Query 021304
Match_columns 314
No_of_seqs 137 out of 228
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 09:11:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021304.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021304hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2760 Vacuolar sorting prote 100.0 1.5E-66 3.2E-71 491.2 22.8 293 6-312 1-324 (432)
2 PF11605 Vps36_ESCRT-II: Vacuo 99.9 9.9E-28 2.2E-32 188.0 8.0 87 11-103 1-88 (89)
3 PF04157 EAP30: EAP30/Vps36 fa 99.9 1.6E-27 3.5E-32 216.8 8.3 122 182-311 1-128 (223)
4 KOG3294 WW domain binding prot 99.7 2E-16 4.2E-21 142.0 11.1 126 11-151 6-136 (261)
5 PF14470 bPH_3: Bacterial PH d 97.4 0.0012 2.7E-08 51.3 8.9 93 20-144 1-95 (96)
6 PF02893 GRAM: GRAM domain; I 97.3 0.00033 7.1E-09 51.8 4.5 38 48-85 29-68 (69)
7 smart00568 GRAM domain in gluc 97.1 0.0015 3.2E-08 47.0 5.9 37 48-84 21-59 (61)
8 smart00683 DM16 Repeats in sea 96.7 0.0069 1.5E-07 43.3 6.4 53 24-83 1-53 (55)
9 PF08567 TFIIH_BTF_p62_N: TFII 96.5 0.013 2.9E-07 44.9 7.3 53 48-106 11-66 (79)
10 KOG3341 RNA polymerase II tran 96.3 0.11 2.4E-06 47.1 12.6 121 180-312 3-132 (249)
11 PF08000 bPH_1: Bacterial PH d 96.2 0.022 4.8E-07 47.4 7.7 97 15-146 22-122 (124)
12 PF07289 DUF1448: Protein of u 94.9 0.041 9E-07 53.0 5.2 67 12-85 143-209 (339)
13 PF10349 WWbp: WW-domain ligan 94.8 0.043 9.3E-07 45.2 4.4 25 123-148 8-32 (116)
14 PF07289 DUF1448: Protein of u 94.2 0.1 2.2E-06 50.4 6.1 65 14-85 13-77 (339)
15 PF03517 Voldacs: Regulator of 89.6 0.38 8.1E-06 40.5 3.4 52 51-103 1-52 (135)
16 PF04283 CheF-arch: Chemotaxis 78.7 23 0.00049 32.4 10.1 39 46-87 23-61 (221)
17 KOG4471 Phosphatidylinositol 3 76.6 9.8 0.00021 39.6 7.6 59 19-87 35-94 (717)
18 smart00540 LEM in nuclear memb 76.5 5 0.00011 27.3 3.9 33 249-282 8-41 (44)
19 KOG4347 GTPase-activating prot 75.5 2 4.4E-05 44.7 2.5 41 46-86 36-76 (671)
20 KOG2760 Vacuolar sorting prote 73.4 2.5 5.4E-05 41.7 2.5 38 48-89 40-77 (432)
21 KOG3238 Chloride ion current i 68.7 6.3 0.00014 35.4 3.7 51 24-81 14-65 (216)
22 PF12068 DUF3548: Domain of un 65.4 16 0.00036 33.2 5.8 58 68-147 110-167 (213)
23 smart00310 PTBI Phosphotyrosin 62.9 65 0.0014 25.7 8.2 78 48-150 19-96 (98)
24 PF02174 IRS: PTB domain (IRS- 62.3 49 0.0011 26.1 7.5 78 48-150 21-98 (100)
25 cd01244 PH_RasGAP_CG9209 RAS_G 52.8 26 0.00057 27.8 4.4 42 46-87 19-60 (98)
26 PF08512 Rtt106: Histone chape 50.0 26 0.00057 27.4 4.0 35 49-86 11-45 (95)
27 cd00824 PTBI IRS-like phosphot 49.1 1.3E+02 0.0028 24.2 7.9 78 48-150 20-97 (104)
28 PF03703 bPH_2: Bacterial PH d 46.9 28 0.00062 25.2 3.6 51 53-103 6-56 (80)
29 PF14844 PH_BEACH: PH domain a 46.1 32 0.0007 27.0 4.0 36 48-83 16-67 (106)
30 PF14593 PH_3: PH domain; PDB: 42.5 39 0.00085 27.2 3.9 39 48-86 27-66 (104)
31 KOG1090 Predicted dual-specifi 42.5 22 0.00047 39.5 3.0 65 15-81 783-861 (1732)
32 PF04837 MbeB_N: MbeB-like, N- 39.4 82 0.0018 22.3 4.6 31 186-216 10-40 (52)
33 PF15358 TSKS: Testis-specific 36.5 2E+02 0.0042 29.0 8.3 60 199-286 339-398 (558)
34 PF00957 Synaptobrevin: Synapt 36.2 1.9E+02 0.0041 21.9 7.1 45 187-231 8-55 (89)
35 KOG2074 RNA polymerase II tran 36.2 35 0.00076 34.9 3.3 40 46-85 17-56 (548)
36 PF06559 DCD: 2'-deoxycytidine 33.2 22 0.00047 34.7 1.2 32 3-34 233-265 (364)
37 PF12482 DUF3701: Phage integr 31.9 57 0.0012 26.0 3.2 19 293-311 31-49 (96)
38 KOG1089 Myotubularin-related p 29.2 57 0.0012 34.0 3.5 58 25-85 7-67 (573)
39 PF06017 Myosin_TH1: Myosin ta 29.1 4E+02 0.0086 23.4 9.3 94 23-150 47-146 (199)
40 cd01201 Neurobeachin Neurobeac 29.1 47 0.001 27.0 2.4 19 48-66 17-35 (108)
41 PHA02102 hypothetical protein 28.9 1E+02 0.0022 22.7 3.8 46 208-258 3-48 (72)
42 PF13141 DUF3979: Protein of u 28.6 15 0.00032 29.1 -0.6 34 30-63 37-70 (114)
43 COG3167 PilO Tfp pilus assembl 26.8 4.8E+02 0.01 23.6 9.3 92 200-302 59-169 (211)
44 smart00160 RanBD Ran-binding d 25.3 3.9E+02 0.0084 22.0 8.4 45 22-67 17-68 (130)
45 COG5418 Predicted secreted pro 24.7 81 0.0018 27.2 3.1 35 257-291 56-91 (164)
46 PF03020 LEM: LEM domain; Int 24.7 8.2 0.00018 26.2 -2.3 29 251-280 10-39 (43)
47 KOG2410 Gamma-glutamyltransfer 24.0 55 0.0012 34.1 2.4 29 272-304 238-266 (579)
48 PF13833 EF-hand_8: EF-hand do 24.0 2.3E+02 0.0049 18.8 5.3 47 249-308 7-53 (54)
49 PF12732 YtxH: YtxH-like prote 23.9 3E+02 0.0064 20.2 6.3 48 184-231 14-65 (74)
50 PF06428 Sec2p: GDP/GTP exchan 23.5 3.9E+02 0.0083 21.4 6.8 32 194-225 12-44 (100)
51 PF08702 Fib_alpha: Fibrinogen 22.8 3.2E+02 0.0068 23.3 6.5 53 180-232 19-72 (146)
52 PF10281 Ish1: Putative stress 22.6 1.7E+02 0.0037 18.7 3.7 15 250-264 7-21 (38)
53 PF13499 EF-hand_7: EF-hand do 21.9 2.8E+02 0.006 19.1 5.8 48 248-306 18-66 (66)
54 PF07933 DUF1681: Protein of u 21.8 4.1E+02 0.0089 23.1 7.0 110 24-153 3-128 (160)
55 TIGR01639 P_fal_TIGR01639 Plas 21.1 77 0.0017 22.8 2.0 24 289-312 18-41 (61)
56 PF12186 AcylCoA_dehyd_C: Acyl 20.4 2.8E+02 0.006 22.8 5.3 26 208-233 20-45 (114)
No 1
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-66 Score=491.16 Aligned_cols=293 Identities=33% Similarity=0.539 Sum_probs=248.0
Q ss_pred CCccccccCCCCeeecCCceEEEeecceeeeeCCCCCC---------------------CCCCCcceEEEEeecceEEe-
Q 021304 6 FFLPASVTSSGRPVLVPNEVECNLLSNVDIEHDQDDAV---------------------SFPPLKSGHFILTTHRLLFL- 63 (314)
Q Consensus 6 ~~~~~~~t~sgrpvL~~~E~~l~~~~~V~Ly~g~~k~~---------------------~~~~~q~G~l~LTshRIi~~- 63 (314)
+|+++++|+||+|+|.|+|..+++++.|++|+|+.+.+ +++++++|++.|||||+||.
