Query 034493
Match_columns 93
No_of_seqs 100 out of 299
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 03:27:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034493.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034493hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1092 Ypt/Rab-specific GTPas 100.0 7.1E-35 1.5E-39 229.7 8.7 91 2-92 394-484 (484)
2 KOG4567 GTPase-activating prot 99.9 8.8E-25 1.9E-29 168.1 7.9 77 1-83 286-362 (370)
3 KOG1091 Ypt/Rab-specific GTPas 99.2 2.2E-11 4.7E-16 99.6 7.1 81 1-86 286-367 (625)
4 KOG1093 Predicted protein kina 98.6 8.6E-08 1.9E-12 79.4 5.8 78 2-87 519-596 (725)
5 PF00566 RabGAP-TBC: Rab-GTPas 98.3 7.7E-07 1.7E-11 62.1 4.1 42 2-46 173-214 (214)
6 KOG2224 Uncharacterized conser 98.3 1E-06 2.2E-11 71.8 4.5 81 1-86 652-734 (781)
7 KOG2223 Uncharacterized conser 98.2 1.8E-06 3.8E-11 70.0 3.9 59 2-63 483-541 (586)
8 COG5210 GTPase-activating prot 98.0 9.4E-06 2E-10 65.3 5.8 47 2-51 386-432 (496)
9 KOG2197 Ypt/Rab-specific GTPas 97.5 0.00038 8.1E-09 56.7 6.5 79 2-85 365-445 (488)
10 KOG1102 Rab6 GTPase activator 96.5 0.009 1.9E-07 47.4 6.1 62 2-66 312-373 (397)
11 KOG2058 Ypt/Rab GTPase activat 96.1 0.01 2.2E-07 48.1 4.7 58 3-63 327-385 (436)
12 KOG3636 Uncharacterized conser 95.8 0.019 4.2E-07 47.4 5.2 77 2-81 192-271 (669)
13 KOG2595 Predicted GTPase activ 93.2 0.41 8.9E-06 38.3 6.8 68 8-82 232-301 (395)
14 KOG2222 Uncharacterized conser 87.4 1.2 2.6E-05 37.6 4.8 72 3-80 341-417 (848)
15 KOG4436 Predicted GTPase activ 82.9 3.6 7.8E-05 36.3 5.8 74 2-79 750-824 (948)
16 PF04751 DUF615: Protein of un 72.1 14 0.00031 26.0 5.4 45 37-83 97-141 (157)
17 PRK05255 hypothetical protein; 71.1 11 0.00024 27.1 4.7 44 37-82 108-151 (171)
18 COG5661 Predicted secreted Zn- 55.4 12 0.00027 27.6 2.6 38 9-46 111-148 (210)
19 TIGR02508 type_III_yscG type I 53.3 41 0.00088 22.8 4.6 35 37-76 42-76 (115)
20 PF14961 BROMI: Broad-minded p 49.6 11 0.00025 34.5 1.9 39 28-66 1226-1265(1296)
21 PF05338 DUF717: Protein of un 45.2 31 0.00067 20.5 2.7 16 45-60 2-17 (55)
22 PF11125 DUF2830: Protein of u 43.0 45 0.00098 19.5 3.1 40 23-62 11-54 (54)
23 COG4634 Uncharacterized protei 41.4 84 0.0018 21.2 4.7 43 46-88 54-103 (113)
24 PRK13916 plasmid segregation p 40.2 49 0.0011 21.5 3.3 30 44-78 11-40 (97)
25 COG0152 PurC Phosphoribosylami 36.1 6.8 0.00015 29.7 -1.3 17 1-18 188-204 (247)
26 PF03791 KNOX2: KNOX2 domain ; 35.8 70 0.0015 18.7 3.2 36 24-61 9-44 (52)
27 PF02729 OTCace_N: Aspartate/o 34.9 48 0.001 22.6 2.9 27 61-87 5-31 (142)
28 PF07340 Herpes_IE1: Cytomegal 33.8 1.5E+02 0.0033 24.1 5.8 56 24-84 199-258 (392)
29 KOG2801 Probable Rab-GAPs [Int 32.9 1.3E+02 0.0027 24.3 5.2 71 4-81 217-293 (559)
30 PF10366 Vps39_1: Vacuolar sor 32.0 70 0.0015 20.8 3.2 22 51-77 83-104 (108)
31 PF04510 DUF577: Family of unk 31.7 1.2E+02 0.0026 22.0 4.5 47 15-62 47-98 (174)
32 PRK04387 hypothetical protein; 30.8 94 0.002 20.2 3.5 28 60-87 5-33 (90)
33 TIGR01503 MthylAspMut_E methyl 29.9 1.1E+02 0.0023 25.6 4.5 36 39-78 12-54 (480)
34 PF10353 DUF2430: Protein of u 28.9 50 0.0011 21.6 2.0 16 29-44 3-18 (107)
35 PF06878 Pkip-1: Pkip-1 protei 28.3 2.1E+02 0.0046 20.4 5.3 68 18-86 23-101 (163)
36 PF05256 UPF0223: Uncharacteri 26.4 89 0.0019 20.1 2.8 26 62-87 8-33 (88)
37 PF15300 INT_SG_DDX_CT_C: INTS 24.9 1.2E+02 0.0026 18.4 3.1 37 47-83 19-56 (65)
38 KOG0400 40S ribosomal protein 24.9 1.6E+02 0.0035 20.7 4.1 35 51-85 69-103 (151)
39 TIGR02688 conserved hypothetic 22.4 1.8E+02 0.004 24.0 4.6 24 60-83 416-439 (449)
40 COG3028 Uncharacterized protei 21.9 2.3E+02 0.005 20.7 4.5 40 38-79 119-158 (187)
41 PF14821 Thr_synth_N: Threonin 21.7 1.5E+02 0.0033 18.1 3.2 35 44-78 44-79 (79)
42 PF02214 BTB_2: BTB/POZ domain 21.5 98 0.0021 18.8 2.3 32 50-81 53-85 (94)
43 KOG4347 GTPase-activating prot 21.1 1E+02 0.0022 26.8 2.9 76 4-82 370-458 (671)
44 PF03000 NPH3: NPH3 family; I 21.0 95 0.0021 23.5 2.5 55 8-62 178-235 (258)
45 cd00476 SAICAR_synt 5-aminoimi 20.7 17 0.00038 27.0 -1.5 16 2-18 184-199 (230)
46 PF15326 TEX15: Testis express 20.5 59 0.0013 24.6 1.3 43 37-82 76-118 (233)
47 PF02854 MIF4G: MIF4G domain; 20.4 1.9E+02 0.0041 19.2 3.8 76 7-82 119-207 (209)
48 PF05131 Pep3_Vps18: Pep3/Vps1 20.1 97 0.0021 21.4 2.2 35 40-80 109-144 (147)
49 PF13337 Lon_2: Putative ATP-d 20.1 2.2E+02 0.0048 23.6 4.6 31 51-83 407-437 (457)
50 COG4476 Uncharacterized protei 20.1 1.8E+02 0.004 18.8 3.3 27 60-86 5-32 (90)
No 1
>KOG1092 consensus Ypt/Rab-specific GTPase-activating protein GYP1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7.1e-35 Score=229.74 Aligned_cols=91 Identities=48% Similarity=0.975 Sum_probs=89.6
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWH 81 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~ 81 (93)
||+||||++.+|||||||+|++++|++||+|||+|+|++||++|+++||+++|.||||+|+.+|++.||+.+|++|+.+|
T Consensus 394 LLmRE~pl~~~iRlWDTY~aE~dgf~~FhvYvcAAFL~kW~~eL~e~DFQ~~ilfLQnlPT~~W~d~eIellLseA~~~k 473 (484)
T KOG1092|consen 394 LLMREFPLRCTIRLWDTYLAEPDGFNEFHVYVCAAFLLKWSSELMENDFQELILFLQNLPTHNWSDREIELLLSEAFRLK 473 (484)
T ss_pred HHHhhccchhHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcCCCCCccHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCccccc
Q 034493 82 SMFNNCPSHLA 92 (93)
Q Consensus 82 ~~~~~~~~~~~ 92 (93)
++|+++++|++
T Consensus 474 ~~f~da~~H~~ 484 (484)
T KOG1092|consen 474 SVFSDAPNHLR 484 (484)
T ss_pred HHHccchhccC
Confidence 99999999974
No 2
>KOG4567 consensus GTPase-activating protein [General function prediction only]
Probab=99.91 E-value=8.8e-25 Score=168.09 Aligned_cols=77 Identities=30% Similarity=0.526 Sum_probs=74.8
Q ss_pred CccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHH
Q 034493 1 MVLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMW 80 (93)
Q Consensus 1 ~ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~ 80 (93)
|||+||||+||||||||++|||+.+| ++++|||||||+..|+.|+++||+++|++|||+|+.| |..+++-|..+
T Consensus 286 LLLsQEF~lpDvi~lWDsl~sD~~rf-d~Ll~iCcsmlil~Re~il~~DF~~nmkLLQ~yp~td-----i~~~l~~A~~L 359 (370)
T KOG4567|consen 286 LLLSQEFPLPDVIRLWDSLLSDPQRF-DFLLYICCSMLILVRERILEGDFTVNMKLLQNYPTTD-----ISKMLAVADSL 359 (370)
T ss_pred HHHhccCCchhHHHHHHHHhcChhhh-HHHHHHHHHHHHHHHHHHHhcchHHHHHHHhcCCCCC-----HHHHHHHHHHH
Confidence 58999999999999999999999999 9999999999999999999999999999999999999 99999999999
Q ss_pred HHh
Q 034493 81 HSM 83 (93)
Q Consensus 81 ~~~ 83 (93)
|..
