Query 017530
Match_columns 370
No_of_seqs 167 out of 248
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 09:24:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017530.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017530hhsearch_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 8.6E-79 1.9E-83 593.6 29.1 339 7-359 2-371 (432)
2 PF04157 EAP30: EAP30/Vps36 fa 100.0 1.4E-42 3E-47 325.2 15.0 175 182-365 1-183 (223)
3 PF11605 Vps36_ESCRT-II: Vacuo 99.9 8E-26 1.7E-30 183.4 8.2 87 11-103 1-88 (89)
4 KOG3341 RNA polymerase II tran 99.9 1.6E-20 3.4E-25 171.8 17.5 173 180-367 3-187 (249)
5 KOG3294 WW domain binding prot 99.8 3.8E-18 8.3E-23 158.4 11.3 126 11-151 6-136 (261)
6 PF14470 bPH_3: Bacterial PH d 96.8 0.0081 1.8E-07 48.1 8.7 93 20-144 1-95 (96)
7 PF02893 GRAM: GRAM domain; I 96.8 0.0017 3.7E-08 49.5 4.4 58 20-85 9-68 (69)
8 smart00683 DM16 Repeats in sea 96.7 0.0076 1.7E-07 44.8 6.6 53 24-83 1-53 (55)
9 smart00568 GRAM domain in gluc 96.5 0.0076 1.7E-07 44.8 5.9 55 21-84 3-59 (61)
10 PF08000 bPH_1: Bacterial PH d 96.1 0.022 4.8E-07 49.2 7.3 101 11-146 18-122 (124)
11 PF10349 WWbp: WW-domain ligan 95.5 0.02 4.2E-07 48.9 4.3 25 123-148 8-32 (116)
12 PF08567 TFIIH_BTF_p62_N: TFII 95.4 0.055 1.2E-06 43.1 6.3 53 48-106 11-66 (79)
13 PF07289 DUF1448: Protein of u 95.1 0.14 3.1E-06 51.1 9.6 66 12-84 143-208 (339)
14 PF07289 DUF1448: Protein of u 94.1 0.11 2.3E-06 52.0 6.1 64 15-85 14-77 (339)
15 PF03517 Voldacs: Regulator of 85.0 0.97 2.1E-05 39.4 3.4 52 51-103 1-52 (135)
16 PF04283 CheF-arch: Chemotaxis 80.9 16 0.00035 34.6 10.2 102 24-151 9-111 (221)
17 KOG4471 Phosphatidylinositol 3 69.8 15 0.00033 39.6 7.4 58 20-87 36-94 (717)
18 cd08767 Cdt1_c The C-terminal 68.6 43 0.00093 28.8 8.8 81 276-361 44-125 (126)
19 PF10108 DNA_pol_B_exo2: Predi 67.7 9.9 0.00021 35.8 5.0 69 251-329 118-190 (209)
20 KOG4347 GTPase-activating prot 66.8 4.5 9.7E-05 43.8 2.8 41 46-86 36-76 (671)
21 KOG1528 Salt-sensitive 3'-phos 64.2 19 0.00041 35.8 6.3 108 209-331 3-127 (351)
22 PF12068 DUF3548: Domain of un 62.4 15 0.00033 34.7 5.2 58 68-147 110-167 (213)
23 KOG3238 Chloride ion current i 60.1 11 0.00024 35.2 3.7 50 24-80 14-64 (216)
24 KOG2074 RNA polymerase II tran 54.9 18 0.00039 38.3 4.6 78 46-149 17-94 (548)
25 PF05597 Phasin: Poly(hydroxya 50.5 1E+02 0.0022 26.9 8.1 75 182-263 25-107 (132)
26 PRK05773 3,4-dihydroxy-2-butan 47.8 24 0.00052 33.5 4.0 69 256-325 142-218 (219)
27 PF13559 DUF4129: Domain of un 47.0 31 0.00068 25.5 3.9 33 298-330 39-72 (72)
28 PF02174 IRS: PTB domain (IRS- 46.6 1.5E+02 0.0033 24.2 8.2 78 48-150 21-98 (100)
29 smart00310 PTBI Phosphotyrosin 45.6 1.8E+02 0.0038 24.2 9.1 78 48-150 19-96 (98)
30 KOG1090 Predicted dual-specifi 43.4 18 0.0004 41.3 2.7 67 15-81 783-861 (1732)
31 smart00540 LEM in nuclear memb 41.9 48 0.001 23.6 3.8 34 248-282 7-41 (44)
32 cd06592 GH31_glucosidase_KIAA1 38.5 37 0.00081 33.3 3.9 65 302-368 16-86 (303)
33 cd01244 PH_RasGAP_CG9209 RAS_G 38.0 55 0.0012 26.9 4.2 42 46-87 19-60 (98)
34 cd00824 PTBI IRS-like phosphot 37.9 2.4E+02 0.0052 23.6 8.6 39 48-86 20-58 (104)
35 PHA03247 large tegument protei 34.6 4.2E+02 0.0091 34.2 12.0 35 296-330 1724-1758(3151)
36 PF00392 GntR: Bacterial regul 34.6 1.8E+02 0.0039 21.3 6.3 51 275-332 2-53 (64)
37 PF00638 Ran_BP1: RanBP1 domai 34.3 2.4E+02 0.0053 23.3 7.8 108 22-148 7-121 (122)
38 COG1574 Predicted metal-depend 32.3 39 0.00085 36.2 3.1 70 299-370 302-393 (535)
39 TIGR01639 P_fal_TIGR01639 Plas 31.2 31 0.00066 26.0 1.5 38 276-313 4-42 (61)
40 cd01019 ZnuA Zinc binding prot 31.1 2.9E+02 0.0063 26.7 8.8 44 293-336 179-233 (286)
41 PF03460 NIR_SIR_ferr: Nitrite 30.9 94 0.002 23.1 4.2 49 314-363 20-68 (69)
42 PF04837 MbeB_N: MbeB-like, N- 30.7 97 0.0021 22.9 4.0 31 186-216 10-40 (52)
43 TIGR01361 DAHP_synth_Bsub phos 30.3 2.3E+02 0.005 27.3 7.8 56 205-262 34-91 (260)
44 PF00611 FCH: Fes/CIP4, and EF 29.6 2.6E+02 0.0056 21.4 8.0 50 182-232 9-59 (91)
45 PRK02083 imidazole glycerol ph 28.4 1.8E+02 0.004 27.4 6.7 83 250-335 156-252 (253)
46 cd00835 RanBD Ran-binding doma 28.0 3.6E+02 0.0078 22.6 10.1 109 21-147 7-121 (122)
47 PF14593 PH_3: PH domain; PDB: 27.8 2.4E+02 0.0052 23.6 6.5 37 48-84 27-64 (104)
48 PF08512 Rtt106: Histone chape 27.6 85 0.0018 25.5 3.7 36 48-86 10-45 (95)
49 PF08221 HTH_9: RNA polymerase 27.3 1.9E+02 0.0042 21.5 5.3 49 272-332 8-56 (62)
50 smart00160 RanBD Ran-binding d 26.9 4E+02 0.0088 22.8 9.5 48 22-70 17-71 (130)
51 KOG1043 Ca2+-binding transmemb 26.7 6.3E+02 0.014 27.1 10.7 79 248-331 294-378 (499)
52 PF07131 DUF1382: Protein of u 26.5 36 0.00079 25.8 1.2 43 316-367 5-54 (61)
53 KOG3284 Vacuolar sorting prote 26.4 66 0.0014 30.0 3.1 32 298-329 26-63 (213)
54 PF13833 EF-hand_8: EF-hand do 26.2 1.8E+02 0.004 20.1 4.9 37 294-331 2-38 (54)
55 PF09079 Cdc6_C: CDC6, C termi 24.9 3.3E+02 0.0071 21.1 8.0 61 295-356 14-81 (85)
56 TIGR00066 g_glut_trans gamma-g 24.8 42 0.00091 35.6 1.8 56 273-332 194-265 (516)
57 PF00957 Synaptobrevin: Synapt 24.7 3.1E+02 0.0068 21.5 6.5 44 188-231 9-55 (89)
58 PF13499 EF-hand_7: EF-hand do 24.7 2.6E+02 0.0057 20.0 5.7 48 248-306 18-66 (66)
59 COG0325 Predicted enzyme with 24.5 1.3E+02 0.0028 28.8 4.8 45 315-366 137-182 (228)
60 KOG2059 Ras GTPase-activating 24.1 65 0.0014 35.6 3.0 43 45-87 583-626 (800)
61 TIGR00762 DegV EDD domain prot 23.4 1.6E+02 0.0034 28.4 5.3 47 297-343 41-90 (275)
62 KOG2760 Vacuolar sorting prote 23.2 71 0.0015 33.0 2.9 41 5-45 22-64 (432)
63 COG3167 PilO Tfp pilus assembl 23.1 4.9E+02 0.011 24.5 8.1 43 257-302 110-169 (211)
64 PHA02102 hypothetical protein 22.6 1.5E+02 0.0032 22.9 3.8 21 208-228 3-23 (72)
65 PF01922 SRP19: SRP19 protein; 22.5 1.3E+02 0.0028 24.6 3.9 37 311-350 25-70 (95)
66 PLN02677 mevalonate kinase 22.5 8.5E+02 0.018 25.0 12.6 77 251-346 302-382 (387)
67 TIGR00735 hisF imidazoleglycer 21.8 2.4E+02 0.0051 26.8 6.1 81 251-334 159-253 (254)
68 PF03703 bPH_2: Bacterial PH d 21.2 1.3E+02 0.0029 22.3 3.6 51 53-103 6-56 (80)
69 PF01475 FUR: Ferric uptake re 20.8 1.7E+02 0.0038 24.1 4.5 57 290-349 17-73 (120)
70 PRK13670 hypothetical protein; 20.4 1.4E+02 0.003 30.7 4.5 69 271-342 16-103 (388)
No 1
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=8.6e-79 Score=593.55 Aligned_cols=339 Identities=37% Similarity=0.592 Sum_probs=289.8
Q ss_pred CCcccccCCCCceeeCCceEEEEecceEEeeCCCCC---------------------CCCCCCCceEEEEeeceeEEe--
Q 017530 7 FLPASVTSSGRPVLVPNEVECNLLSNVDIEHDQDDA---------------------VSFPPLKSGHFILTTHRLLFL-- 63 (370)
Q Consensus 7 ~~~~~lT~sgrpvL~~~E~~l~~~~~V~Ly~g~~~~---------------------~~~~~~~~G~l~LTTHRIiw~-- 63 (370)
|.-+++|++|.|+|.|+|..+++++.|.+|+|+++. .+++.|++|.++|||||+||.
T Consensus 2 ~fy~ett~s~~~~~~~~e~~~~~~q~~~~~fg~~~~~~~~ne~l~lt~~~I~~~D~~~k~~~~~dg~~vltt~Rliw~~p 81 (432)
T KOG2760|consen 2 WFYVETTSSGQPLLSPGEEDIFIDQSVMLRFGWSKILRSQNETLLLTSQRIIIYDGDKKTTKFDDGTLVLTTHRLIWRSP 81 (432)
T ss_pred ceEEEecCCCCCCCCCcccceeeecccchhcccchhhhccCceEEEeecceEEecCCCccccccchhhhhhhceeeecCc
Confidence 445677777777777766666665555444444221 136899999999999999999
Q ss_pred -eCCCCCceEEeeccceeeecccCCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHH
Q 017530 64 -SSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSK 142 (370)
Q Consensus 64 -d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~ 142 (370)
+..+...+.+||++.|++++.+..+-..+.+.++|..++++|+.+ ..|||...+.+.+|+||||++|+ .+||.+
T Consensus 82 ~~~~~~~~~~~~pls~vI~v~~~~~~~~~~g~~~~i~~~~~~~~~~----~~~gp~~a~~~~~iqLsFR~~g~-~~F~~~ 156 (432)
T KOG2760|consen 82 TSSADVEVTWVCPLSMVINVGEPAKSELTFGKINRIVVILHKPNPR----FSPGPCPASTFAFIQLSFRGSGS-VDFLEA 156 (432)
T ss_pred ccccccceeeeeceeEEEEecCccchhhcccccceEEEEeCCCCCc----CCCCCcccceeeEEEEEecCCCc-HHHHHH
Confidence 455677789999999999999888766678999999999877653 47888888999999999996665 889999
Q ss_pred HHHHHhhcccccccCCCCC----CCCCccccccccCCCCcccccchhhhhccHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 017530 143 MWECWRGRAWAWETTPSET----GPASASASASLYASDGSVRMVGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKE 218 (370)
Q Consensus 143 L~~aL~~k~W~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~GI~gi~r~~~~~~~~~~~~l~~af~DL~~LM~~Ake 218 (370)
|++.+.++.|+. ...+. ...++++.+..++..++.|++||+||+|+.++|+++||.+|++||+||++||++|||
T Consensus 157 l~ee~~~r~we~--~~~s~s~~~~r~s~~~~e~~~~~~~t~r~vGI~giEr~~e~q~~~td~~i~~AFqDLskLMs~Ake 234 (432)
T KOG2760|consen 157 LLEEKNKRIWER--NSVSESGVDMRKSSPSHEYEVPFIGTLRMVGISGIERSLEEQLKKTDKTINNAFQDLSKLMSLAKE 234 (432)
T ss_pred HHHHHHHHHHHh--ccccccccccccCcccccccccccceeeeechhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHH
Confidence 999999999994 33221 112222223345566778899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCCcccccccHHHHHHHHHhcCCcCccccCcch---hhhHHHHHHHHHHHhhchhcccCc
Q 017530 219 MVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGIVSPVTKESAG---ALYHQQLSRQLADFVKIPLERAGG 295 (370)
Q Consensus 219 mv~la~~~~~ki~~~~~~~~~~~~de~~~~~~~~~s~l~slGi~~pvt~~~~~---~~y~~eLarqlae~l~~~l~k~gG 295 (370)
||.||+++++|+++. ++.+++||++ .|.+++++|||.+|||++.++ +.||+|||+||+||+..+++++||
T Consensus 235 mv~Lsk~~~~Km~~~---~g~i~dDetv----~~ks~llsLGI~dpvt~~n~~~s~~~Y~~~Lakqlse~l~~~lee~gg 307 (432)
T KOG2760|consen 235 MVSLSKSIAEKMKSK---TGEIQDDETV----RFKSYLLSLGILDPVTKDNFGLSLSLYHQELAKQLSEFLRLPLEENGG 307 (432)
T ss_pred HHHHHHHHHHHHHhh---cCCcCchhhh----hhHHhhhhhccCCcchhccccchHHHHHHHHHHHHHHHHhcchhhcCC
Confidence 999999999999976 5677899987 789999999999999999875 999999999999999999999999
Q ss_pred eeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCCCeEEEEeCCceEEEEcCCCChhHHHHH
Q 017530 296 MINLIDVYCLFNRARGTALISPDDLSQACSLWEKFDVPVMLRKFDSGVMAIQSKSHSDEESMME 359 (370)
Q Consensus 296 mitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG~~Vvq~~~~sde~~~~~ 359 (370)
||||+|+||+||||||++||||+||.+||++|+++++|++||+|+||++|||.++|+|+++|..
