Query 013964
Match_columns 433
No_of_seqs 262 out of 1206
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 00:31:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1470 Phosphatidylinositol t 100.0 1.6E-39 3.6E-44 322.5 18.5 206 209-432 46-253 (324)
2 KOG1471 Phosphatidylinositol t 100.0 2.2E-38 4.9E-43 316.2 21.8 215 204-425 36-260 (317)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 8.4E-30 1.8E-34 227.6 10.8 152 259-421 7-159 (159)
4 smart00516 SEC14 Domain in hom 99.9 1.5E-26 3.3E-31 206.3 15.4 145 265-423 14-158 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 2.8E-24 6E-29 188.6 14.9 146 262-421 12-157 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.5 3E-14 6.4E-19 127.3 4.5 141 260-424 3-146 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.8 1.3E-08 2.9E-13 76.7 6.5 30 207-236 26-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.0 5.1E-05 1.1E-09 78.4 10.5 124 266-410 89-212 (467)
9 KOG1534 Putative transcription 61.7 16 0.00034 35.9 5.2 102 304-410 75-191 (273)
10 PF02845 CUE: CUE domain; Int 53.1 27 0.00057 24.6 4.0 28 208-235 13-40 (42)
11 PF14555 UBA_4: UBA-like domai 52.5 21 0.00045 25.4 3.4 24 211-234 14-37 (43)
12 PF14213 DUF4325: Domain of un 48.4 66 0.0014 25.4 6.1 46 327-376 20-67 (74)
13 smart00546 CUE Domain that may 46.9 34 0.00073 24.1 3.8 27 208-234 14-40 (43)
14 PF03641 Lysine_decarbox: Poss 37.0 90 0.0019 27.5 5.7 62 344-408 65-133 (133)
15 PF08938 HBS1_N: HBS1 N-termin 33.0 17 0.00037 29.4 0.5 26 211-236 45-70 (79)
16 PF07462 MSP1_C: Merozoite sur 28.5 1.1E+02 0.0023 33.8 5.5 26 86-111 350-375 (574)
17 TIGR02364 dha_pts dihydroxyace 28.4 2.6E+02 0.0056 24.6 7.1 51 323-384 60-110 (125)
18 PF07592 DDE_Tnp_ISAZ013: Rhod 24.3 3.2E+02 0.0069 28.1 7.8 33 320-352 180-212 (311)
19 PF04838 Baculo_LEF5: Baculovi 24.0 58 0.0013 30.0 2.2 48 346-394 17-68 (159)
20 PF00627 UBA: UBA/TS-N domain; 23.6 1.3E+02 0.0028 20.4 3.4 23 211-233 15-37 (37)
21 smart00165 UBA Ubiquitin assoc 23.4 1.3E+02 0.0027 20.1 3.4 23 211-233 14-36 (37)
22 cd00194 UBA Ubiquitin Associat 23.0 1.3E+02 0.0029 20.1 3.4 24 211-234 14-37 (38)
23 PF06394 Pepsin-I3: Pepsin inh 22.1 58 0.0013 26.6 1.7 25 109-133 34-58 (76)
24 PF04548 AIG1: AIG1 family; I 21.8 2.6E+02 0.0057 26.2 6.4 71 324-395 49-122 (212)
25 PRK14484 phosphotransferase ma 20.7 2.3E+02 0.0051 25.0 5.4 49 323-384 58-106 (124)
No 1
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=1.6e-39 Score=322.50 Aligned_cols=206 Identities=31% Similarity=0.548 Sum_probs=181.1
Q ss_pred CCCHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHcCCCc-cCccchhhhc-cceEeeeccCCCCCeEEEEEcCCcChhhh
Q 013964 209 DRTDVILLKFLRARDFKVRDAFVMIKNTIQWRKDFGIEA-LLNEDLGDDL-EKVVFMHGFDRDGHPVCYNVYGEFQNKQL 286 (433)
Q Consensus 209 ~~dD~~LLRFLRArkfdVekA~~mLk~~l~WRk~~~iD~-i~~e~~~~el-~~~~~~~G~Dk~GrPV~~~r~g~~d~k~l 286 (433)
.++|.+||||||||+|||++|.+||.+++.||+.+++.. +..+.+..++ .|++|++|+|+.||||+|+++..-.
T Consensus 46 ~~~d~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~~~~Ev~~e~~tGK~yi~G~D~~gRPVl~~~~~~~~---- 121 (324)
T KOG1470|consen 46 WCSDACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEVIEADEVAAELETGKAYILGHDKDGRPVLYLRPRPHR---- 121 (324)
T ss_pred cCcHHHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCccccCHHHHHHHhhcCcEEEecccCCCCeEEEEecCCCC----
Confidence 458999999999999999999999999999999999988 5555555454 6889999999999999999654211
Q ss_pred hhhccCCHHHHHHHHHHHHHHHHHHHHHhccCCCCeeEEEEEeeCCCCCCCCchhHHHHHHHHHHHHhhhcccccceEEE
Q 013964 287 YAKTFSDEEKRMKFLRWRIQFLERSIRKLNFRPGGVSTIFQVNDLKNSPGPGKRELRIATKQALQLLQDNYPEFVAKQVF 366 (433)
Q Consensus 287 ~~~t~~d~e~~~d~lr~~i~l~E~~ir~l~~~~~~i~~itvIiDlkg~sgls~~~L~~~~k~il~llq~nYPErL~rI~I 366 (433)
+++ .+...+.|+++|+||.++..| +.++.++++|+|++|+| +++.+ .++.+.++.+||+||||||+..+|
T Consensus 122 -qn~----~t~~~~~r~~Vy~mE~Ai~~l---p~~qe~~~~L~D~~~fs-~sN~d-~~~~k~~~~~lq~hYPErLg~a~l 191 (324)
T KOG1470|consen 122 -QNT----KTQKELERLLVYTLENAILFL---PPGQEQFVWLFDLTGFS-MSNPD-IKFLKELLHILQDHYPERLGKALL 191 (324)
T ss_pred -CCC----CCHHHHHHHHHHHHHHHHHhC---CCCcceEEEEEecccCc-ccCCC-cHHHHHHHHHHHHhChHHhhhhhh
Confidence 112 246889999999999998665 78899999999999985 55666 678999999999999999999999
Q ss_pred EeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCCCCCCcccCCCCcCCCCccCCCC
Q 013964 367 INVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNIILSLPILYVVALLFGWLSSRFN 432 (433)
Q Consensus 367 INaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~~e~LP~eyGGt~~~~~~~~~y~ 432 (433)
+|+||+|..+|++|||||++.|++||+|+.+ ...|.+|||+ ++||..|||+..+.|.+++|.