T Consensus 360 r~~ 362 (370)
T KOG4567|consen 360 RDK 362 (370)
T ss_pred Hhc
Confidence 965
No 3
>KOG1091 consensus Ypt/Rab-specific GTPase-activating protein GYP6 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.23 E-value=2.2e-11 Score=99.63 Aligned_cols=81 Identities=17% Similarity=0.393 Sum_probs=75.9
Q ss_pred CccccccCchhHHHHHH-hhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHH
Q 034493 1 MVLFYQIPFHLVTRLWD-TYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYM 79 (93)
Q Consensus 1 ~ll~rEf~l~~~lrLWD-t~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~ 79 (93)
|||-||||+.+++-+|| .++++..+. .+..|+.+|||..+|+.|+..+++.|++.|-|+|... |++.++..|..
T Consensus 286 lLFGREfpL~dLLiVWD~~l~~d~pr~-~Lv~~m~VsmLL~IRd~Llss~~~tcL~~Lm~yP~~~----Dv~~~iekAl~ 360 (625)
T KOG1091|consen 286 LLFGREFPLQDLLIVWDHVLIFDSPRG-ILVACMFVSMLLYIRDSLLSSEYQTCLQYLMNYPEII----DVDKFIEKALH 360 (625)
T ss_pred HHHcchhHHHHHHHHhhhhhhccCchH-HHHHHHHHHHHHHHHHHHHHhcchhHHHHHhcCCCcC----cHHHHHHHHHH
Confidence 58999999999999999 899988877 9999999999999999999999999999999999764 69999999999
Q ss_pred HHHhccC
Q 034493 80 WHSMFNN 86 (93)
Q Consensus 80 ~~~~~~~ 86 (93)
+|+.|..
T Consensus 361 l~~~~~K 367 (625)
T KOG1091|consen 361 LQKLFPK 367 (625)
T ss_pred HHHhccc
Confidence 9998877
No 4
>KOG1093 consensus Predicted protein kinase (contains TBC and RHOD domains) [General function prediction only]
Probab=98.59 E-value=8.6e-08 Score=79.37 Aligned_cols=78 Identities=19% Similarity=0.441 Sum_probs=70.6
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWH 81 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~ 81 (93)
+|+-+||++..+.|||.+++.+. .|.+.+++|++...|+.|+...|.+++.++-++|..+ |+.++++.+.+.
T Consensus 519 ~Fshvlpl~kil~LwD~lml~~~---SFplmi~vAil~~lR~~LLa~nfne~illf~d~pdld-----Id~~Ires~~l~ 590 (725)
T KOG1093|consen 519 MFSHVLPLHKILHLWDNLMLGHS---SFPLMIGVAILIQLRDPLLACNFNECILLFSDLPDLD-----IDVCIRESYHLM 590 (725)
T ss_pred HHHhhccHHHHHHHHHHHhcCCC---ccHHHHHHHHHHHhhhhhhhCCchhheeeeccCCccc-----HHHHHHHHhhhh
Confidence 46789999999999999999876 4589999999999999999999999999999999887 999999999888
Q ss_pred HhccCC
Q 034493 82 SMFNNC 87 (93)
Q Consensus 82 ~~~~~~ 87 (93)
++=..+
T Consensus 591 e~tP~s 596 (725)
T KOG1093|consen 591 ETTPKS 596 (725)
T ss_pred hCCCCC
Confidence 775544
No 5
>PF00566 RabGAP-TBC: Rab-GTPase-TBC domain; InterPro: IPR000195 Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are GTPase activator proteins of yeast Ypt6 and Ypt7, imply that these domains are GTPase activator proteins of Rab-like small GTPases [].; GO: 0005097 Rab GTPase activator activity, 0032313 regulation of Rab GTPase activity, 0005622 intracellular; PDB: 2G77_A 1FKM_A 3HZJ_A 3QYE_A 2QFZ_A 3QYB_A 2QQ8_A 3DZX_A 3QWL_A.
Probab=98.31 E-value=7.7e-07 Score=62.13 Aligned_cols=42 Identities=36% Similarity=0.624 Sum_probs=35.0
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ 46 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~ 46 (93)
+|++++|.++++|||| ++.+++. .+++++|+|++...|++|+
T Consensus 173 lF~~~l~~~~~~~lwD-~l~~g~~--~~l~~~~lail~~~~~~il 214 (214)
T PF00566_consen 173 LFSRSLPFDDVLRLWD-FLLEGYK--FFLFFIALAILKYLRDQIL 214 (214)
T ss_dssp TTTTTS-HHHHHHHHH-HHHHCTT--HHHHHHHHHHHHHTHHHHH
T ss_pred hcCCcCCHHHHHHHHH-HHHcCCC--cHHHHHHHHHHHHHHHHhC
Confidence 6899999999999999 6666552 3489999999999999985
No 6
>KOG2224 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=98.27 E-value=1e-06 Score=71.78 Aligned_cols=81 Identities=20% Similarity=0.343 Sum_probs=64.5
Q ss_pred CccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh--hCCHHHHHHHhcCCCCCCCChHHHHHHHHHHH
Q 034493 1 MVLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ--KLDFQEMVMFLQHLPTHAWTHQELEMVLSRAY 78 (93)
Q Consensus 1 ~ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~--~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~ 78 (93)
|.|.||||...+||+|+++||+- .-..||+|+|+|++..+.+... +..=++++..+-|+.... |-+.||++|.
T Consensus 652 lcfkref~ea~airiweacwa~y-~tdyfhlficlaiiaiy~ddvi~q~l~~demllhf~nlam~m----dgelilrkar 726 (781)
T KOG2224|consen 652 LCFKREFPEAEAIRIWEACWAHY-LTDYFHLFICLAIIAIYADDVIAQNLAPDEMLLHFGNLAMHM----DGELILRKAR 726 (781)
T ss_pred HHhhhcccHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHhhhHHHHhhcCchhHHHhhhhhhhhc----CchhhHHHHH
Confidence 35789999999999999999973 2337899999999999998874 455588888888887543 3688999998
Q ss_pred HHHHhccC
Q 034493 79 MWHSMFNN 86 (93)
Q Consensus 79 ~~~~~~~~ 86 (93)
-+--.|-.
T Consensus 727 ~ll~qfr~ 734 (781)
T KOG2224|consen 727 GLLHQFRL 734 (781)
T ss_pred HHHHHHhh
Confidence 76655543
No 7
>KOG2223 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=98.17 E-value=1.8e-06 Score=69.99 Aligned_cols=59 Identities=31% Similarity=0.634 Sum_probs=54.1
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCC
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTH 63 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~ 63 (93)
|.+..+|++...||||.|.-|++ +|++-.++++++.+.++|+.|||..+.+||-.+|..