T Consensus 1 ~~fy~ett~s~~~~~~~~e~~~~~~q~~~~~fg~~~~~~~~ne~l~lt~~~I~~~D~~~k~~~~~dg~~vltt~Rliw~~ 80 (432)
T KOG2760|consen 1 YWFYVETTSSGQPLLSPGEEDIFIDQSVMLRFGWSKILRSQNETLLLTSQRIIIYDGDKKTTKFDDGTLVLTTHRLIWRS 80 (432)
T ss_pred CceEEEecCCCCCCCCCcccceeeecccchhcccchhhhccCceEEEeecceEEecCCCccccccchhhhhhhceeeecC
Confidence 69999999999999999999999998888888876532 24778999999999999998
Q ss_pred --eCCCCCceEEEecCceeeecccCCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHH
Q 021304 64 --SSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLS 141 (314)
Q Consensus 64 --d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~ 141 (314)
+..+...+.+|||+.|.+++.+..+-..+...++|..++.+|+.+ ..|+|-..+.+.+|+||||++|+ .+||+
T Consensus 81 p~~~~~~~~~~~~pls~vI~v~~~~~~~~~~g~~~~i~~~~~~~~~~----~~~gp~~a~~~~~iqLsFR~~g~-~~F~~ 155 (432)
T KOG2760|consen 81 PTSSADVEVTWVCPLSMVINVGEPAKSELTFGKINRIVVILHKPNPR----FSPGPCPASTFAFIQLSFRGSGS-VDFLE 155 (432)
T ss_pred cccccccceeeeeceeEEEEecCccchhhcccccceEEEEeCCCCCc----CCCCCcccceeeEEEEEecCCCc-HHHHH
Confidence 455567788999999999998887644456788888887766653 35777767778899999996655 88999
Q ss_pred HHHHHHhhccccccCCCCCCCCCCCcc----ccccccCCCcccccchhHHHhchHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 021304 142 KMWECWRGRAWAWETTPSETGPASASA----SASLYASDGSVRMVGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAK 217 (314)
Q Consensus 142 ~L~~aL~~k~W~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~GI~gier~~e~~~~~~~~~l~~Af~DL~~LM~~Ak 217 (314)
++++.+.++.|+ .........+..+ .+...+..++.+++||+||||+.|+|+++||.+|++||+||++||++||
T Consensus 156 ~l~ee~~~r~we--~~~~s~s~~~~r~s~~~~e~~~~~~~t~r~vGI~giEr~~e~q~~~td~~i~~AFqDLskLMs~Ak 233 (432)
T KOG2760|consen 156 ALLEEKNKRIWE--RNSVSESGVDMRKSSPSHEYEVPFIGTLRMVGISGIERSLEEQLKKTDKTINNAFQDLSKLMSLAK 233 (432)
T ss_pred HHHHHHHHHHHH--hccccccccccccCcccccccccccceeeeechhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHH
Confidence 999999999999 4443211111111 1111223456789999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHHHhcCCCCCcccccch---hhhHHHHHHHHHHHhhhhhhccC
Q 021304 218 EMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGIVSPVTKESAG---ALYHQQLSRQLADFVKIPLERAG 294 (314)
Q Consensus 218 emv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l~slGi~~pvt~d~~~---~~y~~eLArela~~l~~~l~k~g 294 (314)
|||.||++++.|++++ ++++++||++ .+++++++|||.+|||+|.++ ++||+||||||+|||..++++.|
T Consensus 234 emv~Lsk~~~~Km~~~---~g~i~dDetv----~~ks~llsLGI~dpvt~~n~~~s~~~Y~~~Lakqlse~l~~~lee~g 306 (432)
T KOG2760|consen 234 EMVSLSKSIAEKMKSK---TGEIQDDETV----RFKSYLLSLGILDPVTKDNFGLSLSLYHQELAKQLSEFLRLPLEENG 306 (432)
T ss_pred HHHHHHHHHHHHHHhh---cCCcCchhhh----hhHHhhhhhccCCcchhccccchHHHHHHHHHHHHHHHHhcchhhcC
Confidence 9999999999999976 6778889987 699999999999999999986 99999999999999999999999
Q ss_pred ceeehhHHHHHHhhccCC
Q 021304 295 GMINLIDVYCLFNRARGT 312 (314)
Q Consensus 295 gmitL~Dvy~~~NRARG~ 312 (314)
|||||+||||+||||||+
T Consensus 307 gmisLtdvY~~~NRaRG~ 324 (432)
T KOG2760|consen 307 GMISLTDVYCRYNRARGT 324 (432)
T ss_pred CEEEHHHHHHHHHHhccC
Confidence 999999999999999996
No 2
>PF11605 Vps36_ESCRT-II: Vacuolar protein sorting protein 36 Vps36; InterPro: IPR021648 Vps36 is a subunit of ESCRT-II, a protein involved in driving protein sorting from endosomes to lysosomes. The GLUE domain of Vps36 allows for a tight interaction to occur between the protein and Vps28, a subunit of ESCRT-I. This interaction is critical for ubiquitinated cargo progression from early to late endosomes []. ; PDB: 2HTH_B 2DX5_A 2CAY_B.
Probab=99.94 E-value=9.9e-28 Score=187.96 Aligned_cols=87 Identities=37% Similarity=0.557 Sum_probs=69.4
Q ss_pred cccCCCCeeecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCCCC-ceEEEecCceeeecccCCcc
Q 021304 11 SVTSSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSS-TAVAIPLSAITHIFSSKRSL 89 (314)
Q Consensus 11 ~~t~sgrpvL~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~~~-~s~~lpL~~i~~~~~~~~~l 89 (314)
|+|++|||+|.+||++++++++|+||+|+.| +++||+|+||||||||||+|+.+.. .+++|||++|.++++.++|+
T Consensus 1 e~t~s~~p~L~~~E~~~~~q~~V~LYdG~~K---~~~~q~G~l~LTsHRliw~d~~~~~~~s~~l~L~~i~~~e~~~gf~ 77 (89)
T PF11605_consen 1 ELTSSGRPVLEPNETIVYQQDGVGLYDGDQK---TPNFQNGRLYLTSHRLIWVDDSDPSKHSIALPLSLISHIEYSAGFL 77 (89)
T ss_dssp -B-TCS-C---TT--EEEEEEEEEEEETTEC---STT-SCEEEEEESSEEEEEESSGHCHH-EEEEGGGEEEEEEE-STT
T ss_pred CcccccCcccCCCceEEEEecCeeeEcCCcc---CccccCCEEEEEeeEEEEEcCCCCceeEEEEEchHeEEEEEEcccc
Confidence 6899999999999999999999999999997 7899999999999999999998844 49999999999999999986
Q ss_pred ccccCCCceeeeee
Q 021304 90 KSVFHSPRFRFQVS 103 (314)
Q Consensus 90 r~~~~s~ki~~~l~ 103 (314)
++||||++++.
T Consensus 78 ---~sSpKI~l~l~ 88 (89)
T PF11605_consen 78 ---KSSPKIILHLK 88 (89)
T ss_dssp ---SSS-EEEEEES
T ss_pred ---CCCCeEEEEec
Confidence 48999998875
No 3
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=99.94 E-value=1.6e-27 Score=216.80 Aligned_cols=122 Identities=33% Similarity=0.543 Sum_probs=89.5
Q ss_pred cchhHHHhchHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHHHhcCC
Q 021304 182 VGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGI 261 (314)
Q Consensus 182 ~GI~gier~~e~~~~~~~~~l~~Af~DL~~LM~~Akemv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l~slGi 261 (314)
+||+||+|+.++++++++..++.||+||++||.+|++|++++++|++|.++... .+.+ ...+|++++.++|+
T Consensus 1 ~GI~~l~~~~~~~~~~~~~~~~~a~~dl~~L~~qa~~~~~~l~~fa~k~~~~i~------~~~~--~r~~f~~~~~~lGv 72 (223)
T PF04157_consen 1 VGIAGLQRRQEQKRQYNELGMQLAFQDLEALMSQAKDFVELLENFARKHKSEIK------SDPE--FRSQFQSMCASLGV 72 (223)
T ss_dssp --------------------TCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC------CSHH--HHHHHHHHHHHHT-
T ss_pred CchHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc------CCch--HHHHHHHHHHHcCC
Confidence 699999999999999999999999999999999999999999999999997632 1111 12369999999999
Q ss_pred CCCcccc------cchhhhHHHHHHHHHHHhhhhhhccCceeehhHHHHHHhhccC
Q 021304 262 VSPVTKE------SAGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARG 311 (314)
Q Consensus 262 ~~pvt~d------~~~~~y~~eLArela~~l~~~l~k~ggmitL~Dvy~~~NRARG 311 (314)
.+|++++ +..+.||.|||+||+|||...+++.||||+|.||||+|||+|+
T Consensus 73 dp~~s~~~~s~~l~~~~~f~~ELa~qi~e~c~~~~~~~GGii~L~dl~~~~nr~R~ 128 (223)
T PF04157_consen 73 DPLASSKFWSESLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSDLYCRYNRARG 128 (223)
T ss_dssp -CHCCTTCCCCCCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHHHHHHHHHCTT
T ss_pred CcccchhhhhhccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHHHHHHHHHhcc
Confidence 9999999 5889999999999999999999999999999999999999993
No 4
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=99.68 E-value=2e-16 Score=142.00 Aligned_cols=126 Identities=21% Similarity=0.293 Sum_probs=108.9
Q ss_pred cccCCCCe-eecCCceEEEeecceeeeeCCCCCC--CCCCCcceEEEEeecceEEeeCC--CCCceEEEecCceeeeccc
Q 021304 11 SVTSSGRP-VLVPNEVECNLLSNVDIEHDQDDAV--SFPPLKSGHFILTTHRLLFLSSS--CSSTAVAIPLSAITHIFSS 85 (314)
Q Consensus 11 ~~t~sgrp-vL~~~E~~l~~~~~V~Ly~g~~k~~--~~~~~q~G~l~LTshRIi~~d~~--~~~~s~~lpL~~i~~~~~~ 85 (314)
.+|..|++ +|..||.++.+-|+|.|.+++...+ .+..++.|+||||+|||||+.+. +.-+||.+|+.++.+++.+
T Consensus 6 sht~~G~gvl~~n~E~i~~~~dgVeltf~~~~~~~~~~~g~kkGtlyLTs~RiIFis~~~~D~fksF~MPf~~mkd~kln 85 (261)
T KOG3294|consen 6 SHTPNGRGVLLYNGESILLVYDGVELTFDKMPNVSEAFKGTKKGTLYLTSHRIIFISSKPKDAFKSFMMPFNLMKDVKLN 85 (261)
T ss_pred ccCCCCceeEecCCcEEEEeeCCeEEEeeccCCCccccccceeeeEEeecceEEEecCCCCcchhhhcchhhhhhhceec
Confidence 36888996 6669999999999999999987642 56789999999999999999775 3668999999999999999
Q ss_pred CCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHHHHHhhcc
Q 021304 86 KRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRA 151 (314)
Q Consensus 86 ~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~~aL~~k~ 151 (314)
++ +|..+.|+-.+.+.+.++| .....+||+|+ .||+.+|.+.+.++..+-.