T Consensus 308 misLtdvY~~~NRaRG~eLiSPedl~~ACe~le~l~~pl~L~kf~SGvlvvqlKs~~~~e~l~~ 371 (432)
T KOG2760|consen 308 MISLTDVYCRYNRARGTELISPEDLVNACELLEHLGVPLRLRKFNSGVLVVQLKSHSDEEKLVD 371 (432)
T ss_pred EEEHHHHHHHHHHhccCCCCCHHHHHHHHHHHHhcCCceEEEEcCCceEEEEeeccchHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999443
No 2
>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=100.00 E-value=1.4e-42 Score=325.23 Aligned_cols=175 Identities=35% Similarity=0.547 Sum_probs=138.5
Q ss_pred cchhhhhccHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccccccHHHHHHHHHhcCC
Q 017530 182 VGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGI 261 (370)
Q Consensus 182 ~GI~gi~r~~~~~~~~~~~~l~~af~DL~~LM~~Akemv~la~~~~~ki~~~~~~~~~~~~de~~~~~~~~~s~l~slGi 261 (370)
+||+||+|+.++++++++..++.||+||++||.+|++|++++++|++|.++.... + ..++.+|++||.++|+
T Consensus 1 ~GI~~l~~~~~~~~~~~~~~~~~a~~dl~~L~~qa~~~~~~l~~fa~k~~~~i~~------~--~~~r~~f~~~~~~lGv 72 (223)
T PF04157_consen 1 VGIAGLQRRQEQKRQYNELGMQLAFQDLEALMSQAKDFVELLENFARKHKSEIKS------D--PEFRSQFQSMCASLGV 72 (223)
T ss_dssp --------------------TCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC------S--HHHHHHHHHHHHHHT-
T ss_pred CchHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccC------C--chHHHHHHHHHHHcCC
Confidence 5999999999999999999999999999999999999999999999999876422 1 1156799999999999
Q ss_pred cCccccC------cchhhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHhh-cCCCCCHHHHHHHHHhhhhcCCCe
Q 017530 262 VSPVTKE------SAGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRAR-GTALISPDDLSQACSLWEKFDVPV 334 (370)
Q Consensus 262 ~~pvt~~------~~~~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRaR-G~eLvSP~Dl~~Ac~~~~~l~lp~ 334 (370)
++|++++ ..+++||+|||+||+|||...++++||||+|.||||+|||+| |++||||+||++||++|+.|++|+
T Consensus 73 dp~~s~~~~s~~l~~~~~f~~ELa~qi~e~c~~~~~~~GGii~L~dl~~~~nr~R~g~~lISp~Di~~A~~~l~~lg~g~ 152 (223)
T PF04157_consen 73 DPLASSKFWSESLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSDLYCRYNRARGGSELISPEDILRACKLLEVLGLGF 152 (223)
T ss_dssp -CHCCTTCCCCCCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHHHHHHHHHCTTTSST--HHHHHHHHHHHCCCTSSE
T ss_pred CcccchhhhhhccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHHHHHHHHHhcccCCCcCHHHHHHHHHHHHHcCCCe
Confidence 9999888 467999999999999999999999999999999999999999 999999999999999999999999
Q ss_pred EEEEeCCceEEEEcCCCChh-HHHHHHHhhhh
Q 017530 335 MLRKFDSGVMAIQSKSHSDE-ESMMERIRFLG 365 (370)
Q Consensus 335 ~lr~f~SG~~Vvq~~~~sde-~~~~~r~~~l~ 365 (370)
++++|+||++|||++++++. .+ ..+|.+++
T Consensus 153 ~l~~~~sg~~vv~s~~~~e~~~~-~~~il~~~ 183 (223)
T PF04157_consen 153 RLRKFGSGVKVVQSVPYSELSKD-QSRILELA 183 (223)
T ss_dssp EEEEETTTEEEEECST-CHH-HH-HHHHHHHH
T ss_pred EEEEeCCCcEEEEeCCchhhhHH-HHHHHHHH
Confidence 99999999999999998887 66 88888876
No 3
>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=99.93 E-value=8e-26 Score=183.40 Aligned_cols=87 Identities=36% Similarity=0.549 Sum_probs=68.2
Q ss_pred cccCCCCceeeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCC-ceEEeeccceeeecccCCCc
Q 017530 11 SVTSSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSS-TAVAIPLSAITHIFSSKRSL 89 (370)
Q Consensus 11 ~lT~sgrpvL~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~-~slslpL~~V~~~~~~~~~~ 89 (370)
++|++|||+|.+||++|+.++||+||+|++| .++|++|++|||||||||+|+.+.. .+++|||+.|.+++...++
T Consensus 1 e~t~s~~p~L~~~E~~~~~q~~V~LYdG~~K---~~~~q~G~l~LTsHRliw~d~~~~~~~s~~l~L~~i~~~e~~~gf- 76 (89)
T PF11605_consen 1 ELTSSGRPVLEPNETIVYQQDGVGLYDGDQK---TPNFQNGRLYLTSHRLIWVDDSDPSKHSIALPLSLISHIEYSAGF- 76 (89)
T ss_dssp -B-TCS-C---TT--EEEEEEEEEEEETTEC---STT-SCEEEEEESSEEEEEESSGHCHH-EEEEGGGEEEEEEE-ST-
T ss_pred CcccccCcccCCCceEEEEecCeeeEcCCcc---CccccCCEEEEEeeEEEEEcCCCCceeEEEEEchHeEEEEEEccc-
Confidence 5899999999999999999999999999996 6799999999999999999998744 4899999999999887776
Q ss_pred ccccCCCceeeeec
Q 017530 90 KSVFHSPRFRFQVS 103 (370)
Q Consensus 90 ~~~f~s~kI~~~l~ 103 (370)
+++||||++++.
T Consensus 77 --~~sSpKI~l~l~ 88 (89)
T PF11605_consen 77 --LKSSPKIILHLK 88 (89)
T ss_dssp --TSSS-EEEEEES
T ss_pred --cCCCCeEEEEec
Confidence 369999999985
No 4
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=99.86 E-value=1.6e-20 Score=171.80 Aligned_cols=173 Identities=20% Similarity=0.285 Sum_probs=148.3
Q ss_pred cccchhhhhccH-HHHHHhhhHHHHH-HHHHHHHHHHHHHH-HHHHHHHHHHHHhcCCCCCCCCCcccccccHHHHHHHH
Q 017530 180 RMVGVGGLLRKE-QEMWESTDRSLQE-AFQDLNALMNKAKE-MVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWL 256 (370)
Q Consensus 180 ~~~GI~gi~r~~-~~~~~~~~~~l~~-af~DL~~LM~~Ake-mv~la~~~~~ki~~~~~~~~~~~~de~~~~~~~~~s~l 256 (370)
|++|+++|.++. +.+-++.+..|.+ ++..+.++|+.+++ |+.+|++|+..|++++ | ++.+|+.||
T Consensus 3 rrvG~gAi~~~k~~~ky~~~g~~l~e~Ql~q~~~Ql~~f~~~LeeFA~kH~~ei~kns--q----------FR~~Fq~Mc 70 (249)
T KOG3341|consen 3 RRVGLGAIQKKKAAKKYKEVGTELAEQQLVQMSKQLEVFQEALEEFARKHKTEIRKNS--Q----------FRNQFQEMC 70 (249)
T ss_pred cchhhhHHhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCH--H----------HHHHHHHHH
Confidence 578999999877 5666678888887 99999999999999 9999999999999875 3 788999999
Q ss_pred HhcCCcCccccC-cc-----h-hhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHhhcC--CCCCHHHHHHHHHhh
Q 017530 257 LSVGIVSPVTKE-SA-----G-ALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGT--ALISPDDLSQACSLW 327 (370)
Q Consensus 257 ~slGi~~pvt~~-~~-----~-~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRaRG~--eLvSP~Dl~~Ac~~~ 327 (370)
+++|++ |+... ++ | ++||+||+.|+.|+|...-+.+||+|+|.||-.++-+.|+. +-|+-+|+++|+.+|
T Consensus 71 a~IGvD-Plas~kgfw~~~lgvgdFYYelgVqviEvC~at~~~nGGlislqel~~~l~~~R~~~~e~vt~dD~lrAi~kL 149 (249)
T KOG3341|consen 71 ASIGVD-PLASGKGFWAELLGVGDFYYELGVQVIEVCLATKHTNGGLISLQELCNHLLQRRKKDHEAVTEDDLLRAIDKL 149 (249)
T ss_pred HHcCCC-ccccCcchHHHHhhhHHHHHHHhhHHHHHHHHhhcccCCeeeHHHHHHHHHHHhcccchhccHHHHHHHHHHh
Confidence 999999 76665 33 3 89999999999999999899999999999999988888876 789999999999999
Q ss_pred hhcCCCeEEEEeCCceEEEEcCCCChhHHHHHHHhhhhcc
Q 017530 328 EKFDVPVMLRKFDSGVMAIQSKSHSDEESMMERIRFLGVI 367 (370)
Q Consensus 328 ~~l~lp~~lr~f~SG~~Vvq~~~~sde~~~~~r~~~l~~~ 367 (370)
..|+.+|.+.+.+ |.+.||+..-.-..= -.+|.+||.+
T Consensus 150 k~LG~gFev~~ig-gK~~vrSVP~ELn~D-ht~ILela~~ 187 (249)
T KOG3341|consen 150 KVLGSGFEVIKIG-GKKLVRSVPTELNMD-HTVILELAEI 187 (249)
T ss_pred hccCCCeEEEEec-CEEeeecCcchhccc-HHHHHHHHHh
Confidence 9999999999999 999999975321111 2245666554
No 5
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=99.76 E-value=3.8e-18 Score=158.37 Aligned_cols=126 Identities=20% Similarity=0.279 Sum_probs=112.2
Q ss_pred cccCCCCc-eeeCCceEEEEecceEEeeCCCCC--CCCCCCCceEEEEeeceeEEeeCC--CCCceEEeeccceeeeccc
Q 017530 11 SVTSSGRP-VLVPNEVECNLLSNVDIEHDQDDA--VSFPPLKSGHFILTTHRLLFLSSS--CSSTAVAIPLSAITHIFSS 85 (370)
Q Consensus 11 ~lT~sgrp-vL~~~E~~l~~~~~V~Ly~g~~~~--~~~~~~~~G~l~LTTHRIiw~d~~--~~~~slslpL~~V~~~~~~ 85 (370)
.+|..||+ +|.+||+++.+.|||.|.+++.+. ..+...+.|+||||+|||||+.+. +...+|.+||.++..++.+
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 57899996 566999999999999999999765 358889999999999999999764 5777999999999999999
Q ss_pred CCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHHHhhcc
Q 017530 86 KRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRA 151 (370)
Q Consensus 86 ~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~aL~~k~ 151 (370)
++ +|..+.|+..+.+.|.|+| .++..+||+|+ .||+.+|.+.+.+++.+-.
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 8999999999999999998 34688999999 7889999999999987654
No 6
>PF14470 bPH_3: Bacterial PH domain
Probab=96.85 E-value=0.0081 Score=48.09 Aligned_cols=93 Identities=20% Similarity=0.179 Sum_probs=64.8
Q ss_pred eeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCC--CCceEEeeccceeeecccCCCcccccCCCc
Q 017530 20 LVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC--SSTAVAIPLSAITHIFSSKRSLKSVFHSPR 97 (370)
Q Consensus 20 L~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~--~~~slslpL~~V~~~~~~~~~~~~~f~s~k 97 (370)
|.+||.+++...+.--+. -....|.+++|+.||++....- ....-.+|+..|.+++...+- + .++
T Consensus 1 L~~~E~I~~~~~~~~~~~--------~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~----~-~~~ 67 (96)
T PF14470_consen 1 LKEDEEIEYVAVGSYNYF--------FTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGI----L-GGK 67 (96)
T ss_pred CcCCCEEEEEEEEEEeec--------ccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccc----c-ccE
Confidence 679999999987743332 2345899999999999998752 344579999999999887663 2 244
Q ss_pred eeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHH
Q 017530 98 FRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMW 144 (370)
Q Consensus 98 I~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~ 144 (370)
|.++.. ...+++.--.+++.+.|++.++
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 655531 2456665334777777777654
No 7
>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=96.83 E-value=0.0017 Score=49.52 Aligned_cols=58 Identities=26% Similarity=0.244 Sum_probs=36.4
Q ss_pred eeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCC-CCc-eEEeeccceeeeccc
Q 017530 20 LVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC-SST-AVAIPLSAITHIFSS 85 (370)
Q Consensus 20 L~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~-~~~-slslpL~~V~~~~~~ 85 (370)
|-++|.++.. -.|.|... .....|+||||+|||||..... ... .+.|||..|..++..