T Consensus 483 lyskslpldlacRIwDvy~rdge---eFlfr~~lgIlklyepkLl~mDf~~~~qfLtklp~d 541 (586)
T KOG2223|consen 483 LYSKSLPLDLACRIWDVYCRDGE---EFLFRTALGILKLYEPKLLVMDFIHVAQFLTKLPED 541 (586)
T ss_pred HHhccCChHHhhhhhheeeecch---HHHHHHHHHHHHHccchHhhhhHHHHHHHHHhCccc
Confidence 46778999999999999999987 558889999999999999999999999999999964
No 8
>COG5210 GTPase-activating protein [General function prediction only]
Probab=98.04 E-value=9.4e-06 Score=65.28 Aligned_cols=47 Identities=28% Similarity=0.502 Sum_probs=34.9
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQ 51 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~ 51 (93)
+|+++||++.++||||++|+++.++ . +-+.+|++...++++..++.+
T Consensus 386 lF~~~~p~e~~lriwD~lf~eg~~~-l--~~~~~~~l~~~~~~l~~~~~~ 432 (496)
T COG5210 386 LFVREFPLEYALRIWDCLFLEGSSM-L--FQLALAILKLLRDKLLKLDSD 432 (496)
T ss_pred HHHhcCCHHHHHHHHHHHHHhccHH-H--HHHHHHHHHhhhhhhhccCch
Confidence 5789999999999999999998765 4 445555666666666544443
No 9
>KOG2197 consensus Ypt/Rab-specific GTPase-activating protein GYP7 and related proteins [Signal transduction mechanisms]
Probab=97.46 E-value=0.00038 Score=56.71 Aligned_cols=79 Identities=20% Similarity=0.273 Sum_probs=61.5
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh--hCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ--KLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYM 79 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~--~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~ 79 (93)
.+.|||..+++++||+..+++.... +||+|+|.|++..-++.|+ .++|.++++....++... |...++..|..
T Consensus 365 ~frrEf~~ed~l~LWEvlw~~~~~~-~f~~~~~~~~l~~~~~~l~~~~~~~~e~l~~i~~~~~~~----d~~~~~~~A~~ 439 (488)
T KOG2197|consen 365 PFRREFEFEDSLRLWEVLWTDLPSP-HFHLYVAPAILNKDPQTLMEQGKSFNEVLKHVNLLSEKA----DVLWVLVRAEA 439 (488)
T ss_pred ccccccccccHHHHHHHHHhcCccc-hHHHHHHHhhhhcchHHHHhcCccchhHHhhcccccccc----hhhhHHHHHHH
Confidence 4679999999999999999986555 9999999999999888885 577888888666665442 36667777766
Q ss_pred HHHhcc
Q 034493 80 WHSMFN 85 (93)
Q Consensus 80 ~~~~~~ 85 (93)
.+..+.
T Consensus 440 ~~~~~k 445 (488)
T KOG2197|consen 440 LERQNK 445 (488)
T ss_pred HHHHHH
Confidence 555443
No 10
>KOG1102 consensus Rab6 GTPase activator GAPCenA and related TBC domain proteins [General function prediction only]
Probab=96.45 E-value=0.009 Score=47.43 Aligned_cols=62 Identities=26% Similarity=0.515 Sum_probs=54.5
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCCCCCCC
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLPTHAWT 66 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~ 66 (93)
+++..+|++.+.|+||.++.++ .....-+..|++....+.+.+++|...+.++++-+..+-.
T Consensus 312 ~f~~k~p~~~~~ri~d~~~~~g---~~i~~~~~~~l~~~~~~~~~~~~~e~~~~~l~~~~~~~~~ 373 (397)
T KOG1102|consen 312 LFAAKFPLELVLRIWDALFVEG---VSILFRFSLALLKHKADDLLDLDFESLLSYLRVDLPKSYD 373 (397)
T ss_pred eeeccccHHHHHHHhHHHHHhc---hHHHHHHHHHHhhhhhHHHhhccHHHHHHHHhcccHhhcC
Confidence 4567899999999999999998 3678889999999999999999999999999998765533
No 11
>KOG2058 consensus Ypt/Rab GTPase activating protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.10 E-value=0.01 Score=48.07 Aligned_cols=58 Identities=21% Similarity=0.377 Sum_probs=44.5
Q ss_pred cccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh-hCCHHHHHHHhcCCCCC
Q 034493 3 LFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ-KLDFQEMVMFLQHLPTH 63 (93)
Q Consensus 3 l~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~-~~dF~~~~~~LQ~lp~~ 63 (93)
++--.|.+.++||||++|.+|. ...+-+++|+++..++.++ ..+=.++...++.++..
T Consensus 327 f~d~lP~~t~LrIwD~~f~eGs---kvlfr~Alai~k~~ee~il~~~~~~~i~~~~~~~~~~ 385 (436)
T KOG2058|consen 327 FVDILPSETVLRIWDCLFYEGS---KVLFRVALAILKKHEEEILKEDSSKEILRVLPDLTKR 385 (436)
T ss_pred hcccccHHHHHHHHHHHHhccc---HHHHHHHHHHHHHhHHHHhcCCCHHHHHHHHHHHHHH
Confidence 4455788999999999999975 4566699999999999985 45556677777665543
No 12
>KOG3636 consensus Uncharacterized conserved protein, contains TBC and Rhodanese domains [General function prediction only]
Probab=95.81 E-value=0.019 Score=47.36 Aligned_cols=77 Identities=16% Similarity=0.392 Sum_probs=58.6
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhh---CCHHHHHHHhcCCCCCCCChHHHHHHHHHHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQK---LDFQEMVMFLQHLPTHAWTHQELEMVLSRAY 78 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~---~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~ 78 (93)
||+--...+.+..+||-|+-..+.|. .+|..+-+|..-|++|++ ..-.++++||.|.|.. -+-.||+...+-|.
T Consensus 192 LFas~~Stev~~a~WdlY~qqaDPF~--vffLaliiLiNake~ILq~~sdsKEe~ikfLenmp~~-L~~eDvpDffsLAq 268 (669)
T KOG3636|consen 192 LFASSMSTEVCHALWDLYIQQADPFL--VFFLALIILINAKEEILQVKSDSKEEAIKFLENMPAQ-LSVEDVPDFFSLAQ 268 (669)
T ss_pred HHHHhhhHHHHHHHHHHHHhcCCcee--hHHHHHHHhcccHHHHhhhccccHHHHHHHHHcCchh-cccccchhHHHHHH
Confidence 45556678899999999999998873 334556667778888854 4558999999999975 35667888888886
Q ss_pred HHH
Q 034493 79 MWH 81 (93)
Q Consensus 79 ~~~ 81 (93)
.+.
T Consensus 269 yY~ 271 (669)
T KOG3636|consen 269 YYS 271 (669)
T ss_pred HHh
Confidence 654
No 13
>KOG2595 consensus Predicted GTPase activator protein [Signal transduction mechanisms]
Probab=93.24 E-value=0.41 Score=38.26 Aligned_cols=68 Identities=19% Similarity=0.413 Sum_probs=50.8
Q ss_pred CchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhh--CCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHH
Q 034493 8 PFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQK--LDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWHS 82 (93)
Q Consensus 8 ~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~--~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~ 82 (93)
++..++|++|-++|.+.- ..+|||+|++..-|..|++ .|.+-.=..|+.+|..- -++.+|+++...-.