T Consensus 192 ~~~P~iF~~~wkiikpflDp~t~~Kv~F~~~---~~~l~~~~d~-~~l~s~~GG~~~~~y~~e~~~ 253 (324)
T KOG1470|consen 192 VNAPWIFQPFWKIIKPFLDPKTASKVKFVEP---KDDLSEYFDE-SQLPSLFGGKLLFEYTHEEYW 253 (324)
T ss_pred cCChHHHHHHHHHhhhccChhhhceeEEecC---hhHHHhhCCc-cccchhhCCCcccccCCcchh
Confidence 9999999999999999999999999999986 4569999999 999999999999999998863
No 2
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=2.2e-38 Score=316.16 Aligned_cols=215 Identities=29% Similarity=0.434 Sum_probs=180.8
Q ss_pred CCCCC-CCCHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHcCCCccCccchh-hhccc--eEeeeccCCCCCeEEEEEcC
Q 013964 204 PLLKD-DRTDVILLKFLRARDFKVRDAFVMIKNTIQWRKDFGIEALLNEDLG-DDLEK--VVFMHGFDRDGHPVCYNVYG 279 (433)
Q Consensus 204 pll~~-~~dD~~LLRFLRArkfdVekA~~mLk~~l~WRk~~~iD~i~~e~~~-~el~~--~~~~~G~Dk~GrPV~~~r~g 279 (433)
|++++ ..+|.+||||||||+||+++|.+||.+++.||+++++|.+...... .++.+ ...++|.|+.|+||++.+.|
T Consensus 36 ~~l~~~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~d~i~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g 115 (317)
T KOG1471|consen 36 PHLPNKYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKLDEIFEDFEEDDELLKYYPQGLHGVDKEGRPVYIERLG 115 (317)
T ss_pred cCCCCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCccHhhccccchhhhhhccccccccCCCCCEEEEeccC
Confidence 34553 7889999999999999999999999999999999999998875221 33333 24689999999999999999
Q ss_pred CcChhhhhhhccCCHHHHHHHHHHHHHHHHHHHHHh-----ccCCCCeeEEEEEeeCCCCCCCCchh-HHHHHHHHHHHH
Q 013964 280 EFQNKQLYAKTFSDEEKRMKFLRWRIQFLERSIRKL-----NFRPGGVSTIFQVNDLKNSPGPGKRE-LRIATKQALQLL 353 (433)
Q Consensus 280 ~~d~k~l~~~t~~d~e~~~d~lr~~i~l~E~~ir~l-----~~~~~~i~~itvIiDlkg~sgls~~~-L~~~~k~il~ll 353 (433)
..|.+.++..+. ..+++++.+..+|+....+ ......++++++|+||+|+++.++.. .+..++.++.++
T Consensus 116 ~~~~~~l~~~~~-----~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~~I~Dl~G~~~~~~~~~~~~~~~~~~~~~ 190 (317)
T KOG1471|consen 116 KIDPKGLLKRTG-----SLDYLKYHFKEFEKVFKLVLELELKTGERQISGIVTIFDLKGVSLSHLLKPAPTLLKKILKIL 190 (317)
T ss_pred CCCcccceeecc-----HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeEEEEECCCCcchhHHHHHHHHHHHHHHHH
Confidence 999999987663 4677777777777766432 11146799999999999886554433 267799999999
Q ss_pred hhhcccccceEEEEeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCCCCCCcccCCCCcCCC
Q 013964 354 QDNYPEFVAKQVFINVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNIILSLPILYVVALLFG 425 (433)
Q Consensus 354 q~nYPErL~rI~IINaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~~e~LP~eyGGt~~~~ 425 (433)
++|||++++++||||+|++|+++|++|||||+++|++||+++++ ++.++|++||++ ++||.+|||++.+.