T Consensus 9 lp~~E~li~~-~~c~l~~~-------~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~k~ 68 (69)
T PF02893_consen 9 LPEEERLIEE-YSCALFKS-------KIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIEKE 68 (69)
T ss_dssp --TT--EEEE-EEETTTEE----------EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEEEE
T ss_pred CCCCCeEEEE-EEEEEECC-------ccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEEEe
Confidence 3455555544 33444432 2356999999999999998543 333 799999999988653
No 8
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=96.68 E-value=0.0076 Score=44.81 Aligned_cols=53 Identities=19% Similarity=0.276 Sum_probs=43.4
Q ss_pred ceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeec
Q 017530 24 EVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIF 83 (370)
Q Consensus 24 E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~ 83 (370)
|.++...++|.=.-|+.+ +-|++++|..||||........-+++|+.+|..+.
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 667778888876666643 46999999999999988878888999999998763
No 9
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=96.53 E-value=0.0076 Score=44.78 Aligned_cols=55 Identities=25% Similarity=0.208 Sum_probs=39.0
Q ss_pred eCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCC-CCCc-eEEeeccceeeecc
Q 017530 21 VPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSS-CSST-AVAIPLSAITHIFS 84 (370)
Q Consensus 21 ~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~-~~~~-slslpL~~V~~~~~ 84 (370)
.++|.++.. -.|.|. + .....|++|+|+|+|+|.... +... .+.+||..|..++.
T Consensus 3 ~~~E~l~~~-~~C~l~----~----~~~~~G~lyiT~~~l~F~S~~~~~~~~~~~ipl~~I~~i~k 59 (61)
T smart00568 3 PEEEKLIAD-YSCYLS----R----DGPVQGRLYISNYRLCFRSDLPGKLTPKVVIPLADITRIEK 59 (61)
T ss_pred CCCcEEEEE-EEeEEC----C----CccccEEEEEECCEEEEEccCCCCeeEEEEEEHHHeeEEEE
Confidence 456665544 556665 1 124589999999999999743 3444 68999999998864
No 10
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=96.12 E-value=0.022 Score=49.21 Aligned_cols=101 Identities=17% Similarity=0.216 Sum_probs=65.4
Q ss_pred cccCCCCceeeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCC---CCce-EEeeccceeeecccC
Q 017530 11 SVTSSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC---SSTA-VAIPLSAITHIFSSK 86 (370)
Q Consensus 11 ~lT~sgrpvL~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~---~~~s-lslpL~~V~~~~~~~ 86 (370)
++...-.+.|.+||.+...-.-+ ...+.+|++|||.+|... .+.. .++|++.|.++..+.
T Consensus 18 ~~~~~~~~~L~~gE~I~~ayk~i----------------RD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siET 81 (124)
T PF08000_consen 18 DIQKEYEPLLLDGEEIEAAYKLI----------------RDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIET 81 (124)
T ss_dssp HHHHHHGGGSSTT--EEEEEEES----------------SEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEE
T ss_pred HHHHHHHHhcCCCCeeeeeehhh----------------ceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEe
Confidence 33444467788999887654332 457899999999999755 2223 499999999997766
Q ss_pred CCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHH
Q 017530 87 RSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWEC 146 (370)
Q Consensus 87 ~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~a 146 (370)
... +.....|.+.++.. ...+.+.|+++-+..++++.|.+.
T Consensus 82 AG~--~DlD~Elki~i~~~-----------------~~~i~~~f~k~~di~~i~k~L~~~ 122 (124)
T PF08000_consen 82 AGT--FDLDSELKIWISGQ-----------------GFPIEFEFKKKTDIYEIYKALAEY 122 (124)
T ss_dssp CSS--TTSEEEEEEEETTE-----------------SSEEEEEEGTTSHHHHHHHHHHHH
T ss_pred CCc--ccCcccEEEEECCC-----------------cEEEEEecCCCCCHHHHHHHHHHH
Confidence 542 33455566666522 134668898655556666666544
No 11
>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=95.47 E-value=0.02 Score=48.90 Aligned_cols=25 Identities=12% Similarity=0.049 Sum_probs=21.4
Q ss_pred ccEEEEEEecCCChhhHHHHHHHHHh
Q 017530 123 SVVITVVVRGKGDWELFLSKMWECWR 148 (370)
Q Consensus 123 ~~~ikLSFr~~G~~~~F~~~L~~aL~ 148 (370)
+..+||+|| +||+++|.++|.++-.
T Consensus 8 ~~~fKltFk-~GGAieFgq~~~~~~~ 32 (116)
T PF10349_consen 8 QAEFKLTFK-SGGAIEFGQAMLRLAE 32 (116)
T ss_pred ceEEEEEeC-CCChHHHHHHHHHHHH
Confidence 589999999 7778999999987744
No 12
>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=95.38 E-value=0.055 Score=43.09 Aligned_cols=53 Identities=26% Similarity=0.445 Sum_probs=41.1
Q ss_pred CCceEEEEeece--eEEeeCCC-CCceEEeeccceeeecccCCCcccccCCCceeeeeccCC
Q 017530 48 LKSGHFILTTHR--LLFLSSSC-SSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATP 106 (370)
Q Consensus 48 ~~~G~l~LTTHR--Iiw~d~~~-~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P 106 (370)
-++|.|+||+-| +.|.+.+. ...++++|+..|.+...... .++|+-+++-..+
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 357999999999 99998755 33369999999998866444 5888888877654
No 13
>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=95.06 E-value=0.14 Score=51.10 Aligned_cols=66 Identities=24% Similarity=0.326 Sum_probs=56.0
Q ss_pred ccCCCCceeeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeecc
Q 017530 12 VTSSGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFS 84 (370)
Q Consensus 12 lT~sgrpvL~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~ 84 (370)
+-.+|...|.|+|.++-..+||--...+++ + =|..++|++||+|....+...-++||.-.|.++..
T Consensus 143 ii~~~~L~lLp~E~v~~~~~gVwnls~dqG-----n--LGtfivTNvRiVW~A~~ne~fNVSiPylqi~~i~i 208 (339)
T PF07289_consen 143 IIRDGQLKLLPQEQVYSRVNGVWNLSSDQG-----N--LGTFIVTNVRIVWFADMNESFNVSIPYLQIKSIRI 208 (339)
T ss_pred eeeCCeEeeCCccEEeeccCCEEEcccCCC-----c--eeEEEEeeeEEEEEccCCccccccchHhhheeeee
Confidence 345899999999999999999987777764 2 29999999999999877777778999999988754
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=94.10 E-value=0.11 Score=52.03 Aligned_cols=64 Identities=22% Similarity=0.322 Sum_probs=54.2
Q ss_pred CCCceeeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeeccc
Q 017530 15 SGRPVLVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSS 85 (370)
Q Consensus 15 sgrpvL~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~ 85 (370)
+....|.+||.++-..++|+-.-|..+ +.|+|++|.-||||.....+...++|-+.+|..+...
T Consensus 14 ~~~l~lr~GE~~i~~~~~VEDtKGN~G-------~~G~l~vTNLR~iW~s~~~~r~NlSIG~~~i~~i~~~ 77 (339)
T PF07289_consen 14 ASQLKLRPGEFIIDRLDPVEDTKGNNG-------DRGRLVVTNLRLIWHSLKRPRINLSIGYNCITNISTK 77 (339)
T ss_pred hhhcccccceEEEEeeeceeeccCCCC-------CeeEEEEEeeeeEEeccCCCceeEEeeceeEEEEEEE
Confidence 344567899999999999987766643 6899999999999998888888899999999988653
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=85.01 E-value=0.97 Score=39.35 Aligned_cols=52 Identities=27% Similarity=0.427 Sum_probs=27.5
Q ss_pred eEEEEeeceeEEeeCCCCCceEEeeccceeeecccCCCcccccCCCceeeeec
Q 017530 51 GHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVS 103 (370)
Q Consensus 51 G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~ 103 (370)
|.||+|+.||+|.........++||..+|.-=-...-+- +.+..+-|-+++-
T Consensus 1 g~L~Vt~~~l~w~~~~~~~~G~~ipY~sI~lHAisr~~~-~~~~~~~lY~qld 52 (135)
T PF03517_consen 1 GTLYVTESRLIWFSNEDSSKGFSIPYPSISLHAISRDPS-GSFPEPCLYLQLD 52 (135)
T ss_dssp EEEEEETTEEEEEET--TTEEEEESS---SEEE--SS-S--S--S--EEEEEE
T ss_pred CEEEEecCEEEEECCCcCCcceeecCCeEEEEEeecCCC-CCCCCceEEEEEe
Confidence 789999999999984445566899998886322211110 1345666666663
No 16
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=80.86 E-value=16 Score=34.57 Aligned_cols=102 Identities=18% Similarity=0.209 Sum_probs=59.5
Q ss_pred ceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccCCCccc-ccCCCceeeee
Q 017530 24 EVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKS-VFHSPRFRFQV 102 (370)
Q Consensus 24 E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~-~f~s~kI~~~l 102 (370)
-+.....+++++.+ ....+|+++||..||++.-. +.+ ..+||+.|..+....+.... .+-+..+.++.
T Consensus 9 kf~~~~~~~~~~~d--------~~W~~~rIiLs~~rlvl~~~-~~k--~~Ipls~I~Di~~~~~~~~~~~~~~~~~si~~ 77 (221)
T PF04283_consen 9 KFIQVVSDGRKLPD--------GKWVKGRIILSNDRLVLAFN-DGK--ITIPLSSIEDIGVRLPPNQLLAFFSDYVSIKY 77 (221)
T ss_pred cEEEEccCCccccc--------CCcEEEEEEEecCEEEEEcC-CCe--EEEecceeEecccccCccccccccCceEEEEE
Confidence 33444455555554 44679999999999999962 222 49999999999775543211 12233333333
Q ss_pred ccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHHHhhcc
Q 017530 103 SATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRA 151 (370)
Q Consensus 103 ~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~aL~~k~ 151 (370)
..+ .+ ...+-++..+.-..+.|...|-+++-.+.
T Consensus 78 ~~~-~~--------------~~v~~i~~~~~~~~e~F~~~lf~~lL~~~ 111 (221)
T PF04283_consen 78 KSD-EG--------------ERVILISPEDSKTIEKFETKLFRALLNGK 111 (221)
T ss_pred ecC-CC--------------cEEEEEEcCCcccHHHHHHHHHHHhhCCe
Confidence 322 11 12333333311123899998988876553
No 17
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=69.83 E-value=15 Score=39.62 Aligned_cols=58 Identities=22% Similarity=0.289 Sum_probs=42.8
Q ss_pred eeCCceEEEEecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCC-CCceEEeeccceeeecccCC
Q 017530 20 LVPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSC-SSTAVAIPLSAITHIFSSKR 87 (370)
Q Consensus 20 L~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~-~~~slslpL~~V~~~~~~~~ 87 (370)
+++||.++.....| +|.+-.+|+|+||..||.+-..+. ...-+-+||..|..++.-.+
T Consensus 36 ~L~GE~i~~~~y~c----------~f~G~~~g~l~lsNyRl~fks~~t~~~~~~~VPLg~Ie~vek~~~ 94 (717)
T KOG4471|consen 36 LLPGESIIDEKYIC----------PFLGAVDGTLALSNYRLYFKSKETDPPFVLDVPLGVIERVEKRGG 94 (717)
T ss_pred ccCCcccccceecc----------cccccccceEEeeeeEEEEEeccCCCceeEeechhhhhhhhhcCc
Confidence 56777776655222 245566999999999999987654 34457999999999987654
No 18
>cd08767 Cdt1_c The C-terminal fold of replication licensing factor Cdt1 is essential for Cdt1 activity and directly interacts with MCM2-7 helicase. Cdt1 is a replication licensing factor in eukaryotes that recruits the Minichromosome Maintenance Complex (MCM2-7) to the Origin Recognition Complex (ORC). The Cdt1 protein is divided into three regions based on sequence comparison and biochemical analyses: the N-terminal region (Cdt1_n) binds DNA in a sequence-, strand-, and conformation-independent manner; the middle winged helix fold (Cdt1_m) binds geminin to inhibit both binding of the MCM complex to origins of replication and DNA; and the C-terminal region (Cdt1_c) is essential for Cdt1 activity and directly interacts with the MCM2-7 helicase. Precise duplication of chromosomal DNA is required for genomic stability during replication. Assembly of replication factors to start DNA replication in eukaryotes must occur only once per cell cycle. To form a pre-replicative complex on replicat
Probab=68.63 E-value=43 Score=28.82 Aligned_cols=81 Identities=12% Similarity=0.183 Sum_probs=61.9
Q ss_pred HHHHHHHHHHhhchhcccCceeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCCC-eEEEEeCCceEEEEcCCCChh
Q 017530 276 QQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGTALISPDDLSQACSLWEKFDVP-VMLRKFDSGVMAIQSKSHSDE 354 (370)
Q Consensus 276 ~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~lp-~~lr~f~SG~~Vvq~~~~sde 354 (370)
-+|++.|..++.. ....+||+.+|....=..- .+-+|++|+..-.++|..+-.- ++..+..+|-+|.-.++.+-+
T Consensus 44 P~la~~v~~if~s---~~k~~l~~e~l~~kl~~S~-~~~~s~~E~E~~l~LL~el~P~Wis~~~~~~~~~lk~~k~~~~~ 119 (126)
T cd08767 44 PELARILRNIFVS---EKKTVLPLEELVYKLQASY-PSILSRGEVEEHLRLLAELAPDWISEKSLRKGDYLKIDKKVDLE 119 (126)
T ss_pred HHHHHHHHHHHHh---cccccccHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhChHHheeeeeCCceEEEECccccHH
Confidence 3667777777765 5678999999987765542 4678999999999999976522 688888999999888885555
Q ss_pred HHHHHHH
Q 017530 355 ESMMERI 361 (370)
Q Consensus 355 ~~~~~r~ 361 (370)
.| .+||
T Consensus 120 ~V-~~rL 125 (126)
T cd08767 120 KV-RKRL 125 (126)
T ss_pred HH-HHHh
Confidence 55 7775
No 19
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins.