T Consensus 232 ~~~~vvRlfD~Flas~pl---~piyv~A~vvL~r~~eIl~~~~dms~~H~lLs~iPq~l----p~d~lik~s~~~i~ 301 (395)
T KOG2595|consen 232 DIRIVVRLFDFFLASHPL---LPIYVYAAVVLYRRSEILKCDCDMSLLHGLLSTIPQDL----PYDTLIKESVLLIT 301 (395)
T ss_pred hHHHHHHHHHHHHhcCcc---hhHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhCcccc----CHHHHHHHHHHHHh
Confidence 356899999999997542 6899999999999999865 44555566788888432 27888888754433
No 14
>KOG2222 consensus Uncharacterized conserved protein, contains TBC, SH3 and RUN domains [Signal transduction mechanisms; General function prediction only]
Probab=87.37 E-value=1.2 Score=37.55 Aligned_cols=72 Identities=14% Similarity=0.343 Sum_probs=53.3
Q ss_pred cccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHhh-----CCHHHHHHHhcCCCCCCCChHHHHHHHHHH
Q 034493 3 LFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQK-----LDFQEMVMFLQHLPTHAWTHQELEMVLSRA 77 (93)
Q Consensus 3 l~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~~-----~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A 77 (93)
|+.-|.+...+|+||-+|-++.-. .+-+..+||+.-...|.+ ..-.++...|..+|..- .|++.++.+|
T Consensus 341 f~nv~~~killriwd~~fy~g~i~---ifql~i~ilkmkeqdi~~iaettensa~if~als~ip~~v---tdve~l~~~~ 414 (848)
T KOG2222|consen 341 FANVFHMKILLRIWDFFFYEGGIN---IFQLIIGILKMKEQDIKEIAETTENSADIFNALSDIPAEV---TDVEKLFEQA 414 (848)
T ss_pred HHHHHHHHHHHHHHHhheecCcch---hHHHHHHHHHhhHHHHHHHHHhcccHHHHHHHHHhCCchh---hhHHHHHHHH
Confidence 445566788999999999886432 345777888877777754 46678889999999754 6799998888
Q ss_pred HHH
Q 034493 78 YMW 80 (93)
Q Consensus 78 ~~~ 80 (93)
-.+
T Consensus 415 ~~~ 417 (848)
T KOG2222|consen 415 GEF 417 (848)
T ss_pred hhc
Confidence 543
No 15
>KOG4436 consensus Predicted GTPase activator NB4S/EVI5 (contains TBC domain)/Calmodulin-binding protein Pollux (contains PTB and TBC domains) [General function prediction only]
Probab=82.90 E-value=3.6 Score=36.26 Aligned_cols=74 Identities=26% Similarity=0.452 Sum_probs=56.9
Q ss_pred ccccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh-hCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHH
Q 034493 2 VLFYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ-KLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYM 79 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~-~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~ 79 (93)
+|+-.||+.-+-|+.|..|-.+-.. .+-+..++|...+..|+ ...|..|+.|+|+.-+.. ...+++.|+.+-+.
T Consensus 750 ~fasQf~lGfvarvfd~~flq~tev---ifK~a~~llsv~k~~l~e~dn~e~i~d~~k~~~p~~-~~~emeki~~qvf~ 824 (948)
T KOG4436|consen 750 VFASQFPLGFVARVFDLIFLQGTEV---IFKVALSLLSVHKQLLLEKDNFEEIVDFLKTTLPKM-EHTEMEKIIKQVFE 824 (948)
T ss_pred HHHhhCcchHHHHHHHHHHhhccch---hhhhHHHHHHhhHHHHHhhhhHHHHHHHHHHhhhhh-hHHHHHHHHHHHHh
Confidence 4677899999999999999986543 56688899988888885 466999999999964432 34556777766554
No 16
>PF04751 DUF615: Protein of unknown function (DUF615); InterPro: IPR006839 The proteins in this entry are functionally uncharacterised. The entry contains the Escherichia coli (strain K12) protein YjgA (P0A8X0 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2P0T_A.
Probab=72.13 E-value=14 Score=25.96 Aligned_cols=45 Identities=24% Similarity=0.327 Sum_probs=35.8
Q ss_pred HHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHh
Q 034493 37 FLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWHSM 83 (93)
Q Consensus 37 ~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~~ 83 (93)
.+..||+.|+..|-+.+=.++..+|..| -..+..+++.|..=++.
T Consensus 97 ~lE~wRdrLi~~~~~al~e~~~~~p~~D--~Q~LRqLiR~a~ke~~~ 141 (157)
T PF04751_consen 97 RLERWRDRLIADDDSALTEFLAEYPDAD--RQQLRQLIRNARKEREA 141 (157)
T ss_dssp HHHHHHHHHHHS-HHHHHHHHHHSTTS---HHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhCChHHHHHHHHHCChhh--HHHHHHHHHHHHHHHHc
Confidence 6789999999999999999999999987 56677778888765554
No 17
>PRK05255 hypothetical protein; Provisional
Probab=71.14 E-value=11 Score=27.07 Aligned_cols=44 Identities=23% Similarity=0.339 Sum_probs=35.3
Q ss_pred HHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHH
Q 034493 37 FLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWHS 82 (93)
Q Consensus 37 ~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~ 82 (93)
-+..||++|+.+|=+.+=.++..+|..| -..+..+++.|..=+.
T Consensus 108 ~lE~wRdrLi~~~d~al~e~~~~~P~~D--rQ~LRqLiR~A~kE~~ 151 (171)
T PRK05255 108 KLERWRDRLLAEGDDALTEFLEEYPDAD--RQQLRQLIRNAKKEKA 151 (171)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHCchhh--HHHHHHHHHHHHHHHH
Confidence 5789999999988888999999999877 4556677777875544
No 18
>COG5661 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=55.40 E-value=12 Score=27.64 Aligned_cols=38 Identities=18% Similarity=0.085 Sum_probs=26.7
Q ss_pred chhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh
Q 034493 9 FHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ 46 (93)
Q Consensus 9 l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~ 46 (93)
-|++=++||||+||-.+=.+-|.=++--.=..+...|+
T Consensus 111 ~pElalvwdtlladikrHEErH~eiar~har~mEkaL~ 148 (210)
T COG5661 111 DPELALVWDTLLADIKRHEERHAEIARYHAREMEKALL 148 (210)
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788999999999544456677776665555555554
No 19
>TIGR02508 type_III_yscG type III secretion protein, YscG family. YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.
Probab=53.30 E-value=41 Score=22.78 Aligned_cols=35 Identities=23% Similarity=0.197 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHH
Q 034493 37 FLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSR 76 (93)
Q Consensus 37 ~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~ 76 (93)
-+++.++-..++||++...+++.+|.+| ++..++-
T Consensus 42 ~lIRlsSLmNrG~Yq~Al~l~~~~~~pd-----lepw~AL 76 (115)
T TIGR02508 42 QLIRLSSLMNRGDYQSALQLGNKLCYPD-----LEPWLAL 76 (115)
T ss_pred HHHHHHHHHccchHHHHHHhcCCCCCch-----HHHHHHH
Confidence 3445556667999999999999999887 7777654
No 20
>PF14961 BROMI: Broad-minded protein
Probab=49.58 E-value=11 Score=34.50 Aligned_cols=39 Identities=21% Similarity=0.399 Sum_probs=30.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhCCH-HHHHHHhcCCCCCCCC
Q 034493 28 DFLVYIFASFLLTWSDKLQKLDF-QEMVMFLQHLPTHAWT 66 (93)
Q Consensus 28 ~~~~yvc~A~L~~~r~~L~~~dF-~~~~~~LQ~lp~~~w~ 66 (93)
+|.+|+|+|+++...+.|++.-- .++..||+.-|.....
T Consensus 1226 dyqvY~~VailkHlq~~ilq~~q~q~L~~flke~~l~gF~ 1265 (1296)
T PF14961_consen 1226 DYQVYICVAILKHLQPEILQHTQTQDLQVFLKEEALRGFR 1265 (1296)
T ss_pred cceeehhHHHHHHhhHHHHHhhhhchHHHHhhhcccccee
Confidence 88999999999999999875443 4467778777766544
No 21
>PF05338 DUF717: Protein of unknown function (DUF717); InterPro: IPR008002 This entry is represented by the Human herpesvirus 8, Orf30 protein; it is a family of uncharacterised viral proteins.