T Consensus 86 QP----vF~aNyikGtV~pvpgGg~----------~g~as~Kl~F~-~GG~ieFgq~~l~~~s~a~ 136 (261)
T KOG3294|consen 86 QP----VFGANYIKGTVQPVPGGGW----------EGEASFKLTFN-EGGCIEFGQLLLQAASRAS 136 (261)
T ss_pred Cc----ccccceeeeeEeecCCCCc----------cceeEEEEEec-CCCchhHHHHHHHHHHHHH
Confidence 99 5789999999999999887 34678999999 7788999999999987443
No 5
>PF14470 bPH_3: Bacterial PH domain
Probab=97.41 E-value=0.0012 Score=51.27 Aligned_cols=93 Identities=22% Similarity=0.186 Sum_probs=64.1
Q ss_pred ecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCC--CCceEEEecCceeeecccCCccccccCCCc
Q 021304 20 LVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC--SSTAVAIPLSAITHIFSSKRSLKSVFHSPR 97 (314)
Q Consensus 20 L~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~--~~~s~~lpL~~i~~~~~~~~~lr~~~~s~k 97 (314)
|.+||.+++...+.--+. ...+.|.+++|+.|||++.... ......+|+++|.+++...+.+ ..+
T Consensus 1 L~~~E~I~~~~~~~~~~~--------~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~-----~~~ 67 (96)
T PF14470_consen 1 LKEDEEIEYVAVGSYNYF--------FTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGIL-----GGK 67 (96)
T ss_pred CcCCCEEEEEEEEEEeec--------ccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEcccc-----ccE
Confidence 678999999986532222 2345899999999999998753 3456799999999999887753 244
Q ss_pred eeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHH
Q 021304 98 FRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMW 144 (314)
Q Consensus 98 i~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~ 144 (314)
|.+... ...+++.--.+++.+.|++.++
T Consensus 68 i~i~~~-------------------~~~~~i~~i~k~~~~~~~~~i~ 95 (96)
T PF14470_consen 68 ITIETN-------------------GEKIKIDNIQKGDVKEFYEYIK 95 (96)
T ss_pred EEEEEC-------------------CEEEEEEEcCHHHHHHHHHHHh
Confidence 554431 2455655324666677776664
No 6
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=97.33 E-value=0.00033 Score=51.78 Aligned_cols=38 Identities=34% Similarity=0.424 Sum_probs=30.3
Q ss_pred CcceEEEEeecceEEeeCCC-CCc-eEEEecCceeeeccc
Q 021304 48 LKSGHFILTTHRLLFLSSSC-SST-AVAIPLSAITHIFSS 85 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~-~~~-s~~lpL~~i~~~~~~ 85 (314)
...|+||||+|||||..+.. ... .+.|||.+|.+++..
T Consensus 29 ~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~k~ 68 (69)
T PF02893_consen 29 PVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIEKE 68 (69)
T ss_dssp -EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEEEE
T ss_pred ceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEEEe
Confidence 45899999999999998544 333 799999999998743
No 7
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=97.12 E-value=0.0015 Score=47.01 Aligned_cols=37 Identities=35% Similarity=0.398 Sum_probs=30.1
Q ss_pred CcceEEEEeecceEEeeCCC-CCc-eEEEecCceeeecc
Q 021304 48 LKSGHFILTTHRLLFLSSSC-SST-AVAIPLSAITHIFS 84 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~-~~~-s~~lpL~~i~~~~~ 84 (314)
.-.|++|||+|||+|..... ... .+.|||.+|.+++.
T Consensus 21 ~~~G~lyiT~~~l~F~S~~~~~~~~~~~ipl~~I~~i~k 59 (61)
T smart00568 21 PVQGRLYISNYRLCFRSDLPGKLTPKVVIPLADITRIEK 59 (61)
T ss_pred cccEEEEEECCEEEEEccCCCCeeEEEEEEHHHeeEEEE
Confidence 34899999999999997544 334 68999999998874
No 8
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=96.73 E-value=0.0069 Score=43.28 Aligned_cols=53 Identities=19% Similarity=0.276 Sum_probs=41.0
Q ss_pred ceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCCCCceEEEecCceeeec
Q 021304 24 EVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIF 83 (314)
Q Consensus 24 E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~ 83 (314)
|.++-..++|.=.-|++. +-|++++|+.||||.-.....--++||..+|..+.
T Consensus 1 E~v~~~~~~Ved~kgn~G-------~~G~l~VTNlRiiW~s~~~~~~NlSIgy~~i~~i~ 53 (55)
T smart00683 1 ERVLTRINGVEDTKGNNG-------DLGVFFVTNLRLVWHSDTNPRFNISVGYLQITNVR 53 (55)
T ss_pred CEEEeeecCeEecCCCCC-------CeeEEEEEeeEEEEEeCCCCceEEEEcceeEEEEE
Confidence 556666667765555442 56999999999999988777777999999998764
No 9
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=96.51 E-value=0.013 Score=44.90 Aligned_cols=53 Identities=26% Similarity=0.445 Sum_probs=41.5
Q ss_pred CcceEEEEeecc--eEEeeCCC-CCceEEEecCceeeecccCCccccccCCCceeeeeecCC
Q 021304 48 LKSGHFILTTHR--LLFLSSSC-SSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATP 106 (314)
Q Consensus 48 ~q~G~l~LTshR--Ii~~d~~~-~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p 106 (314)
.++|+||||+-| |.|.++.. ....+++|+.+|.....+.. .+||+-+++-..+
T Consensus 11 K~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp~------~s~Kv~Lki~~~~ 66 (79)
T PF08567_consen 11 KKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSPE------GSPKVMLKIVLKD 66 (79)
T ss_dssp TEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--T------TSSTEEEEEEETT
T ss_pred cCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCCC------CCcceEEEEEEec
Confidence 568999999999 99999765 44469999999999876665 4888887776544
No 10
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=96.27 E-value=0.11 Score=47.06 Aligned_cols=121 Identities=17% Similarity=0.263 Sum_probs=79.4
Q ss_pred cccchhHHHhch-HHHHHHhhHHHHH-HHHH-HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHH
Q 021304 180 RMVGVGGLLRKE-QEMWESTDRSLQE-AFQD-LNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWL 256 (314)
Q Consensus 180 ~~~GI~gier~~-e~~~~~~~~~l~~-Af~D-L~~LM~~Akemv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l 256 (314)
+++|+++|.+.. +.+-++-...|.+ -+.- -.+||---..++..|++-+..|+..+ += ...|+.+.
T Consensus 3 rrvG~gAi~~~k~~~ky~~~g~~l~e~Ql~q~~~Ql~~f~~~LeeFA~kH~~ei~kns---------qF---R~~Fq~Mc 70 (249)
T KOG3341|consen 3 RRVGLGAIQKKKAAKKYKEVGTELAEQQLVQMSKQLEVFQEALEEFARKHKTEIRKNS---------QF---RNQFQEMC 70 (249)
T ss_pred cchhhhHHhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCH---------HH---HHHHHHHH
Confidence 568999998766 4444443333333 2222 23444444556677777777777542 10 12478888
Q ss_pred HhcCCCCCcccccch------hhhHHHHHHHHHHHhhhhhhccCceeehhHHHHHHhhccCC
Q 021304 257 LSVGIVSPVTKESAG------ALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGT 312 (314)
Q Consensus 257 ~slGi~~pvt~d~~~------~~y~~eLArela~~l~~~l~k~ggmitL~Dvy~~~NRARG~ 312 (314)
.+.||.+-.+-+.+- ..||=||+-++-|.+...-...||+|+|.||--++=+.||.
T Consensus 71 a~IGvDPlas~kgfw~~~lgvgdFYYelgVqviEvC~at~~~nGGlislqel~~~l~~~R~~ 132 (249)
T KOG3341|consen 71 ASIGVDPLASGKGFWAELLGVGDFYYELGVQVIEVCLATKHTNGGLISLQELCNHLLQRRKK 132 (249)
T ss_pred HHcCCCccccCcchHHHHhhhHHHHHHHhhHHHHHHHHhhcccCCeeeHHHHHHHHHHHhcc
Confidence 999995434443332 46777999999999986666799999999998877777775
No 11
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=96.25 E-value=0.022 Score=47.44 Aligned_cols=97 Identities=18% Similarity=0.218 Sum_probs=60.7
Q ss_pred CCCeeecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCC---CCce-EEEecCceeeecccCCccc
Q 021304 15 SGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC---SSTA-VAIPLSAITHIFSSKRSLK 90 (314)
Q Consensus 15 sgrpvL~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~---~~~s-~~lpL~~i~~~~~~~~~lr 90 (314)
.-.+.|.+||.++..-.-+ ...+.+|++|||.+|... .+.. .++|.+.|.++..+....
T Consensus 22 ~~~~~L~~gE~I~~ayk~i----------------RD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siETAG~- 84 (124)
T PF08000_consen 22 EYEPLLLDGEEIEAAYKLI----------------RDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIETAGT- 84 (124)
T ss_dssp HHGGGSSTT--EEEEEEES----------------SEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEECSS-
T ss_pred HHHHhcCCCCeeeeeehhh----------------ceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEeCCc-
Confidence 3457788999887654322 456999999999999654 2223 499999999997665532
Q ss_pred cccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHHHH
Q 021304 91 SVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWEC 146 (314)
Q Consensus 91 ~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~~a 146 (314)
+.....|.+.+.. ....+.+.|+++-+-.+++..|.+.
T Consensus 85 -~DlD~Elki~i~~-----------------~~~~i~~~f~k~~di~~i~k~L~~~ 122 (124)
T PF08000_consen 85 -FDLDSELKIWISG-----------------QGFPIEFEFKKKTDIYEIYKALAEY 122 (124)
T ss_dssp -TTSEEEEEEEETT-----------------ESSEEEEEEGTTSHHHHHHHHHHHH
T ss_pred -ccCcccEEEEECC-----------------CcEEEEEecCCCCCHHHHHHHHHHH
Confidence 2234444444431 1234668899655556666666543
No 12
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=94.93 E-value=0.041 Score=53.01 Aligned_cols=67 Identities=24% Similarity=0.320 Sum_probs=55.7
Q ss_pred ccCCCCeeecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCCCCceEEEecCceeeeccc
Q 021304 12 VTSSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSS 85 (314)
Q Consensus 12 ~t~sgrpvL~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~ 85 (314)
+-.+|+..|.|+|.++-..++|--...++. + =|+.++|++||+|.-+.+..--++||.-.|.++...
T Consensus 143 ii~~~~L~lLp~E~v~~~~~gVwnls~dqG-----n--LGtfivTNvRiVW~A~~ne~fNVSiPylqi~~i~ir 209 (339)
T PF07289_consen 143 IIRDGQLKLLPQEQVYSRVNGVWNLSSDQG-----N--LGTFIVTNVRIVWFADMNESFNVSIPYLQIKSIRIR 209 (339)
T ss_pred eeeCCeEeeCCccEEeeccCCEEEcccCCC-----c--eeEEEEeeeEEEEEccCCccccccchHhhheeeeee
Confidence 345899999999999999999987766664 2 399999999999997766666689999999988643
No 13
>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form. These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.
Probab=94.82 E-value=0.043 Score=45.16 Aligned_cols=25 Identities=12% Similarity=0.049 Sum_probs=21.4
Q ss_pred ccEEEEEEecCCChHhHHHHHHHHHh
Q 021304 123 SVVITVVVRGKGDWELFLSKMWECWR 148 (314)
Q Consensus 123 ~~~iklSFr~~G~~~~F~~~L~~aL~ 148 (314)
...+||+|| +||.++|.++|.++-+
T Consensus 8 ~~~fKltFk-~GGAieFgq~~~~~~~ 32 (116)
T PF10349_consen 8 QAEFKLTFK-SGGAIEFGQAMLRLAE 32 (116)
T ss_pred ceEEEEEeC-CCChHHHHHHHHHHHH
Confidence 488999999 7788999999987755
No 14
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=94.25 E-value=0.1 Score=50.42 Aligned_cols=65 Identities=23% Similarity=0.329 Sum_probs=54.8
Q ss_pred CCCCeeecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCCCCceEEEecCceeeeccc
Q 021304 14 SSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSS 85 (314)
Q Consensus 14 ~sgrpvL~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~ 85 (314)
+.....|++||.++-..++|.-.-|.+. +.|++++|+-||||.-.......++|-+.+|..+...