T Consensus 191 q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~-~~~~~L~k~i~~-~~LP~~yGG~~~~~ 260 (317)
T KOG1471|consen 191 QDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHS-KDKESLLKYIPP-EVLPEEYGGTCGDL 260 (317)
T ss_pred HHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecCC-CchhhhhhhCCH-hhCccccCCCcccc
Confidence 99999999999999999999999999999999999999995553 589999999999 99999999999984
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=99.96 E-value=8.4e-30 Score=227.55 Aligned_cols=152 Identities=30% Similarity=0.508 Sum_probs=121.6
Q ss_pred ceEeeeccCCCCCeEEEEEcCCcChhhhhhhccCCHHHHHHHHHHHHHHHHHHHHHhccCCCCeeEEEEEeeCCCCCCCC
Q 013964 259 KVVFMHGFDRDGHPVCYNVYGEFQNKQLYAKTFSDEEKRMKFLRWRIQFLERSIRKLNFRPGGVSTIFQVNDLKNSPGPG 338 (433)
Q Consensus 259 ~~~~~~G~Dk~GrPV~~~r~g~~d~k~l~~~t~~d~e~~~d~lr~~i~l~E~~ir~l~~~~~~i~~itvIiDlkg~sgls 338 (433)
+..+++|+|++||||+|+++|++|.... +.++++++.++++|.+++.+.. .+.++++++|+|++|++..+
T Consensus 7 ~~~~~~g~D~~gr~v~~~~~~~~~~~~~---------~~~~~~~~~~~~~E~~~~~~~~-~~~~~~~~~iiD~~g~~~~~ 76 (159)
T PF00650_consen 7 GPFYLHGRDKDGRPVIYIRLGRFDPKKF---------SPEDVIRFFVYLLERMLKRMPE-GGQVEGIVVIIDLSGFSLSN 76 (159)
T ss_dssp SCEEEEEE-TTS-EEEEEEGTT--HHTS----------HHHHHHHHHHHHHHHHHTHHH-TSHHH-EEEEEE-TT--HHH
T ss_pred eeEEECCCCCCcCEEEEEEcccCCCCcC---------CHHHHHHHHHHHHHHHHhhhcc-cccceeEEEEEeCCCceEec
Confidence 4578999999999999999999988743 3578999999999999976643 46789999999999874211
Q ss_pred chh-HHHHHHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCCCCCCccc
Q 013964 339 KRE-LRIATKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNIILSLPIL 417 (433)
Q Consensus 339 ~~~-L~~~~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~~e~LP~e 417 (433)
... ..+.++.++++++++||++++++||||+|++|+++|+++++||+++|++||+++++.++.+.|.+||++ ++||.+
T Consensus 77 ~~~~~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~-~~lP~~ 155 (159)
T PF00650_consen 77 FDWWPISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDP-EQLPVE 155 (159)
T ss_dssp HHCHHHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTG-GGSBGG
T ss_pred cccchhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCH-hHCchh
Confidence 110 156789999999999999999999999999999999999999999999999999765666799999999 999999
Q ss_pred CCCC
Q 013964 418 YVVA 421 (433)
Q Consensus 418 yGGt 421 (433)
|||+
T Consensus 156 ~GG~ 159 (159)
T PF00650_consen 156 YGGT 159 (159)
T ss_dssp GTSS
T ss_pred cCCC
Confidence 9996
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=99.94 E-value=1.5e-26 Score=206.31 Aligned_cols=145 Identities=30% Similarity=0.542 Sum_probs=128.3
Q ss_pred ccCCCCCeEEEEEcCCcChhhhhhhccCCHHHHHHHHHHHHHHHHHHHHHhccCCCCeeEEEEEeeCCCCCCCCchhHHH
Q 013964 265 GFDRDGHPVCYNVYGEFQNKQLYAKTFSDEEKRMKFLRWRIQFLERSIRKLNFRPGGVSTIFQVNDLKNSPGPGKRELRI 344 (433)
Q Consensus 265 G~Dk~GrPV~~~r~g~~d~k~l~~~t~~d~e~~~d~lr~~i~l~E~~ir~l~~~~~~i~~itvIiDlkg~sgls~~~L~~ 344 (433)
|+|++||||+|+++|+++.+.. +.+++++++++.+|.+++.. ..+..+.++++|+|++|++..+ .. ++
T Consensus 14 g~D~~GrpV~~~~~~~~~~~~~---------~~~~~~~~~~~~~e~~~~~~-~~~~~~~~~~~i~D~~~~~~~~-~~-~~ 81 (158)
T smart00516 14 GYDKDGRPVLIFRAGRFDLKSV---------TLEELLRYLVYVLEKILQRE-KKTGGIEGFTVIFDLKGLSMSN-PD-LS 81 (158)
T ss_pred CCCCCcCEEEEEeccccccCcC---------CHHHHHHHHHHHHHHHHHHH-hcCCCeeeEEEEEECCCCCccc-cc-HH
Confidence 6999999999999999875432 46899999999999998752 2357789999999999886433 23 67
Q ss_pred HHHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCCCCCCcccCCCCcC
Q 013964 345 ATKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNIILSLPILYVVALL 423 (433)
Q Consensus 345 ~~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~~e~LP~eyGGt~~ 423 (433)
.++.++.+++++||++++++||||+|++|.++|+++++||++++++||+++++ ++.+.|.+||++ ++||.+|||++.
T Consensus 82 ~lk~~~~~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~-~~~~~L~~~i~~-~~lP~~~GG~~~ 158 (158)
T smart00516 82 VLRKILKILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGN-DSKEELLEYIDP-EQLPEELGGTLD 158 (158)
T ss_pred HHHHHHHHHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCC-CCHHHHHhhCCH-hhCcHhhCCCCC
Confidence 89999999999999999999999999999999999999999999999999996 467899999999 999999999974
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=99.92 E-value=2.8e-24 Score=188.59 Aligned_cols=146 Identities=27% Similarity=0.452 Sum_probs=123.5
Q ss_pred eeeccCCCCCeEEEEEcCCcChhhhhhhccCCHHHHHHHHHHHHHHHHHHHHHhccCCCCeeEEEEEeeCCCCCCCCchh
Q 013964 262 FMHGFDRDGHPVCYNVYGEFQNKQLYAKTFSDEEKRMKFLRWRIQFLERSIRKLNFRPGGVSTIFQVNDLKNSPGPGKRE 341 (433)
Q Consensus 262 ~~~G~Dk~GrPV~~~r~g~~d~k~l~~~t~~d~e~~~d~lr~~i~l~E~~ir~l~~~~~~i~~itvIiDlkg~sgls~~~ 341 (433)
+..|+|++||||++.++++.+..... +.++++++.++.+|.+++.+.. ..+++++|+|++|++..++..