Probab=67.66 E-value=9.9 Score=35.80 Aligned_cols=69 Identities=19% Similarity=0.393 Sum_probs=54.7
Q ss_pred HHHHHHHhcCCcCccccCcch----hhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHhhcCCCCCHHHHHHHHHh
Q 017530 251 EMQDWLLSVGIVSPVTKESAG----ALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGTALISPDDLSQACSL 326 (370)
Q Consensus 251 ~~~s~l~slGi~~pvt~~~~~----~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~ 326 (370)
.+..++..+||.. .-+..| ..|++.=-.+|++||.. .+++..-||.||+.-||. +|+++....+..
T Consensus 118 sLd~la~~lgiPg--K~~idGs~V~~~y~~g~i~~I~~YCe~------DVl~T~~lylR~~~~~G~--l~~~~y~~~~~~ 187 (209)
T PF10108_consen 118 SLDELAALLGIPG--KDDIDGSQVAELYQEGDIDEIREYCEK------DVLNTYLLYLRFELLRGR--LSPEDYQAEIAQ 187 (209)
T ss_pred CHHHHHHHcCCCC--CCCCCHHHHHHHHHcCCHHHHHHHHHH------HHHHHHHHHHHHHHhhCC--CCHHHHHHHHHH
Confidence 4778899999963 223333 67777777889999974 688899999999999997 899998888877
Q ss_pred hhh
Q 017530 327 WEK 329 (370)
Q Consensus 327 ~~~ 329 (370)
+..
T Consensus 188 ~~~ 190 (209)
T PF10108_consen 188 LRD 190 (209)
T ss_pred HHH
Confidence 664
No 20
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=66.84 E-value=4.5 Score=43.75 Aligned_cols=41 Identities=20% Similarity=0.212 Sum_probs=36.1
Q ss_pred CCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccC
Q 017530 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (370)
Q Consensus 46 ~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~ 86 (370)
+-+..|++|+++|+|||.......+++.+||..|..++...
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 34579999999999999988888889999999999997655
No 21
>KOG1528 consensus Salt-sensitive 3'-phosphoadenosine-5'-phosphatase HAL2/SAL1 [Nucleotide transport and metabolism; Inorganic ion transport and metabolism]
Probab=64.19 E-value=19 Score=35.83 Aligned_cols=108 Identities=25% Similarity=0.215 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccccccHHHHHHHHHhcCCcCccccCcchh--hhHHHHHHHHHHHh
Q 017530 209 LNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLLSVGIVSPVTKESAGA--LYHQQLSRQLADFV 286 (370)
Q Consensus 209 L~~LM~~Akemv~la~~~~~ki~~~~~~~~~~~~de~~~~~~~~~s~l~slGi~~pvt~~~~~~--~y~~eLarqlae~l 286 (370)
+++-..-|+.-|.+|.++.+++++.--.. ++.+ .+-.=.+|||...+|. .---.|.+++-.-=
T Consensus 3 yekEl~~A~~AV~lAsrL~~~Vq~~L~~~-----~~~v----------~~K~D~SPVTvaDyG~QAiVs~vL~~~f~~~p 67 (351)
T KOG1528|consen 3 YEKELDAAKKAVRLASRLCVKVQKSLLSS-----KEKV----------WSKSDKSPVTVADYGSQAIVSLVLEREFPDDP 67 (351)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----ccce----------eccCCCCCcchhhhhHHHHHHHHHHHHcCCCC
Confidence 34556779999999999998887642110 0000 0001126888854442 22223333322111
Q ss_pred --------hchhcccCceeehHHHHHHHHHhh------cC-CCCCHHHHHHHHHhhhhcC
Q 017530 287 --------KIPLERAGGMINLIDVYCLFNRAR------GT-ALISPDDLSQACSLWEKFD 331 (370)
Q Consensus 287 --------~~~l~k~gGmitL~dl~~~~NRaR------G~-eLvSP~Dl~~Ac~~~~~l~ 331 (370)
...|.+++.-=.|.+++.+||.+- |. ..+|-+|+++|+..=..-+
T Consensus 68 ~slVaEEds~~Lr~n~~~~~l~~i~~lvnetl~s~~sy~~~~~ls~~dvl~aID~G~s~G 127 (351)
T KOG1528|consen 68 LSLVAEEDSGFLRKNGSEGLLSRITKLVNETLASDESYGDNSPLSSDDVLKAIDRGNSEG 127 (351)
T ss_pred cceEeeccchhhhhhhhHHHHHHHHHHHHHHhhhhhhccCCCCCCHHHHHHHHhcccccC
Confidence 112445655567899999999963 55 8899999999998776654
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=62.36 E-value=15 Score=34.66 Aligned_cols=58 Identities=26% Similarity=0.218 Sum_probs=41.8
Q ss_pred CCceEEeeccceeeecccCCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHHH
Q 017530 68 SSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECW 147 (370)
Q Consensus 68 ~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~aL 147 (370)
+..+|++||+.+.++....+++ +-+.|++.+. ++..+.-|-|+ .||+.+|...|++.+
T Consensus 110 ~~~aFsv~lsdl~Si~~~~p~~----G~~~lv~~~k-----------------dG~~~p~L~Fh-~gg~~~fl~~L~~~v 167 (213)
T PF12068_consen 110 SSYAFSVPLSDLKSIRVSKPSL----GWWYLVFILK-----------------DGTSLPPLHFH-DGGSKEFLKSLQRYV 167 (213)
T ss_pred cceEEEEEhhheeeEEecCCCC----CceEEEEEec-----------------CCCccCceEEe-cCCHHHHHHHHHhhE
Confidence 4557899999999998877753 3456776654 12356678999 666788888777765
No 23
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=60.08 E-value=11 Score=35.19 Aligned_cols=50 Identities=16% Similarity=0.226 Sum_probs=32.3
Q ss_pred ceEEE-EecceEEeeCCCCCCCCCCCCceEEEEeeceeEEeeCCCCCceEEeecccee
Q 017530 24 EVECN-LLSNVDIEHDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAIT 80 (370)
Q Consensus 24 E~~l~-~~~~V~Ly~g~~~~~~~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~ 80 (370)
|-++. .+.++....+. +-...|+||+|.-+|+|.+ .+...-|++.+-.|+
T Consensus 14 eg~l~~~t~n~~a~ln~------kvlg~GTlYIa~s~LsWl~-~~~akGfSvey~~Is 64 (216)
T KOG3238|consen 14 EGLLYTQTPNTKAVLNR------KVLGTGTLYIAESTLSWLS-TSGAKGFSVEYPTIS 64 (216)
T ss_pred cchhhccccchheeecC------cccccceEEEecceEEeee-cccccceeeecceeE
Confidence 33444 24466666544 4577999999999999998 443334555555554
No 24
>KOG2074 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB1 [Transcription; Replication, recombination and repair]
Probab=54.94 E-value=18 Score=38.26 Aligned_cols=78 Identities=12% Similarity=0.153 Sum_probs=51.3
Q ss_pred CCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccCCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccE
Q 017530 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVV 125 (370)
Q Consensus 46 ~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ 125 (370)
+.-++|.+||++-||+|.+.+....++.+-+..|-+...... +..+|-+++-.+. ...
T Consensus 17 ~k~~dg~l~l~~~~i~~~~e~k~~~s~~~~~~~I~~qk~s~e------~k~k~qlql~l~~----------------~~~ 74 (548)
T KOG2074|consen 17 QKKQDGALYLMAERIAWVPEGKSPFSLKVMFHDIKCQKESPE------GKAKIQLQLVLKQ----------------GDT 74 (548)
T ss_pred hhccCcceeeeeeEEEeccCCCCCceeEEEEeccCccccCCc------ccccHHHHhhhcc----------------Ccc
Confidence 456789999999999999977777788888888877655333 3455544443321 133
Q ss_pred EEEEEecCCChhhHHHHHHHHHhh
Q 017530 126 ITVVVRGKGDWELFLSKMWECWRG 149 (370)
Q Consensus 126 ikLSFr~~G~~~~F~~~L~~aL~~ 149 (370)
..++|.++.+ ..+.+++++.
T Consensus 75 ~~F~F~n~~~----~v~~rD~Vk~ 94 (548)
T KOG2074|consen 75 HNFSFPNEND----AVKERDAVKD 94 (548)
T ss_pred ceeecCCcch----HHHHHHHHHH
Confidence 5678885433 2455666653
No 25
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=50.52 E-value=1e+02 Score=26.92 Aligned_cols=75 Identities=13% Similarity=0.228 Sum_probs=38.3
Q ss_pred cchhhhhccHHHHHH------hhhHHHHH-HHHHHHHHHHHHHH-HHHHHHHHHHHHhcCCCCCCCCCcccccccHHHHH
Q 017530 182 VGVGGLLRKEQEMWE------STDRSLQE-AFQDLNALMNKAKE-MVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQ 253 (370)
Q Consensus 182 ~GI~gi~r~~~~~~~------~~~~~l~~-af~DL~~LM~~Ake-mv~la~~~~~ki~~~~~~~~~~~~de~~~~~~~~~ 253 (370)
+|+++.-+..++-.+ +.+..++. +=+.++..+..+++ |-..+..++.+....- +.-+-.+.+.+.
T Consensus 25 AGLGA~ak~~~EG~k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~-------dklE~~fd~rV~ 97 (132)
T PF05597_consen 25 AGLGAYAKAQEEGSKVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKERATGQW-------DKLEQAFDERVA 97 (132)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence 566666555444332 22233333 22344455555553 4455555555543321 111222456789
Q ss_pred HHHHhcCCcC
Q 017530 254 DWLLSVGIVS 263 (370)
Q Consensus 254 s~l~slGi~~ 263 (370)
..|..|||++
T Consensus 98 ~aL~rLgvPs 107 (132)
T PF05597_consen 98 RALNRLGVPS 107 (132)
T ss_pred HHHHhcCCCC
Confidence 9999999995
No 26
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=47.82 E-value=24 Score=33.48 Aligned_cols=69 Identities=14% Similarity=0.075 Sum_probs=51.7
Q ss_pred HHhcCCcCccccCcc-hhhhHHHHHHHHHHHhh-c------hhcccCceeehHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 017530 256 LLSVGIVSPVTKESA-GALYHQQLSRQLADFVK-I------PLERAGGMINLIDVYCLFNRARGTALISPDDLSQACS 325 (370)
Q Consensus 256 l~slGi~~pvt~~~~-~~~y~~eLarqlae~l~-~------~l~k~gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~ 325 (370)
+.+-|-+-|+-..+. +..=|.|+|..|++..- . .+...++|+.+.|+ -.|=+..|.-+||-+|+.++|+
T Consensus 142 f~~PGHVfpL~a~Gvl~R~GHTEasvdLa~lAGl~P~~vicEil~~~~~~~~~~~-~~fA~~~~l~~isi~dli~~~~ 218 (219)
T PRK05773 142 FYSPGHVPILIGRGIRERRGHTELSIALAQAAGLEPSAVIAEMLDEKLSLSKEKA-KKIAKNLGFPLVEGKEIFKEVV 218 (219)
T ss_pred cCCCCCcceeccCccccCCChhHHHHHHHHHcCCCccEEEEEEeCCCCCcCHHHH-HHHHHHcCCcEEEHHHHHHHhh
Confidence 355677766543322 35669999999999872 1 12335789999999 5788888999999999999996
No 27
>PF13559 DUF4129: Domain of unknown function (DUF4129)
Probab=46.96 E-value=31 Score=25.55 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=27.8
Q ss_pred ehHHHHHHHHHhh-cCCCCCHHHHHHHHHhhhhc
Q 017530 298 NLIDVYCLFNRAR-GTALISPDDLSQACSLWEKF 330 (370)
Q Consensus 298 tL~dl~~~~NRaR-G~eLvSP~Dl~~Ac~~~~~l 330 (370)
.+.++-.+|-++| |-.-+|++|+..+.+.|+.|
T Consensus 39 ~~~~lt~~ye~~~Yg~~~~~~~~~~~~~~~~~~l 72 (72)
T PF13559_consen 39 ALEELTRLYERARYGGRPPSAEEFQRAREALRRL 72 (72)
T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHhcC
Confidence 4667777888888 88889999999999999864
No 28
>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=46.56 E-value=1.5e+02 Score=24.17 Aligned_cols=78 Identities=13% Similarity=0.109 Sum_probs=51.5
Q ss_pred CCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccCCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEE
Q 017530 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVIT 127 (370)
Q Consensus 48 ~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ik 127 (370)
...+.|-||.+.|+..+.......+..||.+|..+...... +.+.+ |+ -..++.. .
T Consensus 21 ~g~~~L~l~~~~l~L~~~~~~~~~~~Wpl~~lRryG~~~~~-----------F~fEa---GR--------rc~tG~G--~ 76 (100)
T PF02174_consen 21 SGPYLLCLTPDELILIDPQSGEPILEWPLRYLRRYGRDDGI-----------FSFEA---GR--------RCPTGEG--L 76 (100)
T ss_dssp EEEEEEEEESSEEEEEETTTTEEEEEEEGGGEEEEEEETTE-----------EEEEE---ST--------TSTTCSE--E
T ss_pred eEEEEEEECCCEEEEecCCCCceEEEEEhHHhhhhccCCCE-----------EEEEE---CC--------cCCCCCc--E
Confidence 44577999999999988888888899999999988554331 11211 00 0001122 3
Q ss_pred EEEecCCChhhHHHHHHHHHhhc
Q 017530 128 VVVRGKGDWELFLSKMWECWRGR 150 (370)
Q Consensus 128 LSFr~~G~~~~F~~~L~~aL~~k 150 (370)
+.|+ ..+.++.++.+..++++.