Probab=45.16 E-value=31 Score=20.50 Aligned_cols=16 Identities=31% Similarity=0.550 Sum_probs=13.6
Q ss_pred HhhCCHHHHHHHhcCC
Q 034493 45 LQKLDFQEMVMFLQHL 60 (93)
Q Consensus 45 L~~~dF~~~~~~LQ~l 60 (93)
|-+.||.+|++|+.++
T Consensus 2 lse~Df~eC~~FF~rP 17 (55)
T PF05338_consen 2 LSENDFEECLKFFSRP 17 (55)
T ss_pred CcHHHHHHHHHHHcCc
Confidence 4578999999999875
No 22
>PF11125 DUF2830: Protein of unknown function (DUF2830); InterPro: IPR022599 This entry represents putative lysis proteins from Bacteriophage MS2 and Bacteriophage BZ13. The bacteriophage MS2 lysin protein COM1L5 from SWISSPROT was identified as an overlapping cistron in the bacteriophage MS2 RNA [].
Probab=42.96 E-value=45 Score=19.49 Aligned_cols=40 Identities=23% Similarity=0.258 Sum_probs=23.3
Q ss_pred CCCcchHHHHHHHHHHH-HHHHHHhh---CCHHHHHHHhcCCCC
Q 034493 23 GDALPDFLVYIFASFLL-TWSDKLQK---LDFQEMVMFLQHLPT 62 (93)
Q Consensus 23 ~~~~~~~~~yvc~A~L~-~~r~~L~~---~dF~~~~~~LQ~lp~ 62 (93)
..+-+...+.||+|+.. .+..++.. +--.-++..||.+|+
T Consensus 11 ~QRS~~LYV~I~LAI~LS~FTn~~~~~l~~llI~iv~TL~~L~T 54 (54)
T PF11125_consen 11 QQRSSTLYVLIALAIFLSKFTNQLLHSLWGLLIRIVTTLQQLLT 54 (54)
T ss_pred hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34445677888999875 34444432 223445666777664
No 23
>COG4634 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.45 E-value=84 Score=21.25 Aligned_cols=43 Identities=14% Similarity=0.291 Sum_probs=33.3
Q ss_pred hhCCHHHHHHHhcCCCC------CCCChHHHHHHHHHHH-HHHHhccCCc
Q 034493 46 QKLDFQEMVMFLQHLPT------HAWTHQELEMVLSRAY-MWHSMFNNCP 88 (93)
Q Consensus 46 ~~~dF~~~~~~LQ~lp~------~~w~~~di~~ll~~A~-~~~~~~~~~~ 88 (93)
+..||.+.-..++++|. .|-+..+++.+++.+. .+.+.|++.-
T Consensus 54 kDsDF~~la~~~G~Ppki~wLr~gNvs~~~ie~l~~~~l~~~~e~le~g~ 103 (113)
T COG4634 54 KDSDFADLALTLGSPPKIVWLRCGNVSTREIEILIRSVLRAIGEELESGA 103 (113)
T ss_pred cCccHHHHHHHcCCCCeEEEEEecCCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence 57899999999999984 4557889999999887 4555555543
No 24
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=40.16 E-value=49 Score=21.54 Aligned_cols=30 Identities=23% Similarity=0.463 Sum_probs=24.3
Q ss_pred HHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHH
Q 034493 44 KLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAY 78 (93)
Q Consensus 44 ~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~ 78 (93)
.|.+.|++++-.||-++|... ...-+++|.
T Consensus 11 ~i~r~~~~~iF~FL~~~P~GT-----~~~~iR~~L 40 (97)
T PRK13916 11 KIKKEDYPQIFDFLENVPRGT-----KTAHIREAL 40 (97)
T ss_pred HhcccccHHHHHHHHHCCCCC-----ccHHHHHHH
Confidence 457889999999999999887 566666664
No 25
>COG0152 PurC Phosphoribosylaminoimidazolesuccinocarboxamide (SAICAR) synthase [Nucleotide transport and metabolism]
Probab=36.07 E-value=6.8 Score=29.74 Aligned_cols=17 Identities=41% Similarity=0.638 Sum_probs=14.7
Q ss_pred CccccccCchhHHHHHHh
Q 034493 1 MVLFYQIPFHLVTRLWDT 18 (93)
Q Consensus 1 ~ll~rEf~l~~~lrLWDt 18 (93)
++|+-|+. ||+-|+||.
T Consensus 188 iiLaDEis-PDs~R~Wd~ 204 (247)
T COG0152 188 IVLADEIS-PDSCRLWDA 204 (247)
T ss_pred EEEEeeeC-CCccccccc
Confidence 36788999 999999995
No 26
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=35.83 E-value=70 Score=18.67 Aligned_cols=36 Identities=25% Similarity=0.536 Sum_probs=27.4
Q ss_pred CCcchHHHHHHHHHHHHHHHHHhhCCHHHHHHHhcCCC
Q 034493 24 DALPDFLVYIFASFLLTWSDKLQKLDFQEMVMFLQHLP 61 (93)
Q Consensus 24 ~~~~~~~~yvc~A~L~~~r~~L~~~dF~~~~~~LQ~lp 61 (93)
..+ +-++=--|.+|..+++.|.+ -|.+.+.|+.++.
T Consensus 9 pEL-DqFMeaYc~~L~kykeeL~~-p~~EA~~f~~~ie 44 (52)
T PF03791_consen 9 PEL-DQFMEAYCDMLVKYKEELQR-PFQEAMEFCREIE 44 (52)
T ss_pred ccH-HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 344 44455667899999999977 7889999998753
No 27
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=34.90 E-value=48 Score=22.58 Aligned_cols=27 Identities=15% Similarity=0.117 Sum_probs=21.6
Q ss_pred CCCCCChHHHHHHHHHHHHHHHhccCC
Q 034493 61 PTHAWTHQELEMVLSRAYMWHSMFNNC 87 (93)
Q Consensus 61 p~~~w~~~di~~ll~~A~~~~~~~~~~ 87 (93)
...+|+..|+..|+..|..++......
T Consensus 5 ~~~dls~~ei~~ll~~A~~lk~~~~~~ 31 (142)
T PF02729_consen 5 SIKDLSPEEIEALLDLAKELKAAPKKG 31 (142)
T ss_dssp SGGGS-HHHHHHHHHHHHHHHHHHHTT
T ss_pred chhhCCHHHHHHHHHHHHHHHhhhhcC
Confidence 345788899999999999999887654
No 28
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=33.81 E-value=1.5e+02 Score=24.07 Aligned_cols=56 Identities=16% Similarity=0.176 Sum_probs=40.9
Q ss_pred CCcchHHHHHHHHHHHHHHHHH----hhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHhc
Q 034493 24 DALPDFLVYIFASFLLTWSDKL----QKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWHSMF 84 (93)
Q Consensus 24 ~~~~~~~~yvc~A~L~~~r~~L----~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~~~ 84 (93)
+.+.+-..|+|..-+...-.-+ ....=++.+.||||+|..+ .+.+...|..+-++-
T Consensus 199 ddL~~k~~Yt~~Ky~e~~mk~~~~PKttn~~sQA~~fL~nlp~~d-----~d~v~~~g~~iik~L 258 (392)
T PF07340_consen 199 DDLKRKCTYTCLKYIEMFMKNLCMPKTTNGQSQAKAFLRNLPQCD-----PDEVNEYGQKIIKTL 258 (392)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCCCCCcccHHHHHHHHhccccCC-----HHHHHHHHHHHHHHh
Confidence 3344556888888777666655 3456789999999999987 678888887665553
No 29
>KOG2801 consensus Probable Rab-GAPs [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.86 E-value=1.3e+02 Score=24.32 Aligned_cols=71 Identities=21% Similarity=0.372 Sum_probs=47.9
Q ss_pred ccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHH----hhCC--HHHHHHHhcCCCCCCCChHHHHHHHHHH
Q 034493 4 FYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKL----QKLD--FQEMVMFLQHLPTHAWTHQELEMVLSRA 77 (93)
Q Consensus 4 ~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L----~~~d--F~~~~~~LQ~lp~~~w~~~di~~ll~~A 77 (93)
-.|+|+.---|++|.++-++.. .+.-|.+|+++-+.+.= ++.| -+++-.|...+...-. .+.++.+|
T Consensus 217 fgelplcyfarvfdvflvegyk---vlyrvalailkffhkvragqplesdsvkqdirtfvrdiaktvs----peklleka 289 (559)
T KOG2801|consen 217 FGELPLCYFARVFDVFLVEGYK---VLYRVALAILKFFHKVRAGQPLESDSVKQDIRTFVRDIAKTVS----PEKLLEKA 289 (559)
T ss_pred hccchHHHHHHHhhheeecchH---HHHHHHHHHHHHHHHhhcCCCCccchHHHHHHHHHHHHHhhCC----HHHHHHHH
Confidence 4588888889999999998754 35669999998765543 2222 2566666666653321 56777777
Q ss_pred HHHH
Q 034493 78 YMWH 81 (93)
Q Consensus 78 ~~~~ 81 (93)
+.+|
T Consensus 290 fair 293 (559)
T KOG2801|consen 290 FAIR 293 (559)
T ss_pred HHHH
Confidence 7665
No 30
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=32.01 E-value=70 Score=20.81 Aligned_cols=22 Identities=23% Similarity=0.546 Sum_probs=17.2
Q ss_pred HHHHHHhcCCCCCCCChHHHHHHHHHH
Q 034493 51 QEMVMFLQHLPTHAWTHQELEMVLSRA 77 (93)
Q Consensus 51 ~~~~~~LQ~lp~~~w~~~di~~ll~~A 77 (93)
..++..||++|..+ ++.|++.|
T Consensus 83 ~~iv~yL~~L~~~~-----~dLI~~~s 104 (108)
T PF10366_consen 83 ETIVQYLQKLGNED-----LDLIFEYS 104 (108)
T ss_pred hHHHHHHHhCChhh-----hHHHHHhc
Confidence 44689999999877 88887655
No 31
>PF04510 DUF577: Family of unknown function (DUF577); InterPro: IPR007598 This is a family of Arabidopsis thaliana (Mouse-ear cress) proteins. Many of these members contain a repeated region.