T Consensus 13 ~~~~l~lr~GE~~i~~~~~VEDtKGN~G-------~~G~l~vTNLR~iW~s~~~~r~NlSIG~~~i~~i~~~ 77 (339)
T PF07289_consen 13 SASQLKLRPGEFIIDRLDPVEDTKGNNG-------DRGRLVVTNLRLIWHSLKRPRINLSIGYNCITNISTK 77 (339)
T ss_pred ChhhcccccceEEEEeeeceeeccCCCC-------CeeEEEEEeeeeEEeccCCCceeEEeeceeEEEEEEE
Confidence 3445678899999999999987766553 7899999999999998877778899999999988644
No 15
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=89.55 E-value=0.38 Score=40.50 Aligned_cols=52 Identities=27% Similarity=0.441 Sum_probs=27.9
Q ss_pred eEEEEeecceEEeeCCCCCceEEEecCceeeecccCCccccccCCCceeeeee
Q 021304 51 GHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVS 103 (314)
Q Consensus 51 G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~ 103 (314)
|.||+|+.||+|+.+......++||...|.-=-...-. ...+.+|-|-|++-
T Consensus 1 g~L~Vt~~~l~w~~~~~~~~G~~ipY~sI~lHAisr~~-~~~~~~~~lY~qld 52 (135)
T PF03517_consen 1 GTLYVTESRLIWFSNEDSSKGFSIPYPSISLHAISRDP-SGSFPEPCLYLQLD 52 (135)
T ss_dssp EEEEEETTEEEEEET--TTEEEEESS---SEEE--SS--S-S--S--EEEEEE
T ss_pred CEEEEecCEEEEECCCcCCcceeecCCeEEEEEeecCC-CCCCCCceEEEEEe
Confidence 78999999999998544667789998887632211111 01345666766664
No 16
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=78.70 E-value=23 Score=32.42 Aligned_cols=39 Identities=28% Similarity=0.359 Sum_probs=30.6
Q ss_pred CCCcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCC
Q 021304 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKR 87 (314)
Q Consensus 46 ~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~ 87 (314)
....+|++.||+.||++.-+ +. ...|||+.|.++....+
T Consensus 23 ~~W~~~rIiLs~~rlvl~~~-~~--k~~Ipls~I~Di~~~~~ 61 (221)
T PF04283_consen 23 GKWVKGRIILSNDRLVLAFN-DG--KITIPLSSIEDIGVRLP 61 (221)
T ss_pred CCcEEEEEEEecCEEEEEcC-CC--eEEEecceeEecccccC
Confidence 45569999999999999952 22 25999999999976543
No 17
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=76.56 E-value=9.8 Score=39.59 Aligned_cols=59 Identities=22% Similarity=0.273 Sum_probs=41.8
Q ss_pred eecCCceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCC-CCceEEEecCceeeecccCC
Q 021304 19 VLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC-SSTAVAIPLSAITHIFSSKR 87 (314)
Q Consensus 19 vL~~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~-~~~s~~lpL~~i~~~~~~~~ 87 (314)
-+++||.++.... |-- +.+-.+|+|+||+.||.+--... ...-+-+||..|.+++...+
T Consensus 35 ~~L~GE~i~~~~y-~c~---------f~G~~~g~l~lsNyRl~fks~~t~~~~~~~VPLg~Ie~vek~~~ 94 (717)
T KOG4471|consen 35 PLLPGESIIDEKY-ICP---------FLGAVDGTLALSNYRLYFKSKETDPPFVLDVPLGVIERVEKRGG 94 (717)
T ss_pred cccCCccccccee-ccc---------ccccccceEEeeeeEEEEEeccCCCceeEeechhhhhhhhhcCc
Confidence 3557777766551 111 34556999999999999976544 33456999999999987664
No 18
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=76.50 E-value=5 Score=27.34 Aligned_cols=33 Identities=24% Similarity=0.479 Sum_probs=26.7
Q ss_pred HHHHHHHHHhcCCCC-CcccccchhhhHHHHHHHH
Q 021304 249 KEEMQDWLLSVGIVS-PVTKESAGALYHQQLSRQL 282 (314)
Q Consensus 249 ~~~~~s~l~slGi~~-pvt~d~~~~~y~~eLArel 282 (314)
..+++.-|.++|+.. ||| ++.-..|.+.|.+.+
T Consensus 8 d~eL~~~L~~~G~~~gPIt-~sTR~vy~kkL~~~~ 41 (44)
T smart00540 8 DAELRAELKQYGLPPGPIT-DTTRKLYEKKLRKLR 41 (44)
T ss_pred HHHHHHHHHHcCCCCCCcC-cchHHHHHHHHHHHH
Confidence 457999999999965 788 566789998887765
No 19
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=75.54 E-value=2 Score=44.74 Aligned_cols=41 Identities=20% Similarity=0.212 Sum_probs=36.5
Q ss_pred CCCcceEEEEeecceEEeeCCCCCceEEEecCceeeecccC
Q 021304 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (314)
Q Consensus 46 ~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~ 86 (314)
..+-.|++|+++++|||-.+.+..+++.+||..|..++...
T Consensus 36 ~~~~~G~l~~s~~f~cF~s~~~~~c~~~~Pl~~vr~ve~~~ 76 (671)
T KOG4347|consen 36 RYHEQGRLFLSTNFICFASDTEWLCSFITPLLAVRSVERLD 76 (671)
T ss_pred hhhccceeeeccceEEeecCCcccceEeeehhhhhhhhccC
Confidence 44679999999999999998888899999999999998655
No 20
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.45 E-value=2.5 Score=41.72 Aligned_cols=38 Identities=13% Similarity=0.316 Sum_probs=21.9
Q ss_pred CcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCCcc
Q 021304 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSL 89 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~l 89 (314)
.++|++|||+.||+|+|+.+.. +.|++...+-..++++
T Consensus 40 ~~ne~l~lt~~~I~~~D~~~k~----~~~~dg~~vltt~Rli 77 (432)
T KOG2760|consen 40 SQNETLLLTSQRIIIYDGDKKT----TKFDDGTLVLTTHRLI 77 (432)
T ss_pred ccCceEEEeecceEEecCCCcc----ccccchhhhhhhceee
Confidence 5566666666666666655432 4555555555555543
No 21
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=68.74 E-value=6.3 Score=35.39 Aligned_cols=51 Identities=16% Similarity=0.212 Sum_probs=33.6
Q ss_pred ceEEEe-ecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCCCCCceEEEecCceee
Q 021304 24 EVECNL-LSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITH 81 (314)
Q Consensus 24 E~~l~~-~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~ 81 (314)
|-+++. +.++.+..+. .-.-.|+||+|.-+|+|++ .....-|++..-.|+-
T Consensus 14 eg~l~~~t~n~~a~ln~------kvlg~GTlYIa~s~LsWl~-~~~akGfSvey~~IsL 65 (216)
T KOG3238|consen 14 EGLLYTQTPNTKAVLNR------KVLGTGTLYIAESTLSWLS-TSGAKGFSVEYPTISL 65 (216)
T ss_pred cchhhccccchheeecC------cccccceEEEecceEEeee-cccccceeeecceeEE
Confidence 445553 3366665543 3456899999999999998 4544456666666553
No 22
>PF12068 DUF3548: Domain of unknown function (DUF3548); InterPro: IPR021935 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes and is typically between 184 to 216 amino acids in length. The domain is found associated with PF00566 from PFAM and at the N terminus of GYP7 proteins.
Probab=65.36 E-value=16 Score=33.20 Aligned_cols=58 Identities=26% Similarity=0.239 Sum_probs=42.8
Q ss_pred CCceEEEecCceeeecccCCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHHHHH
Q 021304 68 SSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECW 147 (314)
Q Consensus 68 ~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~~aL 147 (314)
....|++||+++.++....+.+ .-+.|++.++. ...+.-|-|+ .||..+|.+.|++-+
T Consensus 110 ~~~aFsv~lsdl~Si~~~~p~~----G~~~lv~~~kd-----------------G~~~p~L~Fh-~gg~~~fl~~L~~~v 167 (213)
T PF12068_consen 110 SSYAFSVPLSDLKSIRVSKPSL----GWWYLVFILKD-----------------GTSLPPLHFH-DGGSKEFLKSLQRYV 167 (213)
T ss_pred cceEEEEEhhheeeEEecCCCC----CceEEEEEecC-----------------CCccCceEEe-cCCHHHHHHHHHhhE
Confidence 5568999999999998887754 23557766541 1356678999 667789988888876
No 23
>smart00310 PTBI Phosphotyrosine-binding domain (IRS1-like).
Probab=62.88 E-value=65 Score=25.71 Aligned_cols=78 Identities=17% Similarity=0.178 Sum_probs=53.2
Q ss_pred CcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEE
Q 021304 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVIT 127 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~ik 127 (314)
.-.+.|=||...|...|.+.....+..||..|..+-.....+ +|-..+ +. +.| || .
T Consensus 19 ~G~y~L~lt~~~L~L~~~~~~~~~~~wpl~~lRRyG~~~~~F--sfEaGR-----rc-~tG------~G----------~ 74 (98)
T smart00310 19 SGSYRLRLTSETLVLWRLNPRVELVVWPLLSLRRYGRDKNFF--FFEAGR-----RC-VSG------PG----------E 74 (98)
T ss_pred CeeEEEEECCcEEEEEecCCCccEEEeehhHeeeecCCCCEE--EEEccC-----cC-CCC------CC----------E
Confidence 557889999999999997777788999999999887655432 122211 11 111 12 4
Q ss_pred EEEecCCChHhHHHHHHHHHhhc
Q 021304 128 VVVRGKGDWELFLSKMWECWRGR 150 (314)
Q Consensus 128 lSFr~~G~~~~F~~~L~~aL~~k 150 (314)
+.|+-. ..++-|+.+.+++++.