T Consensus 77 f~f~-t~~a~~I~~~v~~~i~~~ 98 (100)
T PF02174_consen 77 FWFQ-TPDAEEIFETVERAIKAQ 98 (100)
T ss_dssp EEEE-ESTHHHHHHHHHHHHHHH
T ss_pred EEEE-eCCHHHHHHHHHHHHHHh
Confidence 4566 333588899999998764
No 29
>smart00310 PTBI Phosphotyrosine-binding domain (IRS1-like).
Probab=45.64 E-value=1.8e+02 Score=24.20 Aligned_cols=78 Identities=15% Similarity=0.097 Sum_probs=51.7
Q ss_pred CCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccCCCcccccCCCceeeeeccCCCCCCCCCCCCCccCCcccEEE
Q 017530 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVSATPDNRIFDSDPGRVTGLRSVVIT 127 (370)
Q Consensus 48 ~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ik 127 (370)
...+.|=||...|...+.+.....+..||..|..+-..+. +++ |-+.+- .+. +++ .
T Consensus 19 ~G~y~L~lt~~~L~L~~~~~~~~~~~wpl~~lRRyG~~~~-~Fs-fEaGRr------c~t------------G~G----~ 74 (98)
T smart00310 19 SGSYRLRLTSETLVLWRLNPRVELVVWPLLSLRRYGRDKN-FFF-FEAGRR------CVS------------GPG----E 74 (98)
T ss_pred CeeEEEEECCcEEEEEecCCCccEEEeehhHeeeecCCCC-EEE-EEccCc------CCC------------CCC----E
Confidence 5678899999999999977777789999999998765333 111 111110 011 122 4
Q ss_pred EEEecCCChhhHHHHHHHHHhhc
Q 017530 128 VVVRGKGDWELFLSKMWECWRGR 150 (370)
Q Consensus 128 LSFr~~G~~~~F~~~L~~aL~~k 150 (370)
+.|+ ....++-|+.+.+++++.
T Consensus 75 f~f~-t~~a~~i~~~v~~a~~~~ 96 (98)
T smart00310 75 FTFQ-TVVAQEIFQLVLEAMQAQ 96 (98)
T ss_pred EEEE-cCcHHHHHHHHHHHHHHh
Confidence 4566 334578889999998765
No 30
>KOG1090 consensus Predicted dual-specificity phosphatase [General function prediction only]
Probab=43.36 E-value=18 Score=41.35 Aligned_cols=67 Identities=19% Similarity=0.302 Sum_probs=38.8
Q ss_pred CCCceeeCCceEEEEecceEEeeCCCCCC----CCCC--CCceEEEEeeceeEEeeCCC----CCce--EEeeccceee
Q 017530 15 SGRPVLVPNEVECNLLSNVDIEHDQDDAV----SFPP--LKSGHFILTTHRLLFLSSSC----SSTA--VAIPLSAITH 81 (370)
Q Consensus 15 sgrpvL~~~E~~l~~~~~V~Ly~g~~~~~----~~~~--~~~G~l~LTTHRIiw~d~~~----~~~s--lslpL~~V~~ 81 (370)
--+|+|.|||..+.=-=.|.|..++.... ...+ --+|-|+||+.|+||--++- .... =++|+.++..
T Consensus 783 ~~~P~LlpGE~lv~D~lrcyLlpdgrE~e~~~~~~~~LlPAeGalFLTnYRVIFkG~p~Dpl~~eqviVrtfPlasl~k 861 (1732)
T KOG1090|consen 783 NFDPVLLPGEFLVSDPLRCYLLPDGRESEMSLNRLENLLPAEGALFLTNYRVIFKGKPVDPLATEQVIVRTFPLASLEK 861 (1732)
T ss_pred CCCccccCchhhccCCceEEEecCcccccccccccccccccCcceEEeeeEEEecCCCCCcccccceEEEEeehhhhhh
Confidence 45899999998764332344433321100 0011 24799999999999975432 2222 2777776653
No 31
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=41.95 E-value=48 Score=23.57 Aligned_cols=34 Identities=26% Similarity=0.465 Sum_probs=25.3
Q ss_pred cHHHHHHHHHhcCCcC-ccccCcchhhhHHHHHHHH
Q 017530 248 SKEEMQDWLLSVGIVS-PVTKESAGALYHQQLSRQL 282 (370)
Q Consensus 248 ~~~~~~s~l~slGi~~-pvt~~~~~~~y~~eLarql 282 (370)
+..+++..|.+.|+.. |||. ..-..|...|.+.+
T Consensus 7 Sd~eL~~~L~~~G~~~gPIt~-sTR~vy~kkL~~~~ 41 (44)
T smart00540 7 SDAELRAELKQYGLPPGPITD-TTRKLYEKKLRKLR 41 (44)
T ss_pred CHHHHHHHHHHcCCCCCCcCc-chHHHHHHHHHHHH
Confidence 4568999999999995 7773 34578887776654
No 32
>cd06592 GH31_glucosidase_KIAA1161 KIAA1161 is an uncharacterized Homo sapiens protein with a glycosyl hydrolase family 31 (GH31) domain that is homologous to the Escherichia coli YihQ glucosidase. Orthologs of KIA1161 are found in eukaryotes and prokaryotes. In bacteria, YihQ (along with YihO) is important for bacterial O-antigen capsule assembly and translocation. Enzymes of the GH31 family possess a wide range of different hydrolytic activities including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase, 3-alpha-isomaltosyltransferase and alpha-1,4-glucan lyase. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=38.48 E-value=37 Score=33.26 Aligned_cols=65 Identities=14% Similarity=0.198 Sum_probs=46.1
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHhhhhcCCCeEEEEeCCce------EEEEcCCCChhHHHHHHHhhhhccc
Q 017530 302 VYCLFNRARGTALISPDDLSQACSLWEKFDVPVMLRKFDSGV------MAIQSKSHSDEESMMERIRFLGVIF 368 (370)
Q Consensus 302 l~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG~------~Vvq~~~~sde~~~~~r~~~l~~~~ 368 (370)
+||.||.. ..-++-+++++.++.+.+.++|+.....+.|- ...-...+-|-+-|+++|.++++-+
T Consensus 16 ~W~~W~~~--~~~~s~~~v~~~~~~~~~~~iP~d~i~iD~~w~~~~g~f~~d~~~FPdp~~mi~~l~~~G~k~ 86 (303)
T cd06592 16 IWSTWARY--KADINQETVLNYAQEIIDNGFPNGQIEIDDNWETCYGDFDFDPTKFPDPKGMIDQLHDLGFRV 86 (303)
T ss_pred ccCChhhh--ccCcCHHHHHHHHHHHHHcCCCCCeEEeCCCccccCCccccChhhCCCHHHHHHHHHHCCCeE
Confidence 58888876 56799999999999999999999887776543 2332222333333488888877643
No 33
>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=37.96 E-value=55 Score=26.93 Aligned_cols=42 Identities=24% Similarity=0.177 Sum_probs=33.6
Q ss_pred CCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccCC
Q 017530 46 PPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKR 87 (370)
Q Consensus 46 ~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~ 87 (370)
.+++..-..||+.+|.|.........-+|||..|..++....
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 478999999999999999766544456999999999875443
No 34
>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=37.90 E-value=2.4e+02 Score=23.58 Aligned_cols=39 Identities=21% Similarity=0.176 Sum_probs=33.2
Q ss_pred CCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccC
Q 017530 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (370)
Q Consensus 48 ~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~ 86 (370)
...+.|-||.+.|++.+.+.....+..||..|..+-...
T Consensus 20 ~G~y~L~lt~~~l~L~~~~~~~~~~~wpl~~lRRyG~~~ 58 (104)
T cd00824 20 LGSYRLCLTSKELTLVKLGSRVALVVWPLMFLRRYGYDS 58 (104)
T ss_pred ceeEEEEECCCEEEEEecCCCceEEEeehHHeeecccCC
Confidence 567889999999999998877778999999999875543
No 35
>PHA03247 large tegument protein UL36; Provisional
Probab=34.60 E-value=4.2e+02 Score=34.20 Aligned_cols=35 Identities=29% Similarity=0.359 Sum_probs=32.0
Q ss_pred eeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhc
Q 017530 296 MINLIDVYCLFNRARGTALISPDDLSQACSLWEKF 330 (370)
Q Consensus 296 mitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l 330 (370)
=++.+|.|.+|-|+||....|+|.|..|++....|
T Consensus 1724 EaaWDeaW~~F~r~~~~~~~S~e~~~~A~~~a~aL 1758 (3151)
T PHA03247 1724 EAEWDEVWGRFGRVRGGAWKSPEALRAAREQLRAL 1758 (3151)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHHHHHH
Confidence 35789999999999999999999999999988866
No 36
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=34.57 E-value=1.8e+02 Score=21.29 Aligned_cols=51 Identities=14% Similarity=0.083 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHhhchhcccCcee-ehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCC
Q 017530 275 HQQLSRQLADFVKIPLERAGGMI-NLIDVYCLFNRARGTALISPDDLSQACSLWEKFDV 332 (370)
Q Consensus 275 ~~eLarqlae~l~~~l~k~gGmi-tL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~l 332 (370)
|++++.+|.+.+...--+.|--+ +..++=.+|+ ||..-+.+|+..|+..|+
T Consensus 2 ~~~i~~~l~~~I~~g~~~~g~~lps~~~la~~~~-------vsr~tvr~al~~L~~~g~ 53 (64)
T PF00392_consen 2 YEQIYDQLRQAILSGRLPPGDRLPSERELAERYG-------VSRTTVREALRRLEAEGL 53 (64)
T ss_dssp HHHHHHHHHHHHHTTSS-TTSBE--HHHHHHHHT-------S-HHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHHcCCCCCCCEeCCHHHHHHHhc-------cCCcHHHHHHHHHHHCCc
Confidence 45666666666654444566677 7788777774 799999999999998764
No 37
>PF00638 Ran_BP1: RanBP1 domain; InterPro: IPR000156 Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran Binding Protein 1 (RanBP1) has guanine nucleotide dissociation inhibitory activity, specific for the GTP form of Ran and also functions to stimulate Ran GTPase activating protein(GAP)-mediated GTP hydrolysis by Ran. RanBP1 contributes to maintaining the gradient of RanGTP across the nuclear envelope high (GDI activity) or the cytoplasmic levels of RanGTP low (GAP cofactor) []. All RanBP1 proteins contain an approx 150 amino acid residue Ran binding domain. Ran BP1 binds directly to RanGTP with high affinity. There are four sites of contact between Ran and the Ran binding domain. One of these involves binding of the C-terminal segment of Ran to a groove on the Ran binding domain that is analogous to the surface utilised in the EVH1-peptide interaction []. Nup358 contains four Ran binding domains. The structure of the first of these is known [].; GO: 0046907 intracellular transport; PDB: 2Y8F_A 2Y8G_B 2CRF_A 1XKE_A 1RRP_D 2EC1_A 3M1I_B 1K5D_E 3OAN_A 3N7C_A ....