Probab=31.66 E-value=1.2e+02 Score=21.96 Aligned_cols=47 Identities=19% Similarity=0.249 Sum_probs=31.2
Q ss_pred HHHhhhccC--CCcchHHHHHHHHHHHHHHHHH---hhCCHHHHHHHhcCCCC
Q 034493 15 LWDTYLAEG--DALPDFLVYIFASFLLTWSDKL---QKLDFQEMVMFLQHLPT 62 (93)
Q Consensus 15 LWDt~la~~--~~~~~~~~yvc~A~L~~~r~~L---~~~dF~~~~~~LQ~lp~ 62 (93)
|||.+.|.. +....+++|+|+.+.. +.+.+ ++.=+.++.+.|-++..
T Consensus 47 L~d~Ils~~~~e~~kA~~IF~~L~~~l-~~efl~~~~~~L~~~~~~~L~~p~~ 98 (174)
T PF04510_consen 47 LSDCILSLSENEPVKAFHIFICLPMPL-YGEFLIPFMENLLPEISKVLLPPEE 98 (174)
T ss_pred HHHHHHHhhccchHHHHHHHHhCCchh-hhhHHHHHHHHHHHHHHHHcCCchh
Confidence 678888853 2245889999999666 66665 34455666666665543
No 32
>PRK04387 hypothetical protein; Provisional
Probab=30.77 E-value=94 Score=20.16 Aligned_cols=28 Identities=18% Similarity=0.316 Sum_probs=19.8
Q ss_pred CC-CCCCChHHHHHHHHHHHHHHHhccCC
Q 034493 60 LP-THAWTHQELEMVLSRAYMWHSMFNNC 87 (93)
Q Consensus 60 lp-~~~w~~~di~~ll~~A~~~~~~~~~~ 87 (93)
+| ..||+..||-.++.-=......|+.+
T Consensus 5 YPld~dWsteEii~Vi~F~~~VE~aYE~g 33 (90)
T PRK04387 5 YPLDLDWSTEEMISVLHFFNAVEKAYEKG 33 (90)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHcC
Confidence 45 67899999988877655555555543
No 33
>TIGR01503 MthylAspMut_E methylaspartate mutase, E subunit. This model represents the E (epsilon) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=29.94 E-value=1.1e+02 Score=25.61 Aligned_cols=36 Identities=19% Similarity=0.322 Sum_probs=25.3
Q ss_pred HHHHHHHhhC-------CHHHHHHHhcCCCCCCCChHHHHHHHHHHH
Q 034493 39 LTWSDKLQKL-------DFQEMVMFLQHLPTHAWTHQELEMVLSRAY 78 (93)
Q Consensus 39 ~~~r~~L~~~-------dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~ 78 (93)
...|+++++. ||++++.+.+++|... .....|.+|.
T Consensus 12 ~~~r~evl~~w~t~~~vd~~eav~y~k~~p~~k----~f~~~L~~a~ 54 (480)
T TIGR01503 12 HKIREEVLQQWPTGKDVDLQDAVDYHKSIPAHK----NFAEKLELAK 54 (480)
T ss_pred HHHHHHHhhcCCccccCCHHHHHHHHHhCCccc----cHHHHHHHHH
Confidence 3455555554 9999999999999743 1666666665
No 34
>PF10353 DUF2430: Protein of unknown function (DUF2430); InterPro: IPR019445 This is a family of short, 111 residue, proteins found in Schizosaccharomyces pombe (Fission yeast). Their function is not known.
Probab=28.91 E-value=50 Score=21.65 Aligned_cols=16 Identities=19% Similarity=0.206 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 034493 29 FLVYIFASFLLTWSDK 44 (93)
Q Consensus 29 ~~~yvc~A~L~~~r~~ 44 (93)
+++||||++++.+-..
T Consensus 3 ll~~icc~fik~vla~ 18 (107)
T PF10353_consen 3 LLFCICCLFIKLVLAE 18 (107)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 4789999999876544
No 35
>PF06878 Pkip-1: Pkip-1 protein; InterPro: IPR009672 This family consists of several Pkip-1 proteins, which seem to be specific to Nucleopolyhedroviruses. The function of this family is unknown although it has been found that Pkip-1 is not essential for virus replication in cell culture or by in vivo intrahaemocoelic injection [].
Probab=28.34 E-value=2.1e+02 Score=20.41 Aligned_cols=68 Identities=16% Similarity=0.294 Sum_probs=48.0
Q ss_pred hhhccC---CCcchHHHHHHHHHHHHHHHHHhhC-----CHHHHHHHhcCCCCCCCChHHHHHHHHHH---HHHHHhccC
Q 034493 18 TYLAEG---DALPDFLVYIFASFLLTWSDKLQKL-----DFQEMVMFLQHLPTHAWTHQELEMVLSRA---YMWHSMFNN 86 (93)
Q Consensus 18 t~la~~---~~~~~~~~yvc~A~L~~~r~~L~~~-----dF~~~~~~LQ~lp~~~w~~~di~~ll~~A---~~~~~~~~~ 86 (93)
+||..+ ++. .-=+|+++|.+--..++|-.. .=.+=+.|..++...|.++.+|+.++..+ ..+...|+.
T Consensus 23 ~y~kk~~~~e~~-~~em~~lsA~i~G~~EQl~~L~~~~~~~~~k~dFindl~eLd~~~~~ie~l~~~~~~~~~l~~ky~~ 101 (163)
T PF06878_consen 23 SYFKKPKKDENF-ANEMLILSADIFGQEEQLYSLLSANATDEEKLDFINDLSELDFDNEEIESLCARKDNDEYLLKKYNA 101 (163)
T ss_pred HHHhCCCccccH-HHHHHHHHHHHHhHHHHHHHHHccccchHHHHHHHhhhhhcCCCHHHHHHHHhcccHHHHHHHhcch
Confidence 455553 343 556899999999999998322 22455889999999999999999998822 245555544
No 36
>PF05256 UPF0223: Uncharacterised protein family (UPF0223); InterPro: IPR007920 This family of proteins is functionally uncharacterised.; PDB: 2OY9_B.