T Consensus 75 f~f~t~-~a~~i~~~v~~a~~~~ 96 (98)
T smart00310 75 FTFQTV-VAQEIFQLVLEAMQAQ 96 (98)
T ss_pred EEEEcC-cHHHHHHHHHHHHHHh
Confidence 556633 4578899999998865
No 24
>PF02174 IRS: PTB domain (IRS-1 type); InterPro: IPR002404 Insulin receptor substrate-1 proteins contain both a pleckstrin homology domain IPR001849 from INTERPRO and a phosphotyrosine binding (PTB) domain. These domains facilitate interaction with the activated tyrosine-phosphorylated insulin receptor. The PTB domain is situated towards the N terminus. Two arginines in this domain are responsible for hydrogen bonding phosphotyrosine residues on a Ac-LYASSNPApY-NH2 peptide in the juxtamembrane region of the insulin receptor. Further interactions via `bridged' water molecules are coordinated by residues an Asn and a Ser residue []. The PTB domain has a compact, 7-stranded beta-sandwich structure, capped by a C-terminal helix. The substrate peptide fits into an L-shaped surface cleft formed from the C-terminal helix and strands 5 and 6 [].; GO: 0005158 insulin receptor binding; PDB: 1XR0_B 1QQG_B 1IRS_A 2V76_D 1MK7_B 2K00_A 1MIZ_B 1MK9_B 1MIX_A 2H7E_A ....
Probab=62.32 E-value=49 Score=26.12 Aligned_cols=78 Identities=12% Similarity=0.138 Sum_probs=53.0
Q ss_pred CcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEE
Q 021304 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVIT 127 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~ik 127 (314)
.-.+.|-||.+.|+..+.......+..||..|.........+. |-.. +..|.| .. .
T Consensus 21 ~g~~~L~l~~~~l~L~~~~~~~~~~~Wpl~~lRryG~~~~~F~--fEaG------Rrc~tG--------------~G--~ 76 (100)
T PF02174_consen 21 SGPYLLCLTPDELILIDPQSGEPILEWPLRYLRRYGRDDGIFS--FEAG------RRCPTG--------------EG--L 76 (100)
T ss_dssp EEEEEEEEESSEEEEEETTTTEEEEEEEGGGEEEEEEETTEEE--EEES------TTSTTC--------------SE--E
T ss_pred eEEEEEEECCCEEEEecCCCCceEEEEEhHHhhhhccCCCEEE--EEEC------CcCCCC--------------Cc--E
Confidence 3457799999999999888888889999999999865544321 1111 111111 11 4
Q ss_pred EEEecCCChHhHHHHHHHHHhhc
Q 021304 128 VVVRGKGDWELFLSKMWECWRGR 150 (314)
Q Consensus 128 lSFr~~G~~~~F~~~L~~aL~~k 150 (314)
+.|+-. +..+.++++..++++.
T Consensus 77 f~f~t~-~a~~I~~~v~~~i~~~ 98 (100)
T PF02174_consen 77 FWFQTP-DAEEIFETVERAIKAQ 98 (100)
T ss_dssp EEEEES-THHHHHHHHHHHHHHH
T ss_pred EEEEeC-CHHHHHHHHHHHHHHh
Confidence 567744 5688999999998764
No 25
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=52.83 E-value=26 Score=27.75 Aligned_cols=42 Identities=24% Similarity=0.177 Sum_probs=34.1
Q ss_pred CCCcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCC
Q 021304 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKR 87 (314)
Q Consensus 46 ~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~ 87 (314)
.+++.--..||+.+|.|.++......-+|||..|..++....
T Consensus 19 ~n~KkRwF~Lt~~~L~Y~k~~~~~~~g~I~L~~i~~ve~v~~ 60 (98)
T cd01244 19 LHFKKRYFQLTTTHLSWAKDVQCKKSALIKLAAIKGTEPLSD 60 (98)
T ss_pred cCCceeEEEECCCEEEEECCCCCceeeeEEccceEEEEEcCC
Confidence 578888899999999999876655556999999999975443
No 26
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=50.00 E-value=26 Score=27.43 Aligned_cols=35 Identities=23% Similarity=0.303 Sum_probs=27.8
Q ss_pred cceEEEEeecceEEeeCCCCCceEEEecCceeeecccC
Q 021304 49 KSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (314)
Q Consensus 49 q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~ 86 (314)
..|.||.|.+-++|+- .+..+.||+++|..++.+-
T Consensus 11 ~~g~L~pl~~~l~f~~---~kP~~~i~~~dI~~v~feR 45 (95)
T PF08512_consen 11 NEGFLYPLEKCLLFGL---EKPPFVIPLDDIESVEFER 45 (95)
T ss_dssp EEEEEEEESSEEEEEC---SSS-EEEEGGGEEEEEEE-
T ss_pred cCEEEEEccceEEEec---CCCeEEEEhhHeeEEEEEe
Confidence 4899999999999941 4556899999999997643
No 27
>cd00824 PTBI IRS-like phosphotyrosine-binding domain. IRS-like phosphotyrosine-binding domain (PTBi); This domain has a PH-like fold and is found in insulin receptor substrate molecules and in other eukaryotic signaling molecules such as FRS2 and Dok. IRS and Dok molecules have an N-terminal PH domain, which is followed by an IRS-like PTB domain. FRS2 just has an N-terminal PTBi domain. This PTBi domain is shorter than the PTB domain which is found in SHC, Numb and other proteins. The PTBi domain binds to phosphotyrosines which are in NPXpY motifs.
Probab=49.09 E-value=1.3e+02 Score=24.23 Aligned_cols=78 Identities=17% Similarity=0.162 Sum_probs=52.9
Q ss_pred CcceEEEEeecceEEeeCCCCCceEEEecCceeeecccCCccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEE
Q 021304 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVIT 127 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~ik 127 (314)
.-.++|-||.+.|++.+.......+..||..|..+-.....+ +|-..+ +. +.| || .
T Consensus 20 ~G~y~L~lt~~~l~L~~~~~~~~~~~wpl~~lRRyG~~~~~F--sfEaGR-----rc-~tG------~G----------~ 75 (104)
T cd00824 20 LGSYRLCLTSKELTLVKLGSRVALVVWPLMFLRRYGYDSNLF--SFEAGR-----RC-VTG------EG----------I 75 (104)
T ss_pred ceeEEEEECCCEEEEEecCCCceEEEeehHHeeecccCCCEE--EEEccC-----cC-CCC------CC----------E
Confidence 457789999999999998887788999999999886665432 222221 11 111 12 4
Q ss_pred EEEecCCChHhHHHHHHHHHhhc
Q 021304 128 VVVRGKGDWELFLSKMWECWRGR 150 (314)
Q Consensus 128 lSFr~~G~~~~F~~~L~~aL~~k 150 (314)
+.|+-. .+++-++.+.+++.+.
T Consensus 76 f~f~t~-~~~~I~~~v~~~i~~~ 97 (104)
T cd00824 76 FTFQTD-RAEEIFQNVHETILAA 97 (104)
T ss_pred EEEEcC-CHHHHHHHHHHHHHHH
Confidence 667744 3477789999887754
No 28
>PF03703 bPH_2: Bacterial PH domain; InterPro: IPR005182 A domain that is found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
Probab=46.86 E-value=28 Score=25.21 Aligned_cols=51 Identities=22% Similarity=0.378 Sum_probs=36.9
Q ss_pred EEEeecceEEeeCCCCCceEEEecCceeeecccCCccccccCCCceeeeee
Q 021304 53 FILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVS 103 (314)
Q Consensus 53 l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ki~~~l~ 103 (314)
.++|..+|+....--......+|+..|.++....+++.+.++-..|.+...
T Consensus 6 y~i~~~~l~i~~G~~~~~~~~i~~~~Iq~v~~~q~~~~r~~g~~~i~i~~~ 56 (80)
T PF03703_consen 6 YTITDDRLIIRSGLFSKRTTIIPLDRIQSVSIKQNPLQRLFGLGTIKIDTA 56 (80)
T ss_pred EEEECCEEEEEECeEEEEEEEEEhhHeEEEEEEcCHHHHhCccEEEEEEEC
Confidence 566777776663222445679999999999999998877777777765543
No 29
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=46.10 E-value=32 Score=27.00 Aligned_cols=36 Identities=25% Similarity=0.437 Sum_probs=25.9
Q ss_pred CcceEEEEeecceEEeeC---------------CC-CCceEEEecCceeeec
Q 021304 48 LKSGHFILTTHRLLFLSS---------------SC-SSTAVAIPLSAITHIF 83 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~---------------~~-~~~s~~lpL~~i~~~~ 83 (314)
.-.|++.||++.|.|.++ .. ...+...|+++|..+.
T Consensus 16 ~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~ 67 (106)
T PF14844_consen 16 SIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVH 67 (106)
T ss_dssp EEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEE
T ss_pred eEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHH
Confidence 458999999999999876 11 3456789999998875
No 30
>PF14593 PH_3: PH domain; PDB: 1W1H_D 1W1D_A 1W1G_A 2VKI_A.
Probab=42.52 E-value=39 Score=27.19 Aligned_cols=39 Identities=23% Similarity=0.247 Sum_probs=25.8
Q ss_pred CcceEEEEeec-ceEEeeCCCCCceEEEecCceeeecccC
Q 021304 48 LKSGHFILTTH-RLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (314)
Q Consensus 48 ~q~G~l~LTsh-RIi~~d~~~~~~s~~lpL~~i~~~~~~~ 86 (314)
.+.-.+.||.. ||+|+|......-=.||++.-..++..+
T Consensus 27 ~kkR~liLTd~PrL~Yvdp~~~~~KGeI~~~~~l~v~~k~ 66 (104)
T PF14593_consen 27 AKKRQLILTDGPRLFYVDPKKMVLKGEIPWSKELSVEVKS 66 (104)
T ss_dssp EEEEEEEEETTTEEEEEETTTTEEEEEE--STT-EEEECS
T ss_pred EEEEEEEEccCCEEEEEECCCCeECcEEecCCceEEEEcc
Confidence 44667999999 9999999774333478888665555433
No 31
>KOG1090 consensus Predicted dual-specificity phosphatase [General function prediction only]
Probab=42.46 E-value=22 Score=39.48 Aligned_cols=65 Identities=20% Similarity=0.281 Sum_probs=39.8
Q ss_pred CCCeeecCCceEEEeecceeeeeCCCC---C-----CCCCCCcceEEEEeecceEEeeCC----CCCce--EEEecCcee
Q 021304 15 SGRPVLVPNEVECNLLSNVDIEHDQDD---A-----VSFPPLKSGHFILTTHRLLFLSSS----CSSTA--VAIPLSAIT 80 (314)
Q Consensus 15 sgrpvL~~~E~~l~~~~~V~Ly~g~~k---~-----~~~~~~q~G~l~LTshRIi~~d~~----~~~~s--~~lpL~~i~ 80 (314)
--+|+|.|||..+ .|.+++|.=.+. . +.-.---+|-|+||+.|+||--.. .+... -.+|+....