T Consensus 12 ~~~~~D~~gr~V~~~~~~~~~~~~~~--------~~~~~~~~~~~~~e~~~~~~~~---~~~~~~~i~D~~~~~~~~~~~ 80 (157)
T cd00170 12 YLGGRDKEGRPVLIIRAGNKDLSKSL--------DSEELLRYLVYTLEKLLQEDDE---QVEGFVVIIDLKGLSLSHLLP 80 (157)
T ss_pred ccCCCCCCcCEEEEEecCCcchhhcC--------CHHHHHHHHHHHHHHHHhhhhh---cccceEEEEECCCCChhccch
Confidence 34456999999999999975554331 1378899999999999876543 236899999999886433321
Q ss_pred HHHHHHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCCCCCCcccCCCC
Q 013964 342 LRIATKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNIILSLPILYVVA 421 (433)
Q Consensus 342 L~~~~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~~e~LP~eyGGt 421 (433)
..+.++.++.+++++||++++++||||+|++|.++|+++++|+++++++||+++++. .+.|.+||++ ++||.+|||+
T Consensus 81 ~~~~~k~~~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~--~~~L~~~i~~-~~Lp~~~GG~ 157 (157)
T cd00170 81 DPSLLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSD--KEELLKYIDK-EQLPEEYGGT 157 (157)
T ss_pred hHHHHHHHHHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCC--HHHHHhhCCh-hhCcHhhCCC
Confidence 257799999999999999999999999999999999999999999999999999863 7899999999 9999999996
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.47 E-value=3e-14 Score=127.34 Aligned_cols=141 Identities=21% Similarity=0.305 Sum_probs=92.3
Q ss_pred eEeeeccCCCCCeEEEEEcCCcChhhhhhhccCCHHHHHHHHHHHHHHH-HHHHHHhccCCCCeeEEEEEeeCCCCCCCC
Q 013964 260 VVFMHGFDRDGHPVCYNVYGEFQNKQLYAKTFSDEEKRMKFLRWRIQFL-ERSIRKLNFRPGGVSTIFQVNDLKNSPGPG 338 (433)
Q Consensus 260 ~~~~~G~Dk~GrPV~~~r~g~~d~k~l~~~t~~d~e~~~d~lr~~i~l~-E~~ir~l~~~~~~i~~itvIiDlkg~sgls 338 (433)
.++..|+|++||||+++...++ ... .+.+.++.|.+..+ +. + ...++++|+|+++.+..+
T Consensus 3 ~~~~gG~d~~g~pV~~~~~~~~-~~~---------~~~~~ll~yl~~~l~~~----~-----~~~~f~vVid~~~~~~~~ 63 (149)
T PF13716_consen 3 FFYPGGRDREGRPVVVFIASRL-PSS---------DDLERLLLYLLSTLSEE----V-----VDKPFSVVIDHTGFSRSS 63 (149)
T ss_dssp E-EEEEEBTTS-EEEEEEGGG--C-T---------THHHHHHHHHHHHH-TT----T-----TTS-EEEEEE-TT--GGG
T ss_pred EEEecccCCCcCEEEEEECCcC-cch---------hhHHHHHHHHHHhhhHH----h-----cCCCEEEEEEcCCCcccc
Confidence 3567889999999999986655 211 13455555554444 22 1 123499999999874323
Q ss_pred chhHHHHHHHHHHHHhhhcccccceEEEEeCCHHHHHHH-HHHhhcCCHhh-hcceEEeCCCCChhHHhhhCCCCCCCcc
Q 013964 339 KRELRIATKQALQLLQDNYPEFVAKQVFINVPWWYLAFH-TMISPFMTQRT-KSKFVFAGPSKSTETLFKLVNIILSLPI 416 (433)
Q Consensus 339 ~~~L~~~~k~il~llq~nYPErL~rI~IINaP~~f~~vw-~lVKpFLs~kT-r~KI~ilg~~~~~e~L~k~Id~~e~LP~ 416 (433)
... |+.++++..++...|+..|+++||||+.++++.++ .+.+++++.+. ..||+++.+ ...|.+||++ ++||.