Probab=26.37 E-value=89 Score=20.14 Aligned_cols=26 Identities=12% Similarity=0.231 Sum_probs=14.9
Q ss_pred CCCCChHHHHHHHHHHHHHHHhccCC
Q 034493 62 THAWTHQELEMVLSRAYMWHSMFNNC 87 (93)
Q Consensus 62 ~~~w~~~di~~ll~~A~~~~~~~~~~ 87 (93)
..+|+..||-.+++-=......|+.+
T Consensus 8 d~dWsteEii~Vi~F~~~VE~AYE~g 33 (88)
T PF05256_consen 8 DPDWSTEEIIDVINFFNAVEKAYEKG 33 (88)
T ss_dssp -----HHHHHHHHHHHHHHHHHHTT-
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHcc
Confidence 56899999998887666666666654
No 37
>PF15300 INT_SG_DDX_CT_C: INTS6/SAGE1/DDX26B/CT45 C-terminus
Probab=24.94 E-value=1.2e+02 Score=18.43 Aligned_cols=37 Identities=14% Similarity=0.247 Sum_probs=27.1
Q ss_pred hCCHHHHHHHhcCCCCCCCC-hHHHHHHHHHHHHHHHh
Q 034493 47 KLDFQEMVMFLQHLPTHAWT-HQELEMVLSRAYMWHSM 83 (93)
Q Consensus 47 ~~dF~~~~~~LQ~lp~~~w~-~~di~~ll~~A~~~~~~ 83 (93)
+.+|+.+...|+.+.+.-=. ..=++.++++|..++..
T Consensus 19 Gr~ye~iF~lL~~vqG~~~~r~~fv~~~IkEA~RFkR~ 56 (65)
T PF15300_consen 19 GRNYEKIFKLLEQVQGPLEVRKQFVEMIIKEAARFKRR 56 (65)
T ss_pred CCcHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 67999999999998754311 12277889999988764
No 38
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=24.85 E-value=1.6e+02 Score=20.67 Aligned_cols=35 Identities=9% Similarity=0.110 Sum_probs=24.8
Q ss_pred HHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHhcc
Q 034493 51 QEMVMFLQHLPTHAWTHQELEMVLSRAYMWHSMFN 85 (93)
Q Consensus 51 ~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~~~~ 85 (93)
..|+.+||.---..=-.+|+..++++|+.+|+.-+
T Consensus 69 ~kI~Rilk~~Gl~PeiPeDLy~likkAv~iRkHLe 103 (151)
T KOG0400|consen 69 NKILRILKSNGLAPEIPEDLYHLIKKAVAIRKHLE 103 (151)
T ss_pred hHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 46788888743222224789999999999997643
No 39
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=22.41 E-value=1.8e+02 Score=23.99 Aligned_cols=24 Identities=21% Similarity=0.194 Sum_probs=19.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHh
Q 034493 60 LPTHAWTHQELEMVLSRAYMWHSM 83 (93)
Q Consensus 60 lp~~~w~~~di~~ll~~A~~~~~~ 83 (93)
+|...++..|++.++.-|..+|..
T Consensus 416 ~P~~~~~~ee~~~~l~~Ale~Rrr 439 (449)
T TIGR02688 416 FPHGTITKEEFTECLEPALEGRQR 439 (449)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHH
Confidence 588888889999999989888654
No 40
>COG3028 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.88 E-value=2.3e+02 Score=20.72 Aligned_cols=40 Identities=23% Similarity=0.283 Sum_probs=30.3
Q ss_pred HHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHH
Q 034493 38 LLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYM 79 (93)
Q Consensus 38 L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~ 79 (93)
+..||++|+...=+.+-.|+..+|..| -..+..+++.|..
T Consensus 119 lE~~RdrLia~GD~Alt~~l~~~P~aD--rq~LR~LvRna~k 158 (187)
T COG3028 119 LEQLRDRLIAEGDGALTEFLNQYPDAD--RQQLRTLIRNAKK 158 (187)
T ss_pred HHHHHHHHHhcCchHHHHHHHHCCccc--HHHHHHHHHHHHH
Confidence 578999998875677889999999877 3445666776643
No 41
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=21.69 E-value=1.5e+02 Score=18.09 Aligned_cols=35 Identities=23% Similarity=0.481 Sum_probs=21.5
Q ss_pred HHhhCCHHHH-HHHhcCCCCCCCChHHHHHHHHHHH
Q 034493 44 KLQKLDFQEM-VMFLQHLPTHAWTHQELEMVLSRAY 78 (93)
Q Consensus 44 ~L~~~dF~~~-~~~LQ~lp~~~w~~~di~~ll~~A~ 78 (93)
.+.+++|.++ ...++.+-..+-++.++..++.+||
T Consensus 44 ~l~~~sy~elA~~il~~f~~~di~~~~L~~ii~~AY 79 (79)
T PF14821_consen 44 ELKNLSYAELAFEILSPFLGDDIPEEELKEIIEKAY 79 (79)
T ss_dssp HHTTS-HHHHHHHHHHHHCCCCS-HHHHHHHHHHHT
T ss_pred HHHCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHC
Confidence 4556777554 3444444456777888999998885
No 42
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=21.50 E-value=98 Score=18.78 Aligned_cols=32 Identities=19% Similarity=0.176 Sum_probs=19.4
Q ss_pred HHHHHHHhcC-CCCCCCChHHHHHHHHHHHHHH
Q 034493 50 FQEMVMFLQH-LPTHAWTHQELEMVLSRAYMWH 81 (93)
Q Consensus 50 F~~~~~~LQ~-lp~~~w~~~di~~ll~~A~~~~ 81 (93)
|.-++.+|++ ..-..-.+..++.++++|..++
T Consensus 53 F~~IL~ylr~~~~l~~~~~~~~~~l~~Ea~fy~ 85 (94)
T PF02214_consen 53 FEYILNYLRTGGKLPIPDEICLEELLEEAEFYG 85 (94)
T ss_dssp HHHHHHHHHHTSSB---TTS-HHHHHHHHHHHT
T ss_pred hhHHHHHHhhcCccCCCCchhHHHHHHHHHHcC
Confidence 7788888887 3322212455888888887553
No 43
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=21.07 E-value=1e+02 Score=26.79 Aligned_cols=76 Identities=25% Similarity=0.381 Sum_probs=53.9
Q ss_pred ccccCchhHHHHHHhhhccCCCcchHHHHHHHHHHHHHHHHHh-hCCHHHHHHHhcCC---------CC---CCCChHHH
Q 034493 4 FYQIPFHLVTRLWDTYLAEGDALPDFLVYIFASFLLTWSDKLQ-KLDFQEMVMFLQHL---------PT---HAWTHQEL 70 (93)
Q Consensus 4 ~rEf~l~~~lrLWDt~la~~~~~~~~~~yvc~A~L~~~r~~L~-~~dF~~~~~~LQ~l---------p~---~~w~~~di 70 (93)
.--+|++-.+||-|.+|=+|-+. .+=|++|++..-.++|. ..|=.+.|..|+|+ |. ......++
T Consensus 370 ls~m~le~a~~ilD~FF~eG~rv---lFqiaLail~~N~~~il~~~dDge~~~vl~~y~~~i~~~~~~~~~~~~~~~~~i 446 (671)
T KOG4347|consen 370 LSLMPLEYAVRILDCFFYEGPRV---LFQIALAILKQNAERILSATDDGEAMMVLGNYFDSIYNGDYPDESDHASDSIEI 446 (671)
T ss_pred HHHcchHHHHHHHhhhhhcccHH---HHHHHHHHHHhhHHHhcccCCchHHHHHHHHHHHhccCCCCCccccchhhhhHH
Confidence 34578999999999999987654 66699999998888874 45666777777764 11 11112347
Q ss_pred HHHHHHHHHHHH
Q 034493 71 EMVLSRAYMWHS 82 (93)
Q Consensus 71 ~~ll~~A~~~~~ 82 (93)
..+|+.||..-.