T Consensus 783 ~~~P~LlpGE~lv--~D~lrcyLlpdgrE~e~~~~~~~~LlPAeGalFLTnYRVIFkG~p~Dpl~~eqviVrtfPlasl~ 860 (1732)
T KOG1090|consen 783 NFDPVLLPGEFLV--SDPLRCYLLPDGRESEMSLNRLENLLPAEGALFLTNYRVIFKGKPVDPLATEQVIVRTFPLASLE 860 (1732)
T ss_pred CCCccccCchhhc--cCCceEEEecCcccccccccccccccccCcceEEeeeEEEecCCCCCcccccceEEEEeehhhhh
Confidence 4589999999854 566665542211 0 011123478999999999996432 23322 278887665
Q ss_pred e
Q 021304 81 H 81 (314)
Q Consensus 81 ~ 81 (314)
+
T Consensus 861 k 861 (1732)
T KOG1090|consen 861 K 861 (1732)
T ss_pred h
Confidence 4
No 32
>PF04837 MbeB_N: MbeB-like, N-term conserved region; InterPro: IPR006922 This family consists of Mbe/Mob proteins defined by an N-terminal conserved region. These proteins are essential for specific plasmid transfer.
Probab=39.43 E-value=82 Score=22.26 Aligned_cols=31 Identities=26% Similarity=0.369 Sum_probs=25.9
Q ss_pred HHHhchHHHHHHhhHHHHHHHHHHHHHHHHH
Q 021304 186 GLLRKEQEMWESTDRSLQEAFQDLNALMNKA 216 (314)
Q Consensus 186 gier~~e~~~~~~~~~l~~Af~DL~~LM~~A 216 (314)
.++++..++.+.++..+.++|+-+++-|..|
T Consensus 10 ~feqkskeqa~ste~~vk~af~~~E~~l~~~ 40 (52)
T PF04837_consen 10 DFEQKSKEQAESTEQMVKNAFEQHEKSLSAA 40 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888889999999999999998877543
No 33
>PF15358 TSKS: Testis-specific serine kinase substrate
Probab=36.45 E-value=2e+02 Score=29.03 Aligned_cols=60 Identities=23% Similarity=0.377 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHHHhcCCCCCcccccchhhhHHHH
Q 021304 199 DRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGIVSPVTKESAGALYHQQL 278 (314)
Q Consensus 199 ~~~l~~Af~DL~~LM~~Akemv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l~slGi~~pvt~d~~~~~y~~eL 278 (314)
+..-..+-++|..|-..|.|++.+.++-+--+. .+++-|--||=+-|+ .+||
T Consensus 339 Q~eq~q~ar~lqeLR~~~delct~versavs~a-------------------sLrseLeglgpvKPi---------lEel 390 (558)
T PF15358_consen 339 QREQAQTARGLQELRGRADELCTMVERSAVSVA-------------------SLRSELEGLGPVKPI---------LEEL 390 (558)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHhHhHHH-------------------HHHHHhhcccCcchH---------HHHH
Confidence 333344557788888899999888877442111 366666666655554 6777
Q ss_pred HHHHHHHh
Q 021304 279 SRQLADFV 286 (314)
Q Consensus 279 Arela~~l 286 (314)
+||+..+=
T Consensus 391 ~Rq~~~~r 398 (558)
T PF15358_consen 391 GRQLQNSR 398 (558)
T ss_pred HHHHHhhc
Confidence 77776665
No 34
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=36.22 E-value=1.9e+02 Score=21.88 Aligned_cols=45 Identities=13% Similarity=0.253 Sum_probs=30.3
Q ss_pred HHhchHHHHHHhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHh
Q 021304 187 LLRKEQEMWESTDRSLQEAFQ---DLNALMNKAKEMVMLAEKMRQKLL 231 (314)
Q Consensus 187 ier~~e~~~~~~~~~l~~Af~---DL~~LM~~Akemv~La~~~~~k~~ 231 (314)
|....++-......++...++ .|+.|-.++.+|..-|+.|.++..
T Consensus 8 i~~~v~~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~~a~~F~k~a~ 55 (89)
T PF00957_consen 8 IQEQVEEVKNIMRENIDKLLERGEKLEELEDKTEELSDNAKQFKKNAK 55 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhHHHHHHHH
Confidence 344444444444445555553 788999999999999999986544
No 35
>KOG2074 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB1 [Transcription; Replication, recombination and repair]
Probab=36.18 E-value=35 Score=34.90 Aligned_cols=40 Identities=15% Similarity=0.215 Sum_probs=32.6
Q ss_pred CCCcceEEEEeecceEEeeCCCCCceEEEecCceeeeccc
Q 021304 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSS 85 (314)
Q Consensus 46 ~~~q~G~l~LTshRIi~~d~~~~~~s~~lpL~~i~~~~~~ 85 (314)
..-++|.+||++-||+|++++...-++.+-+..|.+..++
T Consensus 17 ~k~~dg~l~l~~~~i~~~~e~k~~~s~~~~~~~I~~qk~s 56 (548)
T KOG2074|consen 17 QKKQDGALYLMAERIAWVPEGKSPFSLKVMFHDIKCQKES 56 (548)
T ss_pred hhccCcceeeeeeEEEeccCCCCCceeEEEEeccCccccC
Confidence 5567899999999999999766777788888888776544
No 36
>PF06559 DCD: 2'-deoxycytidine 5'-triphosphate deaminase (DCD); InterPro: IPR010550 This family consists of several bacterial 2'-deoxycytidine 5'-triphosphate deaminase proteins (3.5.4.13 from EC).; GO: 0008829 dCTP deaminase activity; PDB: 2R9Q_C.
Probab=33.23 E-value=22 Score=34.69 Aligned_cols=32 Identities=19% Similarity=0.231 Sum_probs=22.8
Q ss_pred cCCCCccccccCCCCeeecCCceEEEeec-cee
Q 021304 3 SNNFFLPASVTSSGRPVLVPNEVECNLLS-NVD 34 (314)
Q Consensus 3 ~~~~~~~~~~t~sgrpvL~~~E~~l~~~~-~V~ 34 (314)
..+||.|+..+..+..||.|+|+-++... .|.
T Consensus 233 ~~dfWepi~~~~~~~liLdP~eFYil~Sre~v~ 265 (364)
T PF06559_consen 233 PEDFWEPIYSRGGRELILDPGEFYILASREAVH 265 (364)
T ss_dssp GGGTEEEEEE-SSSEEEE-TT--EEEEEEEEE-
T ss_pred hHHcCcccccCCCCeEEECCcceEEEeeccccc
Confidence 46899999999988899999999988754 444
No 37
>PF12482 DUF3701: Phage integrase protein; InterPro: IPR022169 This domain family is found in bacteria, and is approximately 100 amino acids in length. The family is found in association with PF00589 from PFAM.
Probab=31.90 E-value=57 Score=25.98 Aligned_cols=19 Identities=37% Similarity=0.489 Sum_probs=17.0
Q ss_pred cCceeehhHHHHHHhhccC
Q 021304 293 AGGMINLIDVYCLFNRARG 311 (314)
Q Consensus 293 ~ggmitL~Dvy~~~NRARG 311 (314)
..||.||.||..+.||.++
T Consensus 31 aaGi~TL~dL~~~i~~rg~ 49 (96)
T PF12482_consen 31 AAGIRTLADLVDRINRRGG 49 (96)
T ss_pred HcCCchHHHHHHHHHHccc
Confidence 6799999999999999873
No 38
>KOG1089 consensus Myotubularin-related phosphatidylinositol 3-phosphate 3-phosphatase MTM6 [General function prediction only]
Probab=29.15 E-value=57 Score=34.01 Aligned_cols=58 Identities=19% Similarity=0.300 Sum_probs=40.2
Q ss_pred eEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeCC---CCCceEEEecCceeeeccc
Q 021304 25 VECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSS---CSSTAVAIPLSAITHIFSS 85 (314)
Q Consensus 25 ~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~~---~~~~s~~lpL~~i~~~~~~ 85 (314)
+.+...++|.++.+..+ -+.-..|+++||+|.+|+.... +...-+-++...|..++..
T Consensus 7 i~~~kv~~v~l~~~~~~---~~~~~~Gtl~lt~~hli~~~~~~~~~~~~e~w~l~~~i~~v~k~ 67 (573)
T KOG1089|consen 7 IKVPKVHNVELHDRENP---VTLALVGTLLLTTHHLIFKILQCRQANSKELWLLHDNIDSVEKD 67 (573)
T ss_pred CccceecceeEecCCCC---ccccccceEEEeeceeeeeecccccccchhhccccchHhhhccC
Confidence 33455678889988754 3336799999999999998655 2333356777777766543
No 39
>PF06017 Myosin_TH1: Myosin tail; InterPro: IPR010926 These proteins share a region of sequence similarity with the tail of myosin (for example O00159 from SWISSPROT). Myosins act as molecular motors. ; GO: 0003774 motor activity, 0016459 myosin complex
Probab=29.13 E-value=4e+02 Score=23.43 Aligned_cols=94 Identities=18% Similarity=0.141 Sum_probs=58.5
Q ss_pred CceEEEeecceeeeeCCCCCCCCCCCcceEEEEeecceEEeeC-----CC-CCceEEEecCceeeecccCCccccccCCC
Q 021304 23 NEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSS-----SC-SSTAVAIPLSAITHIFSSKRSLKSVFHSP 96 (314)
Q Consensus 23 ~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~d~-----~~-~~~s~~lpL~~i~~~~~~~~~lr~~~~s~ 96 (314)
+|.++|... |.=|....| .+.-.+.||...|+-+|. .. ...--.|||.+|..+..+.. ...
T Consensus 47 ~e~vlFs~~-v~K~nr~~K------~~~R~livT~~~iY~l~~~~~~~~~~~~~kr~i~l~~I~~IsvS~~------~D~ 113 (199)
T PF06017_consen 47 DEKVLFSDR-VQKYNRRNK------PQPRILIVTDKAIYLLDQRKVKDPKKYKLKRRIPLSDITGISVSPL------SDN 113 (199)
T ss_pred CcceEEEEE-EEEecCCCC------ccceEEEEeCCeEEEEEEeecCCceeeEEEeccCcccccEEEEccC------CCC
Confidence 445555554 666655443 667789999999999972 22 22234899999998865443 234
Q ss_pred ceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHHHHHhhc
Q 021304 97 RFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGR 150 (314)
Q Consensus 97 ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~~aL~~k 150 (314)
-+.+|+. +. ..++=-+.+ + .+|...|.++..+.