T Consensus 64 ~~~-~~~l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~s---l~~L~~~i~~-~qL~~ 138 (149)
T PF13716_consen 64 EPS-LSWLKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSS---LSELSKHIDP-SQLPE 138 (149)
T ss_dssp ----HHHHHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESS---TCGGGGTSGG-GG---
T ss_pred CCc-hHHHHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECC---HHHHHhhCCH-HHhcc
Confidence 223 78899999999999999999999999999999999 55567778888 999999975 7899999999 99999
Q ss_pred cCCCCcCC
Q 013964 417 LYVVALLF 424 (433)
Q Consensus 417 eyGGt~~~ 424 (433)
.+||++.+
T Consensus 139 ~lp~~~~~ 146 (149)
T PF13716_consen 139 SLPGVLQY 146 (149)
T ss_dssp ---HHH--
T ss_pred cCCCEEec
Confidence 99977653
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=98.80 E-value=1.3e-08 Score=76.73 Aligned_cols=30 Identities=57% Similarity=0.908 Sum_probs=25.7
Q ss_pred CCCCCHHHHHHHhHhcCCCHHHHHHHHHHH
Q 013964 207 KDDRTDVILLKFLRARDFKVRDAFVMIKNT 236 (433)
Q Consensus 207 ~~~~dD~~LLRFLRArkfdVekA~~mLk~~ 236 (433)
...++|.+||||||||+|||++|++||++|
T Consensus 26 ~~~~~d~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 26 KEDHDDNFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp TSS-SHHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHHccCCHHHHHHHHHhC
Confidence 356799999999999999999999999986
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=97.95 E-value=5.1e-05 Score=78.35 Aligned_cols=124 Identities=10% Similarity=0.236 Sum_probs=88.9
Q ss_pred cCCCCCeEEEEEcCCcChhhhhhhccCCHHHHHHHHHHHHHHHHHHHHHhccCCCCeeEEEEEeeCCCCCCCCchhHHHH
Q 013964 266 FDRDGHPVCYNVYGEFQNKQLYAKTFSDEEKRMKFLRWRIQFLERSIRKLNFRPGGVSTIFQVNDLKNSPGPGKRELRIA 345 (433)
Q Consensus 266 ~Dk~GrPV~~~r~g~~d~k~l~~~t~~d~e~~~d~lr~~i~l~E~~ir~l~~~~~~i~~itvIiDlkg~sgls~~~L~~~ 345 (433)
.|+.||.|+++...++-...= -.-..++++.++.++..++. . ++.+.=-.|.+ ..++.-.+.
T Consensus 89 ~D~~gr~iivv~a~rlp~~~e--------ld~~~li~~~v~~id~~Ve~----D-----Yt~vYfh~gl~-s~nkp~l~~ 150 (467)
T KOG4406|consen 89 KDKQGRKIIVVYACRLPSSSE--------LDDIRLISYLVYTIDKYVEN----D-----YTLVYFHHGLP-SDNKPYLQL 150 (467)
T ss_pred ccccCCeeEEEEEecCCchhh--------hhhHHHHHHHHHHHHHHHhc----c-----ceeeehhcCCc-ccccchHHH
Confidence 699999999988877654321 11234889999999998863 1 22222123221 122332344
Q ss_pred HHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcCCHhhhcceEEeCCCCChhHHhhhCCC
Q 013964 346 TKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFMTQRTKSKFVFAGPSKSTETLFKLVNI 410 (433)
Q Consensus 346 ~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFLs~kTr~KI~ilg~~~~~e~L~k~Id~ 410 (433)
+.....-+-.||---++.+|+|.+-|+..++|+++|||++.+..+||+.+.. ..+|.++|.-
T Consensus 151 l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~n~---lseL~~~l~l 212 (467)
T KOG4406|consen 151 LFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYFNS---LSELFEALKL 212 (467)
T ss_pred HHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEeeh---HHHHHHhhhh
Confidence 4445555666788889999999999999999999999999999999999964 7889888765
No 9
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=61.74 E-value=16 Score=35.85 Aligned_cols=102 Identities=14% Similarity=0.170 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHhccC---CCCeeEEEEEeeCCCCCCCC-chhHHHHHHHHHHHHhhhcccccceEEEEeCCH------HH
Q 013964 304 RIQFLERSIRKLNFR---PGGVSTIFQVNDLKNSPGPG-KRELRIATKQALQLLQDNYPEFVAKQVFINVPW------WY 373 (433)
Q Consensus 304 ~i~l~E~~ir~l~~~---~~~i~~itvIiDlkg~sgls-~~~L~~~~k~il~llq~nYPErL~rI~IINaP~------~f 373 (433)
.+|+||.++..++.. .+..+.-.+|+||-|- .- ..| ...+++++..++. .--++..+|++..++ ||
T Consensus 75 Lv~cmEyl~~NldwL~~~~Gd~eddylifDcPGQ--IELytH-~pVm~~iv~hl~~-~~F~~c~Vylldsqf~vD~~Kfi 150 (273)
T KOG1534|consen 75 LVYCMEYLLENLDWLEEEIGDVEDDYLIFDCPGQ--IELYTH-LPVMPQIVEHLKQ-WNFNVCVVYLLDSQFLVDSTKFI 150 (273)
T ss_pred chhHHHHHHHHHHHHHhhccCccCCEEEEeCCCe--eEEeec-ChhHHHHHHHHhc-ccCceeEEEEeccchhhhHHHHH
Confidence 578888888776543 3555667889999863 11 233 3567888888887 444566666666555 45
Q ss_pred HHHHHHHhhcC----CH-hhhcceEEeCCCCChhHHhhhCCC
Q 013964 374 LAFHTMISPFM----TQ-RTKSKFVFAGPSKSTETLFKLVNI 410 (433)
Q Consensus 374 ~~vw~lVKpFL----s~-kTr~KI~ilg~~~~~e~L~k~Id~ 410 (433)
+.++..+..++ +. +..+|.-++++ +.++.|.+|+++
T Consensus 151 SG~lsAlsAMi~lE~P~INvlsKMDLlk~-~~k~~l~~Fl~~ 191 (273)
T KOG1534|consen 151 SGCLSALSAMISLEVPHINVLSKMDLLKD-KNKKELERFLNP 191 (273)
T ss_pred HHHHHHHHHHHHhcCcchhhhhHHHHhhh-hhHHHHHHhcCC
Confidence 54444433332 22 45677777765 567888888887
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=53.10 E-value=27 Score=24.58 Aligned_cols=28 Identities=18% Similarity=0.157 Sum_probs=23.7
Q ss_pred CCCCHHHHHHHhHhcCCCHHHHHHHHHH
Q 013964 208 DDRTDVILLKFLRARDFKVRDAFVMIKN 235 (433)
Q Consensus 208 ~~~dD~~LLRFLRArkfdVekA~~mLk~ 235 (433)
+..+...|.+-|+++++|++.|..+|-.