Probab=34.27 E-value=2.4e+02 Score=23.35 Aligned_cols=108 Identities=11% Similarity=0.078 Sum_probs=52.8
Q ss_pred CCceEEEEecceEEeeCCCCCCCCCCCCceEEEEe------eceeEEeeCCCCCceEEeeccceeeecccCCCcccccCC
Q 017530 22 PNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFILT------THRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHS 95 (370)
Q Consensus 22 ~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~LT------THRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s 95 (370)
.+|.+++... +.||.=+.+.-.+..+.-|.|-|- ..||+-.+++.....+-.++..=..+..... +
T Consensus 7 E~E~~l~~~r-~Kl~~~~~~~~~W~erG~G~l~i~~~k~~~~~RlvmR~d~~~kv~lN~~i~~~m~~~~~~~-------~ 78 (122)
T PF00638_consen 7 EDEEILFEVR-AKLYRFDKEDKEWKERGVGTLKILKHKETGKYRLVMRRDGTGKVLLNHPIFKGMKLKPMKG-------S 78 (122)
T ss_dssp SSEEEEEEEE-EEEEEEETTTTEEEEEEEEEEEEEEETTSCEEEEEEEETTTTEEEEEEE--TTC-EEESTT-------T
T ss_pred cCcEEEEEEE-EEEEEEeCCCCCccccceeEEEEEEccCCcceEEEEEEcccCceeEEEEecCCceeccccc-------C
Confidence 5677666655 888842221114556667777663 5678887665554444333332222222111 2
Q ss_pred Cc-eeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHHHh
Q 017530 96 PR-FRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWR 148 (370)
Q Consensus 96 ~k-I~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~aL~ 148 (370)
.+ +.......+. .......+.+.|+..-..++|+.++.++-+
T Consensus 79 ~~~~~~~~~~~~~-----------~~~~~~~~~irf~~~e~a~~f~~~i~e~~~ 121 (122)
T PF00638_consen 79 EKSLVWTAIDYAD-----------EEGKPETYLIRFKSAEDADEFKKKIEEAKE 121 (122)
T ss_dssp TTEEEEEEEECTT-----------SSSEEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred CcEEEEEeccccC-----------CCCceEEEEEEECCHHHHHHHHHHHHHHhc
Confidence 22 2211111111 011234567777755556889988888743
No 38
>COG1574 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]
Probab=32.33 E-value=39 Score=36.19 Aligned_cols=70 Identities=24% Similarity=0.300 Sum_probs=53.1
Q ss_pred hHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCCCeEEEEeCCc----------------------eEEEEcCCCChhHH
Q 017530 299 LIDVYCLFNRARGTALISPDDLSQACSLWEKFDVPVMLRKFDSG----------------------VMAIQSKSHSDEES 356 (370)
Q Consensus 299 L~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG----------------------~~Vvq~~~~sde~~ 356 (370)
|.+-|+-+.--+|..+.++++|.+-++...+.++|+.+...+.+ --+.|..--+++.+
T Consensus 302 l~~~y~d~~~~~G~~l~~~e~l~~~v~~a~~~gl~v~vHAiGD~Av~~~LdafE~~~~~~~~~~~r~rieH~~~v~~~~i 381 (535)
T COG1574 302 LAAPYADGPGPSGELLLTEEELEELVRAADERGLPVAVHAIGDGAVDAALDAFEKARKKNGLKGLRHRIEHAELVSPDQI 381 (535)
T ss_pred ccCcccCCCCCCCCcccCHHHHHHHHHHHHHCCCcEEEEEechHHHHHHHHHHHHHhhhcCCccCCceeeeeeecCHhHH
Confidence 55566666545689999999999999999999999998665321 34555555556555
Q ss_pred HHHHHhhhhccccC
Q 017530 357 MMERIRFLGVIFSV 370 (370)
Q Consensus 357 ~~~r~~~l~~~~~~ 370 (370)
.|.++|++++||
T Consensus 382 --~R~~~Lgv~~sv 393 (535)
T COG1574 382 --ERFAKLGVIASV 393 (535)
T ss_pred --HHHHhcCceEee
Confidence 999999999986
No 39
>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=31.23 E-value=31 Score=25.97 Aligned_cols=38 Identities=18% Similarity=0.310 Sum_probs=26.3
Q ss_pred HHHHHHHHHH-hhchhcccCceeehHHHHHHHHHhhcCC
Q 017530 276 QQLSRQLADF-VKIPLERAGGMINLIDVYCLFNRARGTA 313 (370)
Q Consensus 276 ~eLarqlae~-l~~~l~k~gGmitL~dl~~~~NRaRG~e 313 (370)
.+|+++|.+- +...+..-+++++-.|+|.+||.++|.+
T Consensus 4 ~Dls~~lTeEEl~~~i~~L~~~~~~~dm~~IW~~v~~~e 42 (61)
T TIGR01639 4 NDLSKKLSKEELNELINSLDEIPNRNDMLIIWNQVHGIE 42 (61)
T ss_pred hHHhHHccHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHH
Confidence 3455555432 3344556678999999999999998763
No 40
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=31.12 E-value=2.9e+02 Score=26.69 Aligned_cols=44 Identities=11% Similarity=0.137 Sum_probs=36.3
Q ss_pred cCceeehHHHHHHHHHhhcC-----------CCCCHHHHHHHHHhhhhcCCCeEE
Q 017530 293 AGGMINLIDVYCLFNRARGT-----------ALISPDDLSQACSLWEKFDVPVML 336 (370)
Q Consensus 293 ~gGmitL~dl~~~~NRaRG~-----------eLvSP~Dl~~Ac~~~~~l~lp~~l 336 (370)
...+|+.-+.|.-|-|..|. .-.||.++.+..++++..++++.+
T Consensus 179 ~~~~v~~H~af~Yl~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~If 233 (286)
T cd01019 179 TKPFFVFHDAYGYFEKRYGLTQAGVFTIDPEIDPGAKRLAKIRKEIKEKGATCVF 233 (286)
T ss_pred CCeEEEecccHHHHHHHcCCceeeeecCCCCCCCCHHHHHHHHHHHHHcCCcEEE
Confidence 44689999999999999775 346899999999999987776543
No 41
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=30.91 E-value=94 Score=23.08 Aligned_cols=49 Identities=12% Similarity=0.064 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHhhhhcCCCeEEEEeCCceEEEEcCCCChhHHHHHHHhh
Q 017530 314 LISPDDLSQACSLWEKFDVPVMLRKFDSGVMAIQSKSHSDEESMMERIRF 363 (370)
Q Consensus 314 LvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG~~Vvq~~~~sde~~~~~r~~~ 363 (370)
.++|+++...++..++++.+..-.+-..++.+...+..+-+++ .++|.+
T Consensus 20 ~i~~~~l~~la~ia~~yg~~~irlT~~Q~l~l~~v~~~~~~~i-~~~L~~ 68 (69)
T PF03460_consen 20 RISAEQLRALAEIAEKYGDGEIRLTTRQNLQLRGVPEENLPAI-FEELKE 68 (69)
T ss_dssp EEEHHHHHHHHHHHHHHSTSEEEEETTSCEEEEEEEGGGHHHH-HHHHHH
T ss_pred EECHHHHHHHHHHHHHhCCCeEEECCCCeEEEeCCCHHHHHHH-HHHHHc
Confidence 4599999999999999997765556666776666665555666 666653
No 42
>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=30.67 E-value=97 Score=22.86 Aligned_cols=31 Identities=26% Similarity=0.369 Sum_probs=25.0
Q ss_pred hhhccHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 017530 186 GLLRKEQEMWESTDRSLQEAFQDLNALMNKA 216 (370)
Q Consensus 186 gi~r~~~~~~~~~~~~l~~af~DL~~LM~~A 216 (370)
.++.+..++.+.++..+..+|+.+++-|..+
T Consensus 10 ~feqkskeqa~ste~~vk~af~~~E~~l~~~ 40 (52)
T PF04837_consen 10 DFEQKSKEQAESTEQMVKNAFEQHEKSLSAA 40 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788899999999999999877644
No 43
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=30.34 E-value=2.3e+02 Score=27.30 Aligned_cols=56 Identities=11% Similarity=0.057 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccccc--cHHHHHHHHHhcCCc
Q 017530 205 AFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELG--SKEEMQDWLLSVGIV 262 (370)
Q Consensus 205 af~DL~~LM~~Akemv~la~~~~~ki~~~~~~~~~~~~de~~~--~~~~~~s~l~slGi~ 262 (370)
+.++.+++++.|+++.+.+.++....-.++-+.+. .-...+ .-+.++.++...|+.
T Consensus 34 ~ie~~~~~~~~A~~lk~~~~k~~r~~~~KpRtsp~--s~~g~g~~gl~~l~~~~~~~Gl~ 91 (260)
T TIGR01361 34 SVESEEQIMETARFVKEAGAKILRGGAFKPRTSPY--SFQGLGEEGLKLLRRAADEHGLP 91 (260)
T ss_pred ccCCHHHHHHHHHHHHHHHHHhccCceecCCCCCc--cccccHHHHHHHHHHHHHHhCCC
Confidence 44577888899999888887764322112211110 011111 123588999999998
No 44
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=29.57 E-value=2.6e+02 Score=21.38 Aligned_cols=50 Identities=22% Similarity=0.278 Sum_probs=29.4
Q ss_pred cchhhhhccHHHHHHhhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhc
Q 017530 182 VGVGGLLRKEQEMWESTDRSLQEAFQDLNAL-MNKAKEMVMLAEKMRQKLLA 232 (370)
Q Consensus 182 ~GI~gi~r~~~~~~~~~~~~l~~af~DL~~L-M~~Akemv~la~~~~~ki~~ 232 (370)
.|...|.++..+..+. -..|.+-|+.--.+ -+.|+.|.+|++++..+...
T Consensus 9 ~g~~~l~~~~~~~~~~-~~~l~~~~keRa~lE~~Yak~L~kl~~~~~~~~~~ 59 (91)
T PF00611_consen 9 DGFEVLFKRLKQGIKL-LEELASFFKERASLEEEYAKSLQKLAKKFKKKMKS 59 (91)
T ss_dssp CTTHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC
Confidence 5777777776665432 22333333322222 24577799999988877764
No 45
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=28.40 E-value=1.8e+02 Score=27.40 Aligned_cols=83 Identities=20% Similarity=0.309 Sum_probs=58.3
Q ss_pred HHHHHHHHhcCCc----CccccCcchhhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHh--h----cC----CCC
Q 017530 250 EEMQDWLLSVGIV----SPVTKESAGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRA--R----GT----ALI 315 (370)
Q Consensus 250 ~~~~s~l~slGi~----~pvt~~~~~~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRa--R----G~----eLv 315 (370)
.++..-+...|+. .++.+++....|..++-+++.+...-++--+||+=++.|+...+++. = |. .-+
T Consensus 156 ~~~~~~~~~~g~~~ii~~~i~~~g~~~g~d~~~i~~~~~~~~ipvia~GGv~s~~d~~~~~~~~G~~gvivg~al~~~~~ 235 (253)
T PRK02083 156 VEWAKEVEELGAGEILLTSMDRDGTKNGYDLELTRAVSDAVNVPVIASGGAGNLEHFVEAFTEGGADAALAASIFHFGEI 235 (253)
T ss_pred HHHHHHHHHcCCCEEEEcCCcCCCCCCCcCHHHHHHHHhhCCCCEEEECCCCCHHHHHHHHHhCCccEEeEhHHHHcCCC
Confidence 3455556677764 44556655566777888888887766777899999999999988772 1 22 468
Q ss_pred CHHHHHHHHHhhhhcCCCeE
Q 017530 316 SPDDLSQACSLWEKFDVPVM 335 (370)
Q Consensus 316 SP~Dl~~Ac~~~~~l~lp~~ 335 (370)
+++++++-|+ +.|.+++
T Consensus 236 ~~~~~~~~~~---~~~~~~~ 252 (253)
T PRK02083 236 TIGELKAYLA---EQGIPVR 252 (253)
T ss_pred CHHHHHHHHH---HCCCccc
Confidence 8888887775 3566654
No 46
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=27.98 E-value=3.6e+02 Score=22.55 Aligned_cols=109 Identities=9% Similarity=0.038 Sum_probs=56.8
Q ss_pred eCCceEEEEecceEEeeCCCCCCCCCCCCceEEEE------eeceeEEeeCCCCCceEEeeccceeeecccCCCcccccC
Q 017530 21 VPNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFIL------TTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFH 94 (370)
Q Consensus 21 ~~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~L------TTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~ 94 (370)
..||..++..+ +.||-=+...-.+..+.-|.|.| ..+||+-..++.....+-.++..=..+....+ .
T Consensus 7 EE~E~~if~~r-~KLy~~~~~~~~WkerG~G~lki~~~k~~~~~RivmR~d~~~kv~lN~~i~~~~~~~~~~~------~ 79 (122)
T cd00835 7 EEDEEVIFSVR-AKLYRFDDETKEWKERGVGELKILKHKDTGKYRLLMRRDQVLKLCLNHKLVPGMKLQPMGN------S 79 (122)
T ss_pred CcCcEEEEEEE-eEEEEEcCCCCCCeeceEEEEEEEEcCCCCcEEEEEEeCCccEEEEeeEecCCcEEeecCC------C
Confidence 36777775544 66665333112577788888888 67888887665443333222221111111110 0
Q ss_pred CCceeeeeccCCCCCCCCCCCCCccCCcccEEEEEEecCCChhhHHHHHHHHH
Q 017530 95 SPRFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECW 147 (370)
Q Consensus 95 s~kI~~~l~~~P~~~~~~~~pg~~~~s~~~~ikLSFr~~G~~~~F~~~L~~aL 147 (370)
...+++....... .......+-+-|+...++++|++++.++.
T Consensus 80 ~k~~~~~~~d~~~-----------~~~~~~~~~lrfk~~~~a~~f~~~~~~~~ 121 (122)
T cd00835 80 DKSIVWAAMDFSD-----------DEPKPETFAIRFKTEEIADEFKEAIEEAK 121 (122)
T ss_pred CcEEEEEeeecCC-----------CCCcEEEEEEEECCHHHHHHHHHHHHHhh
Confidence 1223333111110 01223567778876667788988888763
No 47
>PF14593 PH_3: PH domain; PDB: 1W1H_D 1W1D_A 1W1G_A 2VKI_A.
Probab=27.84 E-value=2.4e+02 Score=23.57 Aligned_cols=37 Identities=24% Similarity=0.258 Sum_probs=24.6
Q ss_pred CCceEEEEeec-eeEEeeCCCCCceEEeeccceeeecc
Q 017530 48 LKSGHFILTTH-RLLFLSSSCSSTAVAIPLSAITHIFS 84 (370)
Q Consensus 48 ~~~G~l~LTTH-RIiw~d~~~~~~slslpL~~V~~~~~ 84 (370)
.+...++||.. ||+|+|......-=.||++.-..++.
T Consensus 27 ~kkR~liLTd~PrL~Yvdp~~~~~KGeI~~~~~l~v~~ 64 (104)
T PF14593_consen 27 AKKRQLILTDGPRLFYVDPKKMVLKGEIPWSKELSVEV 64 (104)
T ss_dssp EEEEEEEEETTTEEEEEETTTTEEEEEE--STT-EEEE
T ss_pred EEEEEEEEccCCEEEEEECCCCeECcEEecCCceEEEE
Confidence 56778999999 99999987643333777775544444
No 48
>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=27.62 E-value=85 Score=25.46 Aligned_cols=36 Identities=22% Similarity=0.289 Sum_probs=28.1
Q ss_pred CCceEEEEeeceeEEeeCCCCCceEEeeccceeeecccC
Q 017530 48 LKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSK 86 (370)
Q Consensus 48 ~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~ 86 (370)
-.+|.||.+.+-++|+ -.+..+.+|+..|..+..+.
T Consensus 10 a~~g~L~pl~~~l~f~---~~kP~~~i~~~dI~~v~feR 45 (95)
T PF08512_consen 10 ANEGFLYPLEKCLLFG---LEKPPFVIPLDDIESVEFER 45 (95)
T ss_dssp TEEEEEEEESSEEEEE---CSSS-EEEEGGGEEEEEEE-
T ss_pred ccCEEEEEccceEEEe---cCCCeEEEEhhHeeEEEEEe
Confidence 3589999999999994 25556899999999987643
No 49
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=27.26 E-value=1.9e+02 Score=21.53 Aligned_cols=49 Identities=10% Similarity=0.224 Sum_probs=35.3
Q ss_pred hhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCC
Q 017530 272 ALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGTALISPDDLSQACSLWEKFDV 332 (370)
Q Consensus 272 ~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~l 332 (370)
.++|=|++..++++|. ..|-.|+.++...-+ +||..+.+|+-.|-+.++
T Consensus 8 ~~~fG~~~~~V~~~Ll-----~~G~ltl~~i~~~t~-------l~~~~Vk~~L~~LiQh~~ 56 (62)
T PF08221_consen 8 EEHFGEIVAKVGEVLL-----SRGRLTLREIVRRTG-------LSPKQVKKALVVLIQHNL 56 (62)
T ss_dssp HHHHHHHHHHHHHHHH-----HC-SEEHHHHHHHHT---------HHHHHHHHHHHHHTTS
T ss_pred HHHcChHHHHHHHHHH-----HcCCcCHHHHHHHhC-------CCHHHHHHHHHHHHHcCC
Confidence 3567788888888886 357888988874332 899999999988877653
No 50
>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=26.89 E-value=4e+02 Score=22.77 Aligned_cols=48 Identities=8% Similarity=0.075 Sum_probs=29.4
Q ss_pred CCceEEEEecceEEeeCCCCCCCCCCCCceEEEE-------eeceeEEeeCCCCCc
Q 017530 22 PNEVECNLLSNVDIEHDQDDAVSFPPLKSGHFIL-------TTHRLLFLSSSCSST 70 (370)
Q Consensus 22 ~~E~~l~~~~~V~Ly~g~~~~~~~~~~~~G~l~L-------TTHRIiw~d~~~~~~ 70 (370)
.||..++. ..+.||.=+...-.+..+.-|.|.| ..+||+-.+++....
