Query 002385
Match_columns 929
No_of_seqs 221 out of 398
Neff 3.6
Searched_HMMs 46136
Date Thu Mar 28 22:50:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002385.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002385hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1525 Sister chromatid cohes 100.0 7.8E-51 1.7E-55 490.2 20.8 246 13-261 4-257 (1266)
2 KOG1525 Sister chromatid cohes 99.7 3E-17 6.6E-22 200.7 15.1 247 13-262 409-672 (1266)
3 PF09465 LBR_tudor: Lamin-B re 99.0 9E-10 2E-14 93.0 6.3 43 712-754 7-49 (55)
4 smart00333 TUDOR Tudor domain. 97.5 0.00026 5.7E-09 58.1 5.8 44 712-757 4-48 (57)
5 smart00743 Agenet Tudor-like d 97.3 0.00052 1.1E-08 57.7 5.5 36 712-748 4-39 (61)
6 cd04508 TUDOR Tudor domains ar 97.2 0.00076 1.7E-08 53.7 5.6 43 714-757 1-44 (48)
7 PF09038 53-BP1_Tudor: Tumour 95.8 0.013 2.9E-07 57.2 5.2 45 709-754 1-45 (122)
8 PF06003 SMN: Survival motor n 94.5 0.08 1.7E-06 57.5 6.8 47 712-758 70-117 (264)
9 KOG4675 Uncharacterized conser 92.3 0.07 1.5E-06 58.3 1.9 57 706-768 154-211 (273)
10 KOG1992 Nuclear export recepto 90.2 2.6 5.7E-05 52.4 12.2 117 118-239 603-731 (960)
11 PF03378 CAS_CSE1: CAS/CSE pro 84.4 5.3 0.00011 46.6 9.9 140 80-228 45-194 (435)
12 PF05641 Agenet: Agenet domain 81.7 2.8 6E-05 36.7 4.9 34 713-747 3-39 (68)
13 KOG1060 Vesicle coat complex A 79.3 14 0.00031 46.3 11.1 200 29-257 213-460 (968)
14 PF01602 Adaptin_N: Adaptin N 79.0 22 0.00049 40.6 12.3 24 69-92 275-298 (526)
15 PF15057 DUF4537: Domain of un 77.1 5.5 0.00012 39.1 5.8 41 714-755 1-41 (124)
16 PF14500 MMS19_N: Dos2-interac 73.8 26 0.00056 38.4 10.4 171 68-265 6-183 (262)
17 PF11717 Tudor-knot: RNA bindi 73.1 9.1 0.0002 32.4 5.4 38 713-751 3-42 (55)
18 PF01602 Adaptin_N: Adaptin N 73.1 5.1 0.00011 45.7 5.2 116 67-203 120-241 (526)
19 PTZ00429 beta-adaptin; Provisi 72.8 72 0.0016 40.1 15.1 146 59-230 256-401 (746)
20 PF12348 CLASP_N: CLASP N term 72.6 1E+02 0.0022 31.7 13.9 181 24-224 17-204 (228)
21 KOG0213 Splicing factor 3b, su 72.4 64 0.0014 40.8 14.0 132 26-162 507-688 (1172)
22 KOG0644 Uncharacterized conser 71.2 4.9 0.00011 50.2 4.7 44 713-756 981-1036(1113)
23 KOG1248 Uncharacterized conser 68.4 1.2E+02 0.0027 39.8 15.8 157 73-238 709-873 (1176)
24 KOG1248 Uncharacterized conser 67.9 63 0.0014 42.2 13.2 144 90-238 250-395 (1176)
25 KOG1949 Uncharacterized conser 66.6 1.1E+02 0.0023 38.8 14.1 145 23-207 206-374 (1005)
26 PF00567 TUDOR: Tudor domain; 66.6 12 0.00027 33.5 5.3 47 710-757 51-98 (121)
27 PF05918 API5: Apoptosis inhib 66.0 54 0.0012 40.0 11.7 143 8-163 173-318 (556)
28 PF02985 HEAT: HEAT repeat; I 64.2 3 6.5E-05 31.1 0.7 25 68-92 7-31 (31)
29 KOG1060 Vesicle coat complex A 61.2 1.5E+02 0.0033 37.8 14.2 156 55-239 318-475 (968)
30 KOG1241 Karyopherin (importin) 58.3 62 0.0013 40.8 10.4 47 67-116 557-607 (859)
31 PF03224 V-ATPase_H_N: V-ATPas 57.3 1.9E+02 0.004 32.0 13.2 123 28-166 27-157 (312)
32 PF05327 RRN3: RNA polymerase 56.2 83 0.0018 38.0 11.1 100 23-138 45-155 (563)
33 KOG1488 Translational represso 55.9 38 0.00083 40.7 8.1 92 149-250 279-376 (503)
34 PF12348 CLASP_N: CLASP N term 55.5 91 0.002 32.0 9.9 137 78-225 24-163 (228)
35 PF08605 Rad9_Rad53_bind: Fung 54.3 25 0.00055 35.2 5.4 35 714-750 13-47 (131)
36 KOG2023 Nuclear transport rece 54.0 41 0.00089 41.9 7.9 110 129-242 580-711 (885)
37 KOG0915 Uncharacterized conser 53.5 88 0.0019 42.1 11.1 87 28-118 989-1094(1702)
38 smart00139 MyTH4 Domain in Myo 52.4 1.9E+02 0.0042 29.1 11.3 101 149-256 18-128 (144)