T Consensus 13 P~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 13 PDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp SSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4578899999999999999999998854
No 11
>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=52.47 E-value=21 Score=25.35 Aligned_cols=24 Identities=13% Similarity=0.307 Sum_probs=20.4
Q ss_pred CHHHHHHHhHhcCCCHHHHHHHHH
Q 013964 211 TDVILLKFLRARDFKVRDAFVMIK 234 (433)
Q Consensus 211 dD~~LLRFLRArkfdVekA~~mLk 234 (433)
++..-..||.+++||++.|+..+-
T Consensus 14 ~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHHHH
Confidence 678899999999999999998864
No 12
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=48.42 E-value=66 Score=25.37 Aligned_cols=46 Identities=15% Similarity=0.065 Sum_probs=31.2
Q ss_pred EEeeCCCCCCCCchhHHHHHHHHHHHHhhhcc--cccceEEEEeCCHHHHHH
Q 013964 327 QVNDLKNSPGPGKRELRIATKQALQLLQDNYP--EFVAKQVFINVPWWYLAF 376 (433)
Q Consensus 327 vIiDlkg~sgls~~~L~~~~k~il~llq~nYP--ErL~rI~IINaP~~f~~v 376 (433)
+++|+.|+.+++ .+++..++.-+...|+ +.-.++.++|+.......
T Consensus 20 V~lDF~gv~~~~----ssFl~eafg~l~~~~~~~~~~~~l~~~~~~~~~~~~ 67 (74)
T PF14213_consen 20 VVLDFEGVESIT----SSFLNEAFGQLVREFGEEEIKKRLKFKNANESIKEM 67 (74)
T ss_pred EEEECCCccccc----HHHHHHHHHHHHHHcCHHHHhheeEEecCCHHHHHH
Confidence 789999986544 3455666666666666 556788889987555433
No 13
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=46.85 E-value=34 Score=24.09 Aligned_cols=27 Identities=11% Similarity=0.124 Sum_probs=24.0
Q ss_pred CCCCHHHHHHHhHhcCCCHHHHHHHHH
Q 013964 208 DDRTDVILLKFLRARDFKVRDAFVMIK 234 (433)
Q Consensus 208 ~~~dD~~LLRFLRArkfdVekA~~mLk 234 (433)
|..++..+.+-|+++++|++.|..+|.
T Consensus 14 P~l~~~~I~~~L~~~~g~ve~~i~~LL 40 (43)
T smart00546 14 PNLDEEVIKAVLEANNGNVEATINNLL 40 (43)
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 457889999999999999999998875
No 14
>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=36.98 E-value=90 Score=27.47 Aligned_cols=62 Identities=8% Similarity=0.121 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhhcccc-cc-eEEEEeCCHHHHHHHHHH-----hhcCCHhhhcceEEeCCCCChhHHhhhC
Q 013964 344 IATKQALQLLQDNYPEF-VA-KQVFINVPWWYLAFHTMI-----SPFMTQRTKSKFVFAGPSKSTETLFKLV 408 (433)
Q Consensus 344 ~~~k~il~llq~nYPEr-L~-rI~IINaP~~f~~vw~lV-----KpFLs~kTr~KI~ilg~~~~~e~L~k~I 408 (433)
..+-.++.++.-.+=+. -+ .++++|..-++.-++.++ .-|++++....+.++.+ .+++.++|
T Consensus 65 GTl~El~~~~~~~~l~~~~~~Piil~~~~g~w~~l~~~l~~~~~~g~i~~~~~~~~~~~d~---~~e~~~~i 133 (133)
T PF03641_consen 65 GTLDELFEALTLMQLGRHNKVPIILLNIDGFWDPLLEFLDRMIEEGFISPDDLDLLHFVDD---PEEALEYI 133 (133)
T ss_dssp HHHHHHHHHHHHHHTTSSTS-EEEEEECGGCCHHHHHHHHHHHHTTSSSHHHHCCEEEESS---HHHHHHHH
T ss_pred chHHHHHHHHHHHhhccccCCCEEEeCCcchHHHHHHHHHHHHHCCCCCHHHCCeEEEeCC---HHHHHhhC
Confidence 33455555555333333 33 699999887777777876 57899999999999975 67777664
No 15
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=33.00 E-value=17 Score=29.36 Aligned_cols=26 Identities=15% Similarity=0.135 Sum_probs=21.2
Q ss_pred CHHHHHHHhHhcCCCHHHHHHHHHHH
Q 013964 211 TDVILLKFLRARDFKVRDAFVMIKNT 236 (433)
Q Consensus 211 dD~~LLRFLRArkfdVekA~~mLk~~ 236 (433)
++..|..=|..+.|||++|+..|++.
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 67788889999999999999998764
No 16
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=28.49 E-value=1.1e+02 Score=33.80 Aligned_cols=26 Identities=15% Similarity=0.036 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCcCCcccCcccccCc
Q 013964 86 KQPPPVQPEEPKIPQTLISFKEESNV 111 (433)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~s~~~~s~~ 111 (433)
+|-..+..+.....--|+-+.-|..+
T Consensus 350 dQV~tGeae~~~~e~Iv~~~~nEyev 375 (574)
T PF07462_consen 350 DQVTTGEAENAQPENIVPEGINEYEV 375 (574)
T ss_pred ccceeccccccchhhhhcCcCCccce
Confidence 55544444443322223334445544
No 17
>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=28.35 E-value=2.6e+02 Score=24.63 Aligned_cols=51 Identities=22% Similarity=0.226 Sum_probs=33.9
Q ss_pred eEEEEEeeCCCCCCCCchhHHHHHHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcC
Q 013964 323 STIFQVNDLKNSPGPGKRELRIATKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFM 384 (433)
Q Consensus 323 ~~itvIiDlkg~sgls~~~L~~~~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFL 384 (433)
++++++.|| |.+-++ . ..++.++. ++.++++.++|+|.+..++-..+..-.