T Consensus 17 E~E~~lf~-~r~KL~~~~~~~~~WkerG~G~lki~~~~~~~~~~RivmR~~~~~kv 71 (130)
T smart00160 17 EDEEVIFS-ARAKLYRFANDKKEWKERGVGDLKILKSKDNGGKVRIVMRRDGVLKV 71 (130)
T ss_pred cCeEEEEE-EEeEEEEEcCCCCCCeeccEEEEEEEEcCCCCCeEEEEEEECCCceE
Confidence 44555554 5567763221111477788899888 679999876554443
No 51
>KOG1043 consensus Ca2+-binding transmembrane protein LETM1/MRS7 [Function unknown]
Probab=26.66 E-value=6.3e+02 Score=27.05 Aligned_cols=79 Identities=19% Similarity=0.306 Sum_probs=47.2
Q ss_pred cHHHHHHHHHhcCCcCccccCcchhhhHHHHHHHHHHHhhc--hhcccCc--eeehHHHHHHHHHhhcC--CCCCHHHHH
Q 017530 248 SKEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKI--PLERAGG--MINLIDVYCLFNRARGT--ALISPDDLS 321 (370)
Q Consensus 248 ~~~~~~s~l~slGi~~pvt~~~~~~~y~~eLarqlae~l~~--~l~k~gG--mitL~dl~~~~NRaRG~--eLvSP~Dl~ 321 (370)
++.++-++|..|++.+..| ...|-++|=.-|=+.-.. ++...|+ ..++.|++..- |+||+ -.+++|++.
T Consensus 294 sR~qL~al~k~m~l~~~Gt----~~~lr~~lr~kik~ik~dD~~I~~eg~v~~ls~~el~~aC-~~rgmra~gv~~e~l~ 368 (499)
T KOG1043|consen 294 SRPQLVALCKYMDLNSFGT----DKLLRYQLRKKIKEIKKDDKHIATEGAVESLSLLELQIAC-RERGMRALGVSEERLR 368 (499)
T ss_pred CHHHHHHHHHhhcccccCc----hHHHHHHHHHHHHHhcccccchhhhhhhhHhhHHHHHHHH-Hhhhcchhccchhhhh
Confidence 4678999999999985333 245555554433332221 1222332 24444444322 45776 568999999
Q ss_pred HHHHhhhhcC
Q 017530 322 QACSLWEKFD 331 (370)
Q Consensus 322 ~Ac~~~~~l~ 331 (370)
.-...|..+.
T Consensus 369 ~ql~~wldls 378 (499)
T KOG1043|consen 369 EQLRVWLDLS 378 (499)
T ss_pred HHHHHHHhhh
Confidence 9999998664
No 52
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=26.48 E-value=36 Score=25.76 Aligned_cols=43 Identities=19% Similarity=0.308 Sum_probs=28.7
Q ss_pred CHHHHHHHHHhhhhc-CCCeEEEEeCCceEEEEcCCCChhHH------HHHHHhhhhcc
Q 017530 316 SPDDLSQACSLWEKF-DVPVMLRKFDSGVMAIQSKSHSDEES------MMERIRFLGVI 367 (370)
Q Consensus 316 SP~Dl~~Ac~~~~~l-~lp~~lr~f~SG~~Vvq~~~~sde~~------~~~r~~~l~~~ 367 (370)
||-||.++++.-..| ..+||. |--+.-+|+++ +..||.+++++
T Consensus 5 sPv~LR~~lE~A~~La~~GIRF---------VpiPv~~dee~~~L~s~~~~kLe~ma~~ 54 (61)
T PF07131_consen 5 SPVDLRKALEMAHSLAHIGIRF---------VPIPVVTDEEFHTLSSQLSQKLERMAAE 54 (61)
T ss_pred cHHHHHHHHHHHHHHHHcCcee---------eccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999998877 555554 44455577665 23455555543
No 53
>KOG3284 consensus Vacuolar sorting protein VPS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.40 E-value=66 Score=30.03 Aligned_cols=32 Identities=28% Similarity=0.440 Sum_probs=23.7
Q ss_pred ehHHHHHHHHH------hhcCCCCCHHHHHHHHHhhhh
Q 017530 298 NLIDVYCLFNR------ARGTALISPDDLSQACSLWEK 329 (370)
Q Consensus 298 tL~dl~~~~NR------aRG~eLvSP~Dl~~Ac~~~~~ 329 (370)
+|.|||+..|- |--.+.|||+|.-.+|.++-.
T Consensus 26 nlseLyaIi~ale~LEKAyirD~is~sey~s~c~kLi~ 63 (213)
T KOG3284|consen 26 NLSELYAIIKALEQLEKAYIRDCISPSEYTSECSKLIV 63 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Confidence 46677777663 334589999999999988753
No 54
>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=26.19 E-value=1.8e+02 Score=20.09 Aligned_cols=37 Identities=11% Similarity=0.128 Sum_probs=28.2
Q ss_pred CceeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcC
Q 017530 294 GGMINLIDVYCLFNRARGTALISPDDLSQACSLWEKFD 331 (370)
Q Consensus 294 gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~ 331 (370)
.|.|+..|+.+.+ +.-|..-+|++++......++.=+
T Consensus 2 ~G~i~~~~~~~~l-~~~g~~~~s~~e~~~l~~~~D~~~ 38 (54)
T PF13833_consen 2 DGKITREEFRRAL-SKLGIKDLSEEEVDRLFREFDTDG 38 (54)
T ss_dssp SSEEEHHHHHHHH-HHTTSSSSCHHHHHHHHHHHTTSS
T ss_pred cCEECHHHHHHHH-HHhCCCCCCHHHHHHHHHhcccCC
Confidence 5788888888888 666776588888887777777543
No 55
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.
Probab=24.89 E-value=3.3e+02 Score=21.05 Aligned_cols=61 Identities=16% Similarity=0.133 Sum_probs=41.7
Q ss_pred ceeehHHHHHHHHHh---hcCCCCCHHHHHHHHHhhhhcCCCeEEEE----eCCceEEEEcCCCChhHH
Q 017530 295 GMINLIDVYCLFNRA---RGTALISPDDLSQACSLWEKFDVPVMLRK----FDSGVMAIQSKSHSDEES 356 (370)
Q Consensus 295 GmitL~dl~~~~NRa---RG~eLvSP~Dl~~Ac~~~~~l~lp~~lr~----f~SG~~Vvq~~~~sde~~ 356 (370)
.=++..++|..|..- .|.+-+|+..|.+-|..|+.+|+ +..++ -..|+.-.-+-..+.+.|
T Consensus 14 ~~~~~~~vy~~Y~~lc~~~~~~pls~~r~~~~l~eL~~~gl-i~~~~~~~G~~~G~~~~~~l~~d~~~v 81 (85)
T PF09079_consen 14 EEVTTGEVYEVYEELCESLGVDPLSYRRFSDYLSELEMLGL-IESERKGRGRGRGRTREISLNVDPEDV 81 (85)
T ss_dssp SSEEHHHHHHHHHHHHHHTTS----HHHHHHHHHHHHHTTS-EEEEEEE-TT-CTEEEEEEECSSSHHH
T ss_pred CceeHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCC-eEEEeecCCCCCCeEEEEEecCCHHHH
Confidence 468899999999887 58999999999999999999885 34444 235665555555666555
No 56
>TIGR00066 g_glut_trans gamma-glutamyltranspeptidase. Also called gamma-glutamyltranspeptidase (ggt). Some members of this family have antibiotic synthesis or resistance activities. In the case of a cephalosporin acylase from Pseudomonas sp., the enzyme was shown to retain some gamma-glutamyltranspeptidase activity. Other, more distantly related proteins have ggt-related activities and score below the trusted cutoff.
Probab=24.81 E-value=42 Score=35.64 Aligned_cols=56 Identities=23% Similarity=0.434 Sum_probs=36.7
Q ss_pred hhHH-HHHHHHHHHhhchhcccCceeehHHHHHHH--------HHhhcCCCC---CH----HHHHHHHHhhhhcCC
Q 017530 273 LYHQ-QLSRQLADFVKIPLERAGGMINLIDVYCLF--------NRARGTALI---SP----DDLSQACSLWEKFDV 332 (370)
Q Consensus 273 ~y~~-eLarqlae~l~~~l~k~gGmitL~dl~~~~--------NRaRG~eLv---SP----~Dl~~Ac~~~~~l~l 332 (370)
.||+ ++|++|++.+. +.||+||+.||-.-= =+.||-++. .| --++.+..++|.+++
T Consensus 194 ~FY~G~iA~~iv~~~~----~~GG~lt~~DL~~y~~~~~~Pl~~~~~g~~v~~~ppP~sgg~~l~~~L~ile~~~~ 265 (516)
T TIGR00066 194 AFYKGDIAESIIDTLQ----KNGGIMTKKDLAAYDVEIRKPLSGDYRGYQVYTTPPPSSGGIHLLQALNILENFDL 265 (516)
T ss_pred cccCCHHHHHHHHHHH----HcCCCCCHHHHhhCCeEEeCCeEEEecCeEEEECCCCchHHHHHHHHHHhhhccCc
Confidence 3555 99999999876 489999999985321 011564443 22 235688888887643
No 57
>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=24.73 E-value=3.1e+02 Score=21.46 Aligned_cols=44 Identities=14% Similarity=0.237 Sum_probs=27.2
Q ss_pred hccHHHHHHhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHh
Q 017530 188 LRKEQEMWESTDRSLQEAF---QDLNALMNKAKEMVMLAEKMRQKLL 231 (370)
Q Consensus 188 ~r~~~~~~~~~~~~l~~af---~DL~~LM~~Akemv~la~~~~~ki~ 231 (370)
+...++-......++...+ +.|+.|-.++.+|..-|+.|+.+-+
T Consensus 9 ~~~v~~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~~a~~F~k~a~ 55 (89)
T PF00957_consen 9 QEQVEEVKNIMRENIDKLLERGEKLEELEDKTEELSDNAKQFKKNAK 55 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3333333333334444444 3788888899999999988876544
No 58
>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=24.72 E-value=2.6e+02 Score=19.97 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=30.6
Q ss_pred cHHHHHHHHHhcCCcCccccCcchhhhHHHHHHHHHHHhhchhcc-cCceeehHHHHHHH
Q 017530 248 SKEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKIPLER-AGGMINLIDVYCLF 306 (370)
Q Consensus 248 ~~~~~~s~l~slGi~~pvt~~~~~~~y~~eLarqlae~l~~~l~k-~gGmitL~dl~~~~ 306 (370)
+.++|+.++..+|...+ .+..++.++.+...... ..|.|+..|....|
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 45689999999988743 44444455554444444 45788888876543
No 59
>COG0325 Predicted enzyme with a TIM-barrel fold [General function prediction only]
Probab=24.48 E-value=1.3e+02 Score=28.80 Aligned_cols=45 Identities=20% Similarity=0.380 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHhhhhc-CCCeEEEEeCCceEEEEcCCCChhHHHHHHHhhhhc
Q 017530 315 ISPDDLSQACSLWEKF-DVPVMLRKFDSGVMAIQSKSHSDEESMMERIRFLGV 366 (370)
Q Consensus 315 vSP~Dl~~Ac~~~~~l-~lp~~lr~f~SG~~Vvq~~~~sde~~~~~r~~~l~~ 366 (370)
++|+++...|..+..+ ++.++ |+|.+-+.+.++++. ..-...|..