T Consensus 114 ~~vihv~--~~---------------~D~il~~~~-k---~Elv~~L~~~~~~~ 146 (199)
T PF06017_consen 114 FFVIHVP--GE---------------GDLILESDF-K---TELVTILCKAYKKA 146 (199)
T ss_pred EEEEEEC--CC---------------CCEEEEeCc-H---HHHHHHHHHHHHHH
Confidence 4566662 21 233322222 2 79999999998753
No 40
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=29.09 E-value=47 Score=27.05 Aligned_cols=19 Identities=21% Similarity=0.410 Sum_probs=15.8
Q ss_pred CcceEEEEeecceEEeeCC
Q 021304 48 LKSGHFILTTHRLLFLSSS 66 (314)
Q Consensus 48 ~q~G~l~LTshRIi~~d~~ 66 (314)
.-.|++-|||++|+|.++.
T Consensus 17 vvpG~l~ITt~~lyF~~d~ 35 (108)
T cd01201 17 VVKGTLSITTTEIFFEVDE 35 (108)
T ss_pred EeccEEEEecCEEEEEECC
Confidence 3479999999999999653
No 41
>PHA02102 hypothetical protein
Probab=28.92 E-value=1e+02 Score=22.70 Aligned_cols=46 Identities=26% Similarity=0.394 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHHHh
Q 021304 208 DLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLS 258 (314)
Q Consensus 208 DL~~LM~~Akemv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l~s 258 (314)
|.+.|..+|.++-+|....+.-..... -.-.+.+++++ +|..+|.+
T Consensus 3 rsneLvekA~eLqkLl~eV~dlAse~~-yGvein~~nev----~f~DWLsS 48 (72)
T PHA02102 3 RSNELVEKALELQKLLKEVKDLASEQD-YGVEINDDNEV----RFEDWLSS 48 (72)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhhhhc-cceeeCCCCcE----eHHHhhcc
Confidence 567889999999998888765433321 01123334444 57777754
No 42
>PF13141 DUF3979: Protein of unknown function (DUF3979)
Probab=28.60 E-value=15 Score=29.12 Aligned_cols=34 Identities=24% Similarity=0.298 Sum_probs=29.7
Q ss_pred ecceeeeeCCCCCCCCCCCcceEEEEeecceEEe
Q 021304 30 LSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFL 63 (314)
Q Consensus 30 ~~~V~Ly~g~~k~~~~~~~q~G~l~LTshRIi~~ 63 (314)
+-+|.||++.+..++++-+++|.-+-|-+||.-.
T Consensus 37 ~msvelyfneyde~ritlyk~g~pittmqriai~ 70 (114)
T PF13141_consen 37 HMSVELYFNEYDEVRITLYKDGNPITTMQRIAIS 70 (114)
T ss_pred ceeeEEEecccceEEEEEEeCCCchhheeeeeeE
Confidence 4479999999998999999999988888998765
No 43
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.79 E-value=4.8e+02 Score=23.59 Aligned_cols=92 Identities=18% Similarity=0.230 Sum_probs=45.5
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCccccccHHHHHHHHHhcCCCCCcccccc-----
Q 021304 200 RSLQEAFQ----DLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGIVSPVTKESA----- 270 (314)
Q Consensus 200 ~~l~~Af~----DL~~LM~~Akemv~La~~~~~k~~~~~~~~~~~~~~e~~~~~~~~~s~l~slGi~~pvt~d~~----- 270 (314)
..+.++|+ +--+|-..=++|+++=++|..-++.-. .+-++. .+-.-..+.|+.+-+|-|.+
T Consensus 59 e~LKs~~q~K~~~aanL~~lr~Ql~emee~~~~llrQLP-------s~tEmp---~Ll~dv~q~Gl~sgL~fd~~~p~~~ 128 (211)
T COG3167 59 EELKSTYQQKAIQAANLEALRAQLAEMEERFDILLRQLP-------SDTEMP---NLLADVNQAGLSSGLTFDLFMPQPE 128 (211)
T ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHhCC-------cccchh---HHHHHHHHhhhccCceeeccCCCch
Confidence 44444443 333344444566666677766655442 111221 23334456777766666642
Q ss_pred -hhhhHHHHH---------HHHHHHhhhhhhccCceeehhHH
Q 021304 271 -GALYHQQLS---------RQLADFVKIPLERAGGMINLIDV 302 (314)
Q Consensus 271 -~~~y~~eLA---------rela~~l~~~l~k~ggmitL~Dv 302 (314)
...|+.||= ++|+.|..++-.=.+ ||||-|+
T Consensus 129 v~k~fy~elPisi~v~G~YHdia~F~~~VasLpR-IiTl~d~ 169 (211)
T COG3167 129 VDKEFYAELPISISVTGSYHDIAQFVSDVASLPR-IITLHDL 169 (211)
T ss_pred hhhhhHhhcceEEEEcccHHHHHHHHHHHhhcce-eeeeecc
Confidence 233333331 368888875322111 6666654
No 44
>smart00160 RanBD Ran-binding domain. Domain of apporximately 150 residues that stabilises the GTP-bound form of Ran (the Ras-like nuclear small GTPase).
Probab=25.28 E-value=3.9e+02 Score=22.02 Aligned_cols=45 Identities=9% Similarity=0.095 Sum_probs=26.3
Q ss_pred CCceEEEeecceeeeeCCCCCCCCCCCcceEEEE-------eecceEEeeCCC
Q 021304 22 PNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFIL-------TTHRLLFLSSSC 67 (314)
Q Consensus 22 ~~E~~l~~~~~V~Ly~g~~k~~~~~~~q~G~l~L-------TshRIi~~d~~~ 67 (314)
++|..+|. ....||.=+...-....+--|.|.| ..+||+-.++..
T Consensus 17 E~E~~lf~-~r~KL~~~~~~~~~WkerG~G~lki~~~~~~~~~~RivmR~~~~ 68 (130)
T smart00160 17 EDEEVIFS-ARAKLYRFANDKKEWKERGVGDLKILKSKDNGGKVRIVMRRDGV 68 (130)
T ss_pred cCeEEEEE-EEeEEEEEcCCCCCCeeccEEEEEEEEcCCCCCeEEEEEEECCC
Confidence 45666655 4456663221101256677788888 679998775543
No 45
>COG5418 Predicted secreted protein [Function unknown]
Probab=24.74 E-value=81 Score=27.17 Aligned_cols=35 Identities=29% Similarity=0.273 Sum_probs=28.7
Q ss_pred HhcCCCCC-cccccchhhhHHHHHHHHHHHhhhhhh
Q 021304 257 LSVGIVSP-VTKESAGALYHQQLSRQLADFVKIPLE 291 (314)
Q Consensus 257 ~slGi~~p-vt~d~~~~~y~~eLArela~~l~~~l~ 291 (314)
..||+..| .|+|-++..=+.++.|.|++++-..|+
T Consensus 56 ~yLg~~R~~~tke~~d~~~yRr~c~ki~~pi~~~l~ 91 (164)
T COG5418 56 EYLGWPRPPMTKEVFDHPGYRRVCRKIADPIGRVLE 91 (164)
T ss_pred HhhCCCCCCcCHHHhcchhHHHHHHHHHHHHHHHHH
Confidence 45899765 999998888889999999999976554
No 46
>PF03020 LEM: LEM domain; InterPro: IPR003887 The LEM domain is found in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin []. Defects in the emerin gene are a cause of Emery-Dreifuss muscular dystrophy, an X-linked disorder characterised by early contractures, muscle wasting, weakness and cardiomyopathy.; GO: 0005635 nuclear envelope; PDB: 2ODG_C 2ODC_I 1JEI_A 1H9F_A 1GJJ_A.