T Consensus 60 dgVlvl~DL-Ggs~~n-~------e~a~~~l~---~~~~~~v~g~nlPlvega~~aa~~~~~ 110 (125)
T TIGR02364 60 DGVLIFYDL-GSAVMN-A------EMAVELLE---DEDRDKVHLVDAPLVEGAFAAAVEAQV 110 (125)
T ss_pred CCEEEEEcC-CCcHhH-H------HHHHHHhc---cccccEEEEechhHHHHHHHHHHHHcC
Confidence 568999999 643211 1 12333332 355689999999999998888776443
No 18
>PF07592 DDE_Tnp_ISAZ013: Rhodopirellula transposase DDE domain; InterPro: IPR011518 These transposases are found in the planctomycete Rhodopirellula baltica, the cyanobacterium Nostoc, and the Gram-positive bacterium Streptomyces. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.27 E-value=3.2e+02 Score=28.11 Aligned_cols=33 Identities=12% Similarity=0.097 Sum_probs=20.6
Q ss_pred CCeeEEEEEeeCCCCCCCCchhHHHHHHHHHHH
Q 013964 320 GGVSTIFQVNDLKNSPGPGKRELRIATKQALQL 352 (433)
Q Consensus 320 ~~i~~itvIiDlkg~sgls~~~L~~~~k~il~l 352 (433)
.....+++..|..|.++...+.+..-+..+..-
T Consensus 180 p~a~~lli~~D~GgsN~~r~r~wk~~L~~la~~ 212 (311)
T PF07592_consen 180 PHAKRLLITADNGGSNGSRRRLWKKRLQELADE 212 (311)
T ss_pred CchheEEEeccCCCCccchhHHHHHHHHHHHHH
Confidence 456789999999988765554433334444433
No 19
>PF04838 Baculo_LEF5: Baculoviridae late expression factor 5 ; InterPro: IPR006923 This is a family of Baculoviridae late expression factor 5, required for late and very late gene expression.; GO: 0006355 regulation of transcription, DNA-dependent
Probab=24.00 E-value=58 Score=29.95 Aligned_cols=48 Identities=19% Similarity=0.391 Sum_probs=41.4
Q ss_pred HHHHHHHHhhhcccccc--eEEEEeCCHHHHHHHHHHhhcCCH--hhhcceEE
Q 013964 346 TKQALQLLQDNYPEFVA--KQVFINVPWWYLAFHTMISPFMTQ--RTKSKFVF 394 (433)
Q Consensus 346 ~k~il~llq~nYPErL~--rI~IINaP~~f~~vw~lVKpFLs~--kTr~KI~i 394 (433)
.+.++..|..|||.-++ ..-++|.+-.|.++|.-| |-++. +-|+.|++
T Consensus 17 y~~LI~fL~~nyp~nVKNkTFNF~nTGHlFHsLYAYv-P~~s~~~kERKQIRL 68 (159)
T PF04838_consen 17 YKELIDFLITNYPKNVKNKTFNFANTGHLFHSLYAYV-PSVSNVEKERKQIRL 68 (159)
T ss_pred HHHHHHHHHhhcccccccCeeecCCCchhhhhhhhcc-CCCchHhHHHHHhhh
Confidence 57889999999999998 899999999999999876 56666 77777776
No 20
>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=23.63 E-value=1.3e+02 Score=20.42 Aligned_cols=23 Identities=22% Similarity=0.067 Sum_probs=17.3
Q ss_pred CHHHHHHHhHhcCCCHHHHHHHH
Q 013964 211 TDVILLKFLRARDFKVRDAFVMI 233 (433)
Q Consensus 211 dD~~LLRFLRArkfdVekA~~mL 233 (433)
+.....+-|+++++|++.|...|
T Consensus 15 ~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 15 SREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp -HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHhC
Confidence 34577788888888988887754
No 21
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=23.44 E-value=1.3e+02 Score=20.11 Aligned_cols=23 Identities=30% Similarity=0.189 Sum_probs=19.3
Q ss_pred CHHHHHHHhHhcCCCHHHHHHHH
Q 013964 211 TDVILLKFLRARDFKVRDAFVMI 233 (433)
Q Consensus 211 dD~~LLRFLRArkfdVekA~~mL 233 (433)
+....++-|+.+++|+++|...|
T Consensus 14 ~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 14 SREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHH
Confidence 45688999999999999997654
No 22
>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=22.96 E-value=1.3e+02 Score=20.10 Aligned_cols=24 Identities=25% Similarity=0.123 Sum_probs=20.3
Q ss_pred CHHHHHHHhHhcCCCHHHHHHHHH
Q 013964 211 TDVILLKFLRARDFKVRDAFVMIK 234 (433)
Q Consensus 211 dD~~LLRFLRArkfdVekA~~mLk 234 (433)
+....++-|+++++|+++|...|.