T Consensus 137 ~~~~e~~~~~~~~~~~~~L~l~------GLM~ipp~~~d~~~~-~~~F~~l~~ 182 (228)
T COG0325 137 VPPEELDELAQEVQELPNLELR------GLMTIPPLTDDPEEI-FAVFRKLRK 182 (228)
T ss_pred CCHHHHHHHHHHHHhCCCCeEe------EEEeeCCCCCCHHHH-HHHHHHHHH
Confidence 6899999999888876 56665 999999988888877 666655544
No 60
>KOG2059 consensus Ras GTPase-activating protein [Signal transduction mechanisms]
Probab=24.07 E-value=65 Score=35.62 Aligned_cols=43 Identities=28% Similarity=0.304 Sum_probs=36.6
Q ss_pred CCCCCceEEEEeeceeEEeeCCCCCceEEeeccceeeec-ccCC
Q 017530 45 FPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIF-SSKR 87 (370)
Q Consensus 45 ~~~~~~G~l~LTTHRIiw~d~~~~~~slslpL~~V~~~~-~~~~ 87 (370)
..+||..-..||||-+.|.-..+...+-.|||+.|..++ .+++
T Consensus 583 ~~~FKKryf~LT~~~Ls~~Ksp~~q~~~~Ipl~nI~avEklee~ 626 (800)
T KOG2059|consen 583 KKNFKKRYFRLTTEELSYAKSPGKQPIYTIPLSNIRAVEKLEEK 626 (800)
T ss_pred hhhhhheEEEeccceeEEecCCccCcccceeHHHHHHHHHhhhh
Confidence 368999999999999999988777777899999999987 3444
No 61
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=23.36 E-value=1.6e+02 Score=28.38 Aligned_cols=47 Identities=17% Similarity=0.192 Sum_probs=37.5
Q ss_pred eehHHHHHHHHHhh---cCCCCCHHHHHHHHHhhhhcCCCeEEEEeCCce
Q 017530 297 INLIDVYCLFNRAR---GTALISPDDLSQACSLWEKFDVPVMLRKFDSGV 343 (370)
Q Consensus 297 itL~dl~~~~NRaR---G~eLvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG~ 343 (370)
|+..++|.+++... -+...||+|+.++.+.+.+-+-.|-.....||+
T Consensus 41 i~~~~~y~~~~~~~~~p~TS~ps~~~~~~~~~~l~~~~~~vi~i~iSs~l 90 (275)
T TIGR00762 41 ITPEEFYEKLKESKELPKTSQPSPGEFLELYEKLLEEGDEVLSIHLSSGL 90 (275)
T ss_pred CCHHHHHHHHHhcCCCCCcCCCCHHHHHHHHHHHHhCCCeEEEEEcCCch
Confidence 88999999997754 468999999999999887766566666667666
No 62
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.18 E-value=71 Score=33.02 Aligned_cols=41 Identities=15% Similarity=0.097 Sum_probs=34.0
Q ss_pred CCCCcccccCCCCcee--eCCceEEEEecceEEeeCCCCCCCC
Q 017530 5 NFFLPASVTSSGRPVL--VPNEVECNLLSNVDIEHDQDDAVSF 45 (370)
Q Consensus 5 ~~~~~~~lT~sgrpvL--~~~E~~l~~~~~V~Ly~g~~~~~~~ 45 (370)
-||+....+..|.+.+ +++|.+++...+|.+|||+.|..+|
T Consensus 22 ~~~~q~~~~~fg~~~~~~~~ne~l~lt~~~I~~~D~~~k~~~~ 64 (432)
T KOG2760|consen 22 IFIDQSVMLRFGWSKILRSQNETLLLTSQRIIIYDGDKKTTKF 64 (432)
T ss_pred eeeecccchhcccchhhhccCceEEEeecceEEecCCCccccc
Confidence 5777888888897764 4899999999999999999885443
No 63
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.15 E-value=4.9e+02 Score=24.46 Aligned_cols=43 Identities=28% Similarity=0.350 Sum_probs=25.6
Q ss_pred HhcCCcCccccCcc------hhhhHHHH---------HHHHHHHhhch--hcccCceeehHHH
Q 017530 257 LSVGIVSPVTKESA------GALYHQQL---------SRQLADFVKIP--LERAGGMINLIDV 302 (370)
Q Consensus 257 ~slGi~~pvt~~~~------~~~y~~eL---------arqlae~l~~~--l~k~gGmitL~dl 302 (370)
...|+.+-+|-+.+ ...||.|| =++|+.|..++ |.+ ||||.|+
T Consensus 110 ~q~Gl~sgL~fd~~~p~~~v~k~fy~elPisi~v~G~YHdia~F~~~VasLpR---IiTl~d~ 169 (211)
T COG3167 110 NQAGLSSGLTFDLFMPQPEVDKEFYAELPISISVTGSYHDIAQFVSDVASLPR---IITLHDL 169 (211)
T ss_pred HHhhhccCceeeccCCCchhhhhhHhhcceEEEEcccHHHHHHHHHHHhhcce---eeeeecc
Confidence 34666655554432 25566666 25788888653 443 8887775
No 64
>PHA02102 hypothetical protein
Probab=22.62 E-value=1.5e+02 Score=22.88 Aligned_cols=21 Identities=29% Similarity=0.403 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 017530 208 DLNALMNKAKEMVMLAEKMRQ 228 (370)
Q Consensus 208 DL~~LM~~Akemv~la~~~~~ 228 (370)
+.+.|.++|.+|-+|....+.
T Consensus 3 rsneLvekA~eLqkLl~eV~d 23 (72)
T PHA02102 3 RSNELVEKALELQKLLKEVKD 23 (72)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 456777888888777766643
No 65
>PF01922 SRP19: SRP19 protein; InterPro: IPR002778 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the SRP19 subunit. The SRP19 protein is unstructured but forms a compact core domain and two extended RNA-binding loops upon binding the signal recognition particle (SRP) RNA [].; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 3DLU_A 3DLV_B 2J37_B 1MFQ_B 3KTV_D 1RY1_B 1JID_A 1KVV_A 1KVN_A 3KTW_B ....
Probab=22.53 E-value=1.3e+02 Score=24.62 Aligned_cols=37 Identities=19% Similarity=0.410 Sum_probs=26.1
Q ss_pred cCCCCCHHHHHHHHHhhhhcCCCeEEE---------EeCCceEEEEcCC
Q 017530 311 GTALISPDDLSQACSLWEKFDVPVMLR---------KFDSGVMAIQSKS 350 (370)
Q Consensus 311 G~eLvSP~Dl~~Ac~~~~~l~lp~~lr---------~f~SG~~Vvq~~~ 350 (370)
.++=-+.+|+.+||+ +||++..+. -+..|++.||.++
T Consensus 25 aV~~P~~~EI~~a~~---~Lgl~~~~E~~K~yPr~~~~~~GRV~V~~~~ 70 (95)
T PF01922_consen 25 AVENPTLEEIADACK---KLGLPCVVEPDKRYPRDWWENPGRVRVQLKN 70 (95)
T ss_dssp SBSS--HHHHHHHHH---HTTSEEEEETTECTTCGSTSCTTEEEEE-CS
T ss_pred cCCCCCHHHHHHHHH---HcCCCEEEccccCcChhhcccCceEEEEeCC
Confidence 456688999999995 467887765 2368999999876
No 66
>PLN02677 mevalonate kinase
Probab=22.47 E-value=8.5e+02 Score=24.96 Aligned_cols=77 Identities=17% Similarity=0.163 Sum_probs=44.8
Q ss_pred HHHHHHHhcCCcCccccCcchhhhHHHHHHHHHHHhhchhcccC--c-eeehHHHHHHHHHhhcCCCCCHHHHHHHHHhh
Q 017530 251 EMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKIPLERAG--G-MINLIDVYCLFNRARGTALISPDDLSQACSLW 327 (370)
Q Consensus 251 ~~~s~l~slGi~~pvt~~~~~~~y~~eLarqlae~l~~~l~k~g--G-mitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~ 327 (370)
..|..|..||+..|--. -.-+.|++.+ +-+.+..+| | +|+|.+ +.++.++..+..+.|
T Consensus 302 ~N~~LL~~LGVS~~~le------~iv~~a~~~~--~~AKlTGAGgGGC~IaL~~-----------~~~~~~~~~~l~~~l 362 (387)
T PLN02677 302 MNQGLLQCMGVSHSSIE------TVLRTTLKYK--LVSKLTGAGGGGCVLTLLP-----------TLLSGTVVDKVIAEL 362 (387)
T ss_pred HHHHHHHHcCCCcHHHH------HHHHHHHHcC--CccccccCCCCCEEEEEcc-----------cccchhHHHHHHHHH
Confidence 46888999997754211 1123333321 123344444 3 677643 344677888888999
Q ss_pred hhcCCCe-EEEEeCCceEEE
Q 017530 328 EKFDVPV-MLRKFDSGVMAI 346 (370)
Q Consensus 328 ~~l~lp~-~lr~f~SG~~Vv 346 (370)
++.+... ....=..||.|.
T Consensus 363 ~~~G~~~~~~~~g~~Gv~~~ 382 (387)
T PLN02677 363 ESSGFQCFTAGIGGNGVQIC 382 (387)
T ss_pred HHCCCeEEEEEeCCCceEEE
Confidence 9887663 333335787765
No 67
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=21.81 E-value=2.4e+02 Score=26.76 Aligned_cols=81 Identities=20% Similarity=0.332 Sum_probs=57.1
Q ss_pred HHHHHHHhcCCc----CccccCcchhhhHHHHHHHHHHHhhchhcccCceeehHHHHHHHHHh--hcC--------CCCC
Q 017530 251 EMQDWLLSVGIV----SPVTKESAGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRA--RGT--------ALIS 316 (370)
Q Consensus 251 ~~~s~l~slGi~----~pvt~~~~~~~y~~eLarqlae~l~~~l~k~gGmitL~dl~~~~NRa--RG~--------eLvS 316 (370)
++-..+...|++ +.+++++...-|..++.+++.+...-++--.||+-+..|+-...+.. -|+ .-++
T Consensus 159 ~~~~~l~~~G~~~iivt~i~~~g~~~g~~~~~~~~i~~~~~ipvia~GGi~s~~di~~~~~~g~~dgv~~g~a~~~~~~~ 238 (254)
T TIGR00735 159 EWAKEVEKLGAGEILLTSMDKDGTKSGYDLELTKAVSEAVKIPVIASGGAGKPEHFYEAFTKGKADAALAASVFHYREIT 238 (254)
T ss_pred HHHHHHHHcCCCEEEEeCcCcccCCCCCCHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCcceeeEhHHHhCCCCC
Confidence 555666777876 34555655566788899999998776777899999999999888754 342 3467
Q ss_pred HHHHHHHHHhhhhcCCCe
Q 017530 317 PDDLSQACSLWEKFDVPV 334 (370)
Q Consensus 317 P~Dl~~Ac~~~~~l~lp~ 334 (370)
.+++++.|+ ..+.|+
T Consensus 239 ~~~~~~~~~---~~gi~~ 253 (254)
T TIGR00735 239 IGEVKEYLA---ERGIPV 253 (254)
T ss_pred HHHHHHHHH---HCCCcc
Confidence 777666665 445444
No 68
>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=21.23 E-value=1.3e+02 Score=22.29 Aligned_cols=51 Identities=22% Similarity=0.378 Sum_probs=35.0
Q ss_pred EEEeeceeEEeeCCCCCceEEeeccceeeecccCCCcccccCCCceeeeec
Q 017530 53 FILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSPRFRFQVS 103 (370)
Q Consensus 53 l~LTTHRIiw~d~~~~~~slslpL~~V~~~~~~~~~~~~~f~s~kI~~~l~ 103 (370)
..+|..+|+-...-=......+|+..|.++...+.++...++-..|.+...
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 456666666553111334579999999999998888776777777765543
No 69
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=20.78 E-value=1.7e+02 Score=24.08 Aligned_cols=57 Identities=16% Similarity=0.232 Sum_probs=40.4
Q ss_pred hcccCceeehHHHHHHHHHhhcCCCCCHHHHHHHHHhhhhcCCCeEEEEeCCceEEEEcC
Q 017530 290 LERAGGMINLIDVYCLFNRARGTALISPDDLSQACSLWEKFDVPVMLRKFDSGVMAIQSK 349 (370)
Q Consensus 290 l~k~gGmitL~dl~~~~NRaRG~eLvSP~Dl~~Ac~~~~~l~lp~~lr~f~SG~~Vvq~~ 349 (370)
+....+-+|..|+|.... .+|. =||+..+.++++.|+..|+=.++ .+++|...-...
T Consensus 17 l~~~~~~~ta~ei~~~l~-~~~~-~is~~TVYR~L~~L~e~Gli~~~-~~~~~~~~Y~~~ 73 (120)
T PF01475_consen 17 LKESPEHLTAEEIYDKLR-KKGP-RISLATVYRTLDLLEEAGLIRKI-EFGDGESRYELS 73 (120)
T ss_dssp HHHHSSSEEHHHHHHHHH-HTTT-T--HHHHHHHHHHHHHTTSEEEE-EETTSEEEEEES
T ss_pred HHcCCCCCCHHHHHHHhh-hccC-CcCHHHHHHHHHHHHHCCeEEEE-EcCCCcceEeec
Confidence 344556899999999988 4554 35999999999999998864443 566666555443
No 70
>PRK13670 hypothetical protein; Provisional
Probab=20.40 E-value=1.4e+02 Score=30.66 Aligned_cols=69 Identities=25% Similarity=0.330 Sum_probs=45.4
Q ss_pred hhhhHHHHHHHHHHH--hhchh----cccCceeehHHHHHHHHHhh--cCCC----------CCHHHHHH-HHHhhhhcC
Q 017530 271 GALYHQQLSRQLADF--VKIPL----ERAGGMINLIDVYCLFNRAR--GTAL----------ISPDDLSQ-ACSLWEKFD 331 (370)
Q Consensus 271 ~~~y~~eLarqlae~--l~~~l----~k~gGmitL~dl~~~~NRaR--G~eL----------vSP~Dl~~-Ac~~~~~l~ 331 (370)
|-.|+-+=+++++.- ....+ -..|. ..+.+.|.|-.-|. |+++ .||++|.+ |++++++++
T Consensus 16 GH~~~i~~a~~~a~~~~~~~Vmp~~f~qrg~-p~i~~~~~R~~~a~~~GvD~vielpf~~a~~sae~F~~~aV~iL~~l~ 94 (388)
T PRK13670 16 GHLYHLNQAKKLTNADVTIAVMSGNFVQRGE-PAIVDKWTRAKMALENGVDLVVELPFLYSVQSADFFAEGAVSILDALG 94 (388)
T ss_pred HHHHHHHHHHHHHhCCCcEEEecHHHhCCCC-CCCCCHHHHHHHHHHcCCCEEEEeCCchHhCCHHHHHHhHHHHHHHcC
Confidence 678888888888762 11111 12233 55777777776664 7654 59999996 799997777
Q ss_pred CCeEEEEeCCc
Q 017530 332 VPVMLRKFDSG 342 (370)
Q Consensus 332 lp~~lr~f~SG 342 (370)
++-..|++-
T Consensus 95 --v~~lv~G~e 103 (388)
T PRK13670 95 --VDSLVFGSE 103 (388)
T ss_pred --CCEEEEcCC
Confidence 555566533
Done!