T Consensus 447 ~~Ll~~ay~kFg 458 (671)
T KOG4347|consen 447 QDLLATAYEKFG 458 (671)
T ss_pred HHHHHHHHHHhc
Confidence 888888876433
No 44
>PF03000 NPH3: NPH3 family; InterPro: IPR004249 The RPT2 protein is a signal transducer of the phototropic response in Arabidopsis thaliana. The RPT2 gene is light inducible; encodes a novel protein with putative phosphorylation sites, a nuclear localization signal, a BTB/POZ domain (IPR000210 from INTERPRO), and a coiled-coil domain. RPT2 belongs to a large gene family that includes the recently isolated NPH3 gene []. The NPH3 protein is a NPH1 photoreceptor-interacting protein that is essential for phototropism. Phototropism of A. thaliana seedlings in response to a blue light source is initiated by nonphototropic hypocotyl 1 (NPH1), a light-activated serine-threonine protein kinase []. NPH3 is a member of a large protein family, apparently specific to higher plants, and may function as an adapter or scaffold protein to bring together the enzymatic components of a NPH1-activated phosphorelay []. Many of the proteins in this group also contain the BTB/POZ domain (IPR000210 from INTERPRO) at the N-terminal.; GO: 0004871 signal transducer activity, 0009416 response to light stimulus
Probab=20.97 E-value=95 Score=23.54 Aligned_cols=55 Identities=22% Similarity=0.228 Sum_probs=28.2
Q ss_pred CchhHHHHHHhhhcc--CCCcchHHHHHHHHHHHHHHHH-HhhCCHHHHHHHhcCCCC
Q 034493 8 PFHLVTRLWDTYLAE--GDALPDFLVYIFASFLLTWSDK-LQKLDFQEMVMFLQHLPT 62 (93)
Q Consensus 8 ~l~~~lrLWDt~la~--~~~~~~~~~yvc~A~L~~~r~~-L~~~dF~~~~~~LQ~lp~ 62 (93)
++..|=+|||.|+|+ .|.-...--|+.+|-..--..+ --.+=|..|=.+|+.=|.
T Consensus 178 ~~~~VakLvD~YLaEiA~D~~L~~~kF~~Lae~lP~~aR~~hD~LYrAID~YLk~Hp~ 235 (258)
T PF03000_consen 178 SLVKVAKLVDGYLAEIAPDPNLKPSKFVALAEALPDSARPSHDGLYRAIDIYLKAHPG 235 (258)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHCCHhhhhccchHHHHHHHHHHHccc
Confidence 356788999999998 2322244455555543321111 122234444456665443
No 45
>cd00476 SAICAR_synt 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. SAICAR synthetase (the PurC gene product) catalyzes the seventh step of the de novo biosynthesis of purine nucleotides (also reported as eighth step). It converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=20.70 E-value=17 Score=27.01 Aligned_cols=16 Identities=38% Similarity=0.493 Sum_probs=13.8
Q ss_pred ccccccCchhHHHHHHh
Q 034493 2 VLFYQIPFHLVTRLWDT 18 (93)
Q Consensus 2 ll~rEf~l~~~lrLWDt 18 (93)
+|+-|+. ||..|+||.
T Consensus 184 vL~DEi~-pDs~R~w~~ 199 (230)
T cd00476 184 VLGDEIS-PDSSRLWRK 199 (230)
T ss_pred EEEEEEC-CCceeeccC
Confidence 5778898 999999985
No 46
>PF15326 TEX15: Testis expressed sequence 15
Probab=20.46 E-value=59 Score=24.57 Aligned_cols=43 Identities=16% Similarity=0.102 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHH
Q 034493 37 FLLTWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEMVLSRAYMWHS 82 (93)
Q Consensus 37 ~L~~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~ 82 (93)
.+..+++.|.+.||..-++-||.+...- .++-.++.+|+.++.
T Consensus 76 ~I~~lseIL~qAde~asL~~LQelt~~C---~~~L~~f~k~Fe~~Q 118 (233)
T PF15326_consen 76 DICCLSEILDQADEAASLKKLQELTLRC---QNHLPIFKKYFERLQ 118 (233)
T ss_pred hHHHHHHHHHHHHhhccHHHHHHHHHHH---HHHHHHHHHHHHHHh
Confidence 3456777888889888888888876443 447777888886654
No 47
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=20.39 E-value=1.9e+02 Score=19.17 Aligned_cols=76 Identities=13% Similarity=0.188 Sum_probs=47.9
Q ss_pred cCchhHHHHHHhhhccCCC-----cchHHHHHHHHHHHHHHHHHh-----hCCHHHHHHHhcCCCCC---CCChHHHHHH
Q 034493 7 IPFHLVTRLWDTYLAEGDA-----LPDFLVYIFASFLLTWSDKLQ-----KLDFQEMVMFLQHLPTH---AWTHQELEMV 73 (93)
Q Consensus 7 f~l~~~lrLWDt~la~~~~-----~~~~~~yvc~A~L~~~r~~L~-----~~dF~~~~~~LQ~lp~~---~w~~~di~~l 73 (93)
.+...++.+-+.++..... ..+..+.+.+.+|......+. ...+.+++..+|.+-.. .-....+.-.
T Consensus 119 v~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~ 198 (209)
T PF02854_consen 119 VSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSKKDPNLSSRIRFM 198 (209)
T ss_dssp SCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHSSSSSHHHHHH
T ss_pred ccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhcccCCCHHHHHH
Confidence 4455566666666666432 235789999999999999998 56677777777665322 1123345555
Q ss_pred HHHHHHHHH
Q 034493 74 LSRAYMWHS 82 (93)
Q Consensus 74 l~~A~~~~~ 82 (93)
+..-..+|+
T Consensus 199 l~~l~~lr~ 207 (209)
T PF02854_consen 199 LEDLIELRN 207 (209)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhc
Confidence 555555543
No 48
>PF05131 Pep3_Vps18: Pep3/Vps18/deep orange family; InterPro: IPR007810 This region is found in a number of proteins identified as being involved in Golgi function and vacuolar sorting. The molecular function of this region is unknown. Proteins containing this domain also contain a C-terminal ring finger domain.
Probab=20.14 E-value=97 Score=21.36 Aligned_cols=35 Identities=23% Similarity=0.410 Sum_probs=25.6
Q ss_pred HHHHHHhhCCHHHHHHHhcCCCCCCCChHHHHH-HHHHHHHH
Q 034493 40 TWSDKLQKLDFQEMVMFLQHLPTHAWTHQELEM-VLSRAYMW 80 (93)
Q Consensus 40 ~~r~~L~~~dF~~~~~~LQ~lp~~~w~~~di~~-ll~~A~~~ 80 (93)
.||--+.+++|+..+++.+..|.. .+. +.++|..+
T Consensus 109 vWk~yl~~~~fd~Al~~~~~~~~~------~d~V~~~qa~~l 144 (147)
T PF05131_consen 109 VWKIYLDKGDFDEALQYCKTNPAQ------RDQVLIKQADHL 144 (147)
T ss_pred HHHHHHhcCcHHHHHHHccCCHHH------HHHHHHHHHHHH
Confidence 577788999999999999996433 333 34577655
No 49
>PF13337 Lon_2: Putative ATP-dependent Lon protease
Probab=20.12 E-value=2.2e+02 Score=23.59 Aligned_cols=31 Identities=26% Similarity=0.379 Sum_probs=23.9
Q ss_pred HHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHh
Q 034493 51 QEMVMFLQHLPTHAWTHQELEMVLSRAYMWHSM 83 (93)
Q Consensus 51 ~~~~~~LQ~lp~~~w~~~di~~ll~~A~~~~~~ 83 (93)
+..+++| +|..+++..|++.+++-|..+|..
T Consensus 407 SgllKLL--~P~~~~~~ee~~~~l~~A~e~R~r 437 (457)
T PF13337_consen 407 SGLLKLL--FPHGEFTKEELEECLRPALEMRRR 437 (457)
T ss_pred HHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHH
Confidence 3344443 688999999999999999988864
No 50
>COG4476 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.08 E-value=1.8e+02 Score=18.82 Aligned_cols=27 Identities=19% Similarity=0.325 Sum_probs=18.9
Q ss_pred CC-CCCCChHHHHHHHHHHHHHHHhccC
Q 034493 60 LP-THAWTHQELEMVLSRAYMWHSMFNN 86 (93)
Q Consensus 60 lp-~~~w~~~di~~ll~~A~~~~~~~~~ 86 (93)
+| ..||+..++-.++.-=+.....|+.
T Consensus 5 yPldldWsTEE~~~Vl~Ffn~VE~aYE~ 32 (90)
T COG4476 5 YPLDLDWSTEEMISVLHFFNAVELAYEK 32 (90)
T ss_pred CCCCCCccHHHHHHHHHHHHHHHHHHHc
Confidence 44 6789999988887765555555554
Done!