T Consensus 14 ~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 14 SREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHh
Confidence 467888999999999999987663
No 23
>PF06394 Pepsin-I3: Pepsin inhibitor-3-like repeated domain; InterPro: IPR010480 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The members of this group of proteins belong to MEROPS inhibitor family I33, clan IR; the nematode aspartyl protease inhibitors or Aspins. They are restricted to parasitic nematode species. Structural features common to the nematode Aspins include the presence of a signal peptide sequence and the conservation of all four cysteine residues in the mature protein. The Y[V.A]RDLT sequence motif has been suggested as being of crucial functional importance in several filarial nematode inhibitors [], this sequence is not conserved in Tco-API-1 from Trichostrongylus colubriformis (Black scour worm) and it has been demonstrated that Tco-API-1, is not an Aspin as it does not inhibit porcine pepsin []. Related inhibitors from Onchocerca volvulus, Ov33 [] and Ascaris suum (Pig roundworm), PI-3 [] inhibit the in vitro activity of aspartyl proteases such as pepsin and cathepsin E (MEROPS peptidase family A1). Aspin may facilitate the safe passage of the eggs of Ascaris through the host stomach without digestion by pepsin [, ]. The other parasitic nematodes known to express homologous proteins do not pass through the stomach of their hosts []. Several proteins in the family are potent allergens in mammals. The three-dimensional structures of pepsin inhibitor-3 (PI-3) from A. suum and of the complex between PI-3 and porcine pepsin at 1. 75 A and 2.45 A resolution, respectively, have revealed the mechanism of aspartic protease inhibition. PI-3 has a new fold consisting of two identical domains, each comprising an antiparallel beta-sheet flanked by an alpha-helix. In the enzyme-inhibitor complex, the N-terminal beta-strand of PI-3 pairs with one strand of the 'active site flap' (residues 70-82) of pepsin, thus forming an eight-stranded beta-sheet that spans the two proteins. PI-3 has a novel mode of inhibition, using its N-terminal residues to occupy and therefore block the first three binding pockets in pepsin for substrate residues C-terminal to the scissile bond (S1'-S3') [].; PDB: 1F32_A 1F34_B.
Probab=22.06 E-value=58 Score=26.57 Aligned_cols=25 Identities=20% Similarity=0.303 Sum_probs=19.2
Q ss_pred cCcCCCCCHHHHHHHHHHHHHHHHH
Q 013964 109 SNVIADLSDSERKALQELKQLVQEA 133 (433)
Q Consensus 109 s~~~~~L~~~q~~aL~efr~~v~~~ 133 (433)
..++.||++.|++.|..|+..+..-
T Consensus 34 g~~~R~Lt~~E~~eL~~y~~~v~~y 58 (76)
T PF06394_consen 34 GKYARDLTPDEQQELKTYQKKVAAY 58 (76)
T ss_dssp TCEEEE--HHHHHHHHHHHHHHHHH
T ss_pred CEeeccCCHHHHHHHHHHHHHHHHH
Confidence 3467899999999999999988754
No 24
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=21.83 E-value=2.6e+02 Score=26.23 Aligned_cols=71 Identities=8% Similarity=-0.009 Sum_probs=46.3
Q ss_pred EEEEEeeCCCCCCCCchhHHHHHHHHHHHHhhhcccccceEEEEeCCHH---HHHHHHHHhhcCCHhhhcceEEe
Q 013964 324 TIFQVNDLKNSPGPGKRELRIATKQALQLLQDNYPEFVAKQVFINVPWW---YLAFHTMISPFMTQRTKSKFVFA 395 (433)
Q Consensus 324 ~itvIiDlkg~sgls~~~L~~~~k~il~llq~nYPErL~rI~IINaP~~---f~~vw~lVKpFLs~kTr~KI~il 395 (433)
.-+.|||.=|+......+ ...++.+...+..++|+.=.-+|+|+...+ -..++..+...+.+...+.+.|+
T Consensus 49 ~~v~VIDTPGl~d~~~~~-~~~~~~i~~~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~~~k~~ivv 122 (212)
T PF04548_consen 49 RQVTVIDTPGLFDSDGSD-EEIIREIKRCLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEEIWKHTIVV 122 (212)
T ss_dssp EEEEEEE--SSEETTEEH-HHHHHHHHHHHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGGGGGGEEEE
T ss_pred eEEEEEeCCCCCCCcccH-HHHHHHHHHHHHhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHHHHhHhhHH
Confidence 346789998763222222 456777888788888887778888888754 45677778878888777776665
No 25
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=20.68 E-value=2.3e+02 Score=25.03 Aligned_cols=49 Identities=20% Similarity=0.200 Sum_probs=30.8
Q ss_pred eEEEEEeeCCCCCCCCchhHHHHHHHHHHHHhhhcccccceEEEEeCCHHHHHHHHHHhhcC
Q 013964 323 STIFQVNDLKNSPGPGKRELRIATKQALQLLQDNYPEFVAKQVFINVPWWYLAFHTMISPFM 384 (433)
Q Consensus 323 ~~itvIiDlkg~sgls~~~L~~~~k~il~llq~nYPErL~rI~IINaP~~f~~vw~lVKpFL 384 (433)
++++++.|| |.+.++ ....+.++ .+- .+++++++|..=..+-..+....
T Consensus 58 dGVlVltDL-Gssp~n-------~~~a~e~~----~~~-~~v~~~daPlVEGa~~Aav~~~~ 106 (124)
T PRK14484 58 DGVLIFFDL-GSAEMN-------AEMAIEML----DGE-KKIIIIDAPIVEGAFTAAVLLSA 106 (124)
T ss_pred CCeEEEEeC-CChHHH-------HHHHHHhc----CCC-CcEEEECCcHHHHHHHHHHHHcC
Confidence 789999999 643221 11223333 322 89999999988776666655433
Done!