lk 52 (63)
T smart00804 6 PTLSPEQQEMVQAFSAQTG---M-----NA-EYSQMCLEDNNWDYERALKNFTELK 52 (63)
T ss_pred CCCCHHHHHHHHHHHHHHC---C-----CH-HHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 3446777788888776542 1 22 4788999999999999999887643
No 22
>PRK14137 recX recombination regulator RecX; Provisional
Probab=24.56 E-value=1.8e+02 Score=28.04 Aligned_cols=26 Identities=19% Similarity=0.084 Sum_probs=21.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHH
Q 011555 109 HMMLRFLKARKFDIDKAKHMWAEMLQ 134 (483)
Q Consensus 109 ~~LLRFLrArkfDvekA~k~l~~~l~ 134 (483)
.-+.+||..+.|+.+.+...|.+.+.
T Consensus 156 ~K~~~~L~rRGFs~~~I~~al~~~~~ 181 (195)
T PRK14137 156 ASAYAFLARRGFSGAVIWPAIREVAA 181 (195)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence 46889999999999988888887554
No 23
>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=22.30 E-value=1.8e+02 Score=25.56 Aligned_cols=49 Identities=24% Similarity=0.388 Sum_probs=33.3
Q ss_pred EEEeCCCCCCCCCchhHHHHHHHHHHHhcc-----ccccc--ccEEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCC
Q 011555 228 SILDVQGVGLKNFSKNARELILRLQKIDGD-----NYPET--LHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNK 300 (483)
Q Consensus 228 iIiDl~G~sl~~~~~~~~~~lk~ll~ilq~-----~YPEr--L~~i~IVNaP~~f~~lw~ivKpFLdpkTr~KI~f~~~~ 300 (483)
+|||++|..+. .+...+.++|+. +.|.. =..|+|||+ ++|.|.|++
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 58999997664 344455666665 45543 456999998 788888886
Q ss_pred chh
Q 011555 301 YQS 303 (483)
Q Consensus 301 ~~~ 303 (483)
+..
T Consensus 55 ~~~ 57 (114)
T cd00392 55 WRQ 57 (114)
T ss_pred hhc
Confidence 533
No 24
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=21.64 E-value=2.8e+02 Score=29.24 Aligned_cols=84 Identities=10% Similarity=0.101 Sum_probs=48.5
Q ss_pred hcCcccccCCCCCCcEEEEEcCCCCcchhhhcccHHHHHHHHHHHHHHHHHhhChhhhhhhhCCCCCeEEEEeCCCCCCC
Q 011555 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLK 238 (483)
Q Consensus 159 ~~p~~~~G~Dk~GRPVli~rlg~~d~~kl~~~~t~e~~ir~~v~~~E~~l~~~~pa~s~~~~~~i~g~tiIiDl~G~sl~ 238 (483)
..||.+.|.+++|++.++...|+-|..-+++-.....|-...+......+.. .... -.++|||+.-+-.
T Consensus 203 ~~~H~Fl~~~~~G~~aiv~T~GN~~~HvILRGg~~PNY~~~~v~~a~~~l~~----------~~l~-~~imVDcSH~NS~ 271 (348)
T PRK12756 203 RASHMFLSPDKDGQMTIYQTSGNPYGHIIMRGGKKPNYHAEDIAAACDTLRE----------FDLP-EHLVVDFSHGNCQ 271 (348)
T ss_pred hCCCeeEeeCCCCcEEEEEcCCCCCeEEEeeCCCCCCCCHHHHHHHHHHHHH----------CCCC-CcEEEECCCcccC
Confidence 4578889999999999999999887665544222233333333333333321 1222 4589999876543
Q ss_pred CCchhHHHHHHHHHH
Q 011555 239 NFSKNARELILRLQK 253 (483)
Q Consensus 239 ~~~~~~~~~lk~ll~ 253 (483)
.-...-..+++.++.
T Consensus 272 K~~~~Q~~V~~~v~~ 286 (348)
T PRK12756 272 KQHRRQLDVAEDICQ 286 (348)
T ss_pred CCHHHHHHHHHHHHH
Confidence 222222444444444
No 25
>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=20.83 E-value=58 Score=32.54 Aligned_cols=29 Identities=17% Similarity=0.104 Sum_probs=20.2
Q ss_pred ccEEEEEecChHHHHHHHHHHhcCChhhh
Q 011555 263 LHQMFIINAGPGFRLLWNTVKSFLDPKTT 291 (483)
Q Consensus 263 L~~i~IVNaP~~f~~lw~ivKpFLdpkTr 291 (483)
=..|+|||+||.+.-..+-+-++|.+...
T Consensus 205 GSGm~iiNPPw~l~~~l~~~l~~L~~~L~ 233 (245)
T PF04378_consen 205 GSGMLIINPPWTLDEELEEILPWLAETLA 233 (245)
T ss_dssp EEEEEEES--TTHHHHHHHHHHHHHHHSS
T ss_pred cceEEEEcCCccHHHHHHHHHHHHHHHhC
Confidence 35699999999998887877777655443
No 26
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=20.26 E-value=2.9e+02 Score=26.16 Aligned_cols=45 Identities=24% Similarity=0.320 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Q 011555 87 AVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEM 132 (483)
Q Consensus 87 aL~efRe~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~k~l~~~ 132 (483)
+.+.++..+. .+.+|....+..-+.|||..++|+.+.+...|...
T Consensus 120 a~~~~~kk~~-~~~~~~~~~~k~Ki~r~L~~rGFs~~~i~~~l~~~ 164 (174)
T COG2137 120 ARKVLRKKFK-RENKPPDKKEKAKIQRFLLRRGFSYEVIKEALNEA 164 (174)
T ss_pred HHHHHHHHhC-ccccCcchhHHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3333343332 33344444555689999999999999888777654
Done!