Probab=24.70 E-value=8.2 Score=26.20 Aligned_cols=29 Identities=24% Similarity=0.505 Sum_probs=19.0
Q ss_pred HHHHHHHhcCCCC-CcccccchhhhHHHHHH
Q 021304 251 EMQDWLLSVGIVS-PVTKESAGALYHQQLSR 280 (314)
Q Consensus 251 ~~~s~l~slGi~~-pvt~d~~~~~y~~eLAr 280 (314)
+++.-|..+|+.. ||| ++.-..|.+.|++
T Consensus 10 ELr~~L~~~G~~~GPIt-~tTR~vY~kkL~k 39 (43)
T PF03020_consen 10 ELREELREYGEPPGPIT-PTTRKVYEKKLAK 39 (43)
T ss_dssp CCHHCCCCCT-S------CCCHHHHHHHCHH
T ss_pred HHHHHHHHcCCCCCCCC-cccHHHHHHHHHH
Confidence 4788889999976 888 5567889988875
No 47
>KOG2410 consensus Gamma-glutamyltransferase [Amino acid transport and metabolism]
Probab=24.00 E-value=55 Score=34.15 Aligned_cols=29 Identities=31% Similarity=0.570 Sum_probs=21.2
Q ss_pred hhhHHHHHHHHHHHhhhhhhccCceeehhHHHH
Q 021304 272 ALYHQQLSRQLADFVKIPLERAGGMINLIDVYC 304 (314)
Q Consensus 272 ~~y~~eLArela~~l~~~l~k~ggmitL~Dvy~ 304 (314)
.=|+=+||+.|++.+. +.|||||+.|+=-
T Consensus 238 ~FY~G~~a~~lvkdiq----~~GGiiT~qDl~~ 266 (579)
T KOG2410|consen 238 AFYNGELAQKLVKDIQ----KAGGIITEQDLEN 266 (579)
T ss_pred cccChHHHHHHHHHHH----HhCCceEHHHHhh
Confidence 4556667777766654 7999999999843
No 48
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=23.96 E-value=2.3e+02 Score=18.84 Aligned_cols=47 Identities=19% Similarity=0.351 Sum_probs=28.5
Q ss_pred HHHHHHHHHhcCCCCCcccccchhhhHHHHHHHHHHHhhhhhhccCceeehhHHHHHHhh
Q 021304 249 KEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNR 308 (314)
Q Consensus 249 ~~~~~s~l~slGi~~pvt~d~~~~~y~~eLArela~~l~~~l~k~ggmitL~Dvy~~~NR 308 (314)
.++|+..|..+|+.. ++.+ ++...+...=....|.|+..|...++-+
T Consensus 7 ~~~~~~~l~~~g~~~-~s~~------------e~~~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 7 REEFRRALSKLGIKD-LSEE------------EVDRLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp HHHHHHHHHHTTSSS-SCHH------------HHHHHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCCC-CCHH------------HHHHHHHhcccCCCCCCCHHHHHHHHHh
Confidence 457999998888853 2221 2222222222346799999998877643
No 49
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=23.87 E-value=3e+02 Score=20.19 Aligned_cols=48 Identities=23% Similarity=0.265 Sum_probs=31.4
Q ss_pred hhHHH---hchHHHHHHhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHh
Q 021304 184 VGGLL---RKEQEMWESTDRSLQEAFQDLNALMNKAKE-MVMLAEKMRQKLL 231 (314)
Q Consensus 184 I~gie---r~~e~~~~~~~~~l~~Af~DL~~LM~~Ake-mv~La~~~~~k~~ 231 (314)
+.||+ ++..+.++.--....+.-++++.+...+++ +-.-++.+...++
T Consensus 14 ~~glL~aP~sG~e~R~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~ 65 (74)
T PF12732_consen 14 AAGLLFAPKSGKETREKLKDKAEDLKDKAKDLYEEAKEKVKEKAEETADEAK 65 (74)
T ss_pred HHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666 567777777667777777777777777777 5555555544443
No 50
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=23.50 E-value=3.9e+02 Score=21.35 Aligned_cols=32 Identities=22% Similarity=0.382 Sum_probs=25.5
Q ss_pred HHHHhhHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 021304 194 MWESTDRSLQEAFQDLN-ALMNKAKEMVMLAEK 225 (314)
Q Consensus 194 ~~~~~~~~l~~Af~DL~-~LM~~Akemv~La~~ 225 (314)
...+.-..+..=++||. +|+.-|..||+-+++
T Consensus 12 ~ae~~~~~ie~ElEeLTasLFeEAN~MVa~ar~ 44 (100)
T PF06428_consen 12 EAEQEKEQIESELEELTASLFEEANKMVADARR 44 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445577888899997 488999999999984
No 51
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=22.85 E-value=3.2e+02 Score=23.25 Aligned_cols=53 Identities=15% Similarity=0.191 Sum_probs=41.5
Q ss_pred cccchhHHHhchHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhc
Q 021304 180 RMVGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKEMVMLA-EKMRQKLLA 232 (314)
Q Consensus 180 ~~~GI~gier~~e~~~~~~~~~l~~Af~DL~~LM~~Akemv~La-~~~~~k~~~ 232 (314)
.+.||+|++-+.+....+.=..|.+.|.|+++.=..|.++|... ..++.+...
T Consensus 19 TgC~i~~~L~k~~~~v~~~i~~L~~~L~~~~n~t~~~~~~v~~i~~~~~~~q~~ 72 (146)
T PF08702_consen 19 TGCGIQDFLDKYERDVDKDIQELENLLDQISNSTSEAFEYVKNIKDSLRPRQKQ 72 (146)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcchHHHHHHHHccchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccccc
Confidence 57999999999998888888888889999999999999866554 445555543
No 52
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=22.56 E-value=1.7e+02 Score=18.72 Aligned_cols=15 Identities=40% Similarity=0.875 Sum_probs=13.1
Q ss_pred HHHHHHHHhcCCCCC
Q 021304 250 EEMQDWLLSVGIVSP 264 (314)
Q Consensus 250 ~~~~s~l~slGi~~p 264 (314)
++++++|.+-||..|
T Consensus 7 ~~L~~wL~~~gi~~~ 21 (38)
T PF10281_consen 7 SDLKSWLKSHGIPVP 21 (38)
T ss_pred HHHHHHHHHcCCCCC
Confidence 579999999999765
No 53
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=21.88 E-value=2.8e+02 Score=19.09 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=31.4
Q ss_pred cHHHHHHHHHhcCCCCCcccccchhhhHHHHHHHHHHHhhhhhhc-cCceeehhHHHHHH
Q 021304 248 SKEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKIPLER-AGGMINLIDVYCLF 306 (314)
Q Consensus 248 ~~~~~~s~l~slGi~~pvt~d~~~~~y~~eLArela~~l~~~l~k-~ggmitL~Dvy~~~ 306 (314)
+.++++.++..+|...+ ++..++..+.+...+.. ..|.|+..|...+|
T Consensus 18 ~~~el~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~D~d~dG~i~~~Ef~~~~ 66 (66)
T PF13499_consen 18 SKEELRRALKHLGRDMS-----------DEESDEMIDQIFREFDTDGDGRISFDEFLNFM 66 (66)
T ss_dssp EHHHHHHHHHHTTSHST-----------HHHHHHHHHHHHHHHTTTSSSSEEHHHHHHHH
T ss_pred CHHHHHHHHHHhccccc-----------HHHHHHHHHHHHHHhCCCCcCCCcHHHHhccC
Confidence 35679999988887432 44455554444444443 66899999987664
No 54
>PF07933 DUF1681: Protein of unknown function (DUF1681); InterPro: IPR012466 NECAP 1 localises to clathrin-coated pits and direct binding to the globular ear domain of the alpha-adaptin subunit (alpha-ear) of the adaptor protein 2 (AP-2) complex. This interaction is mediated by a specific motif, WVQF, that uses a distinct alpha-ear interface relative to known alpha-ear-binding partners. Disruption of this interaction blocks clathrin-mediated endocytosis [].; GO: 0006897 endocytosis, 0016020 membrane; PDB: 1TQZ_A.
Probab=21.77 E-value=4.1e+02 Score=23.14 Aligned_cols=110 Identities=13% Similarity=0.097 Sum_probs=47.9
Q ss_pred ceEEEeecceeeeeCCCCCC-------C---CCCCcceEEEEeec------ceEEeeCCCCCceEEEecCceeeecccCC
Q 021304 24 EVECNLLSNVDIEHDQDDAV-------S---FPPLKSGHFILTTH------RLLFLSSSCSSTAVAIPLSAITHIFSSKR 87 (314)
Q Consensus 24 E~~l~~~~~V~Ly~g~~k~~-------~---~~~~q~G~l~LTsh------RIi~~d~~~~~~s~~lpL~~i~~~~~~~~ 87 (314)
|.+|++.+.|-+|.=.+.+- . -.+.-.|+|-+++. .|..-|.+.+.--..+|+..-..++..--
T Consensus 3 e~vL~~~~ev~VY~IPP~~s~~GyrAadW~~~~~iwtGrlrV~~~g~~~~v~i~leD~~tgeLFA~~P~~~~~~VE~v~D 82 (160)
T PF07933_consen 3 ERVLFVIPEVHVYKIPPRTSNKGYRAADWTLDKPIWTGRLRVVEKGDKCKVDIRLEDPSTGELFAQCPYDDYAAVEPVID 82 (160)
T ss_dssp S---B--SSEEEEE--S--SSSS--HHHH--SSS-EEEEEEEE--SSSE--EEEEE-SS--SS-EEEEE-SS--EEE-TT
T ss_pred eEEEEEcCcEEEEECCCCCCCCCeecccCCCCCceeeeEEEEEEcCCeeEEEEEecCCCCcceEEECcccCCCceEEeec
Confidence 67778888888885322100 0 02244677666643 22222333333333577765433332222
Q ss_pred ccccccCCCceeeeeecCCCCCCCCCCCCCcCCCCccEEEEEEecCCChHhHHHHHHHHHhhcccc
Q 021304 88 SLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRAWA 153 (314)
Q Consensus 88 ~lr~~~~s~ki~~~l~~~p~~~~~d~~p~~~~~s~~~~iklSFr~~G~~~~F~~~L~~aL~~k~W~ 153 (314)
+|..-.+.+.-+ +| +..||=+-|+..++.-+|-.+|++..+...++
T Consensus 83 ------SSRYFvlRv~d~-~G-------------r~AfiGiGF~eRsdAFDF~vaLqd~~k~~~~~ 128 (160)
T PF07933_consen 83 ------SSRYFVLRVQDP-SG-------------RHAFIGIGFRERSDAFDFNVALQDHRKYLKRE 128 (160)
T ss_dssp --------S-EEEEEEET-TT-------------EEEEEEEE-S-HHHHHHHHHHHHHHHS-SS--
T ss_pred ------ccceEEEEEEcC-CC-------------cEEEEEEeeccccccccHHHHHHHHHHHhhch
Confidence 122233445443 22 36899999999888888899999987644333
No 55
>TIGR01639 P_fal_TIGR01639 Plasmodium falciparum uncharacterized domain TIGR01639. This model represents a conserved sequence region of about 60 amino acids found in over 40 predicted proteins of Plasmodium falciparum. It is not found elsewhere, including closely related species such as Plasmodium yoelii. No member of this family is characterized.
Probab=21.13 E-value=77 Score=22.81 Aligned_cols=24 Identities=17% Similarity=0.302 Sum_probs=19.0
Q ss_pred hhhccCceeehhHHHHHHhhccCC
Q 021304 289 PLERAGGMINLIDVYCLFNRARGT 312 (314)
Q Consensus 289 ~l~k~ggmitL~Dvy~~~NRARG~ 312 (314)
.+..-+++++--|+|-+||-++|.
T Consensus 18 ~i~~L~~~~~~~dm~~IW~~v~~~ 41 (61)
T TIGR01639 18 LINSLDEIPNRNDMLIIWNQVHGI 41 (61)
T ss_pred HHHhhcCCCCHHHHHHHHHHHHHH
Confidence 344567889999999999988774
No 56
>PF12186 AcylCoA_dehyd_C: Acyl-CoA dehydrogenase C terminal; InterPro: IPR020964 This entry represents the C-terminal alpha helical domain of some bacterial Acyl-CoA dehydrogenases. It is found in association with PF02770 from PFAM, PF00441 from PFAM, PF02771 from PFAM. There is a conserved ARRL sequence motif. ; PDB: 2OKU_A.
Probab=20.39 E-value=2.8e+02 Score=22.84 Aligned_cols=26 Identities=23% Similarity=0.263 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Q 021304 208 DLNALMNKAKEMVMLAEKMRQKLLAG 233 (314)
Q Consensus 208 DL~~LM~~Akemv~La~~~~~k~~~~ 233 (314)
+|+.|+.+.++|+.+++..-+++++.
T Consensus 20 el~~l~~rl~~m~~~yeeav~~Vke~ 45 (114)
T PF12186_consen 20 ELQPLKERLKKMTEKYEEAVAKVKEA 45 (114)
T ss_dssp GGHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 68899999999999999998888864
Done!