39 PF12612 TFCD_C: Tubulin foldi 50.4 1.1E+02 0.0023 31.8 9.4 111 77-205 23-139 (193)
40 PTZ00429 beta-adaptin; Provisi 50.4 93 0.002 39.2 10.5 80 68-165 147-229 (746)
41 KOG4256 Kinetochore component 50.3 1.2E+02 0.0026 39.8 11.1 31 65-96 498-528 (2209)
42 PF12719 Cnd3: Nuclear condens 49.8 1.7E+02 0.0037 32.1 11.3 174 63-245 67-289 (298)
43 PF03224 V-ATPase_H_N: V-ATPas 49.5 58 0.0013 35.8 7.8 113 55-186 146-270 (312)
44 PF12717 Cnd1: non-SMC mitotic 48.9 1.3E+02 0.0029 30.5 9.7 78 70-164 72-159 (178)
45 COG5215 KAP95 Karyopherin (imp 48.2 1.8E+02 0.0038 36.3 11.7 118 149-266 531-699 (858)
46 PF12755 Vac14_Fab1_bd: Vacuol 47.9 48 0.001 31.3 5.9 60 68-135 34-94 (97)
47 KOG3026 Splicing factor SPF30 47.7 19 0.00041 39.6 3.6 35 713-747 93-127 (262)
48 PF12074 DUF3554: Domain of un 46.8 4.5E+02 0.0098 29.3 15.4 95 27-132 36-136 (339)
49 PF14911 MMS22L_C: S-phase gen 46.6 1.6E+02 0.0036 34.4 10.9 162 101-262 139-336 (373)
50 PF02237 BPL_C: Biotin protein 45.0 62 0.0013 26.7 5.4 39 713-754 2-40 (48)
51 KOG0301 Phospholipase A2-activ 44.4 1.9E+02 0.0042 36.2 11.4 92 27-127 539-649 (745)
52 PLN00104 MYST -like histone ac 43.6 37 0.00079 40.3 5.4 37 712-748 55-97 (450)
53 PF13764 E3_UbLigase_R4: E3 ub 43.2 1.7E+02 0.0036 37.4 11.1 205 17-246 44-280 (802)
54 cd00256 VATPase_H VATPase_H, r 42.7 4.4E+02 0.0095 31.5 13.8 94 74-187 157-260 (429)
55 PF14911 MMS22L_C: S-phase gen 42.6 4.4E+02 0.0096 31.0 13.6 123 23-165 223-347 (373)
56 KOG4338 Predicted lipoprotein 41.6 1.5E+02 0.0033 40.3 10.6 30 81-113 367-396 (1680)
57 PF11935 DUF3453: Domain of un 41.3 3.6E+02 0.0078 29.1 12.0 172 51-255 35-210 (239)
58 PF08767 CRM1_C: CRM1 C termin 41.1 4.4E+02 0.0094 29.7 13.0 100 28-137 89-198 (319)
59 PF13513 HEAT_EZ: HEAT-like re 40.2 37 0.00079 27.7 3.4 47 40-88 9-55 (55)
60 PF11864 DUF3384: Domain of un 39.5 5.1E+02 0.011 30.6 13.8 111 121-237 147-260 (464)
61 cd07920 Pumilio Pumilio-family 39.4 2.6E+02 0.0057 30.2 10.7 14 244-257 234-248 (322)
62 KOG2022 Nuclear transport rece 39.3 4E+02 0.0087 34.7 13.2 184 55-257 701-919 (982)
63 KOG2062 26S proteasome regulat 39.2 2.3E+02 0.0049 36.2 11.0 51 195-246 292-342 (929)
64 PF02565 RecO_C: Recombination 38.3 73 0.0016 28.9 5.5 59 77-139 5-64 (118)
65 KOG1949 Uncharacterized conser 37.4 2.3E+02 0.005 36.1 10.6 152 63-224 173-369 (1005)
66 cd00020 ARM Armadillo/beta-cat 36.5 76 0.0016 28.1 5.2 64 69-138 15-79 (120)
67 PF08568 Kinetochor_Ybp2: Unch 35.9 3.9E+02 0.0085 32.7 12.5 125 26-186 36-177 (633)
68 PF10508 Proteasom_PSMB: Prote 34.1 4.6E+02 0.01 31.3 12.4 114 69-189 85-213 (503)
69 KOG1062 Vesicle coat complex A 33.7 3.4E+02 0.0074 34.8 11.4 165 58-243 384-568 (866)
70 PF12460 MMS19_C: RNAPII trans 33.5 8.1E+02 0.017 28.3 14.8 229 21-254 5-255 (415)
71 cd04405 RhoGAP_BRCC3-like RhoG 32.4 1.9E+02 0.004 32.1 8.1 108 102-209 104-227 (235)
72 KOG0211 Protein phosphatase 2A 32.3 8.2E+02 0.018 31.4 14.5 145 61-226 519-667 (759)
73 PF05327 RRN3: RNA polymerase 31.7 3.6E+02 0.0078 32.8 11.2 106 83-202 282-394 (563)
74 PF04118 Dopey_N: Dopey, N-ter 30.7 2.7E+02 0.0058 31.7 9.3 41 97-138 127-168 (307)
75 COG5096 Vesicle coat complex, 30.4 2.2E+02 0.0048 36.2 9.3 24 68-91 134-157 (757)
76 KOG1059 Vesicle coat complex A 29.9 6.8E+02 0.015 32.2 12.9 170 53-233 175-409 (877)
77 cd00280 TRFH Telomeric Repeat 29.8 2.5E+02 0.0054 30.4 8.3 101 54-162 32-139 (200)
78 smart00288 VHS Domain present 29.3 1.4E+02 0.0031 29.4 6.1 68 165-233 10-77 (133)
79 PLN03076 ARF guanine nucleotid 28.8 4.5E+02 0.0098 36.7 12.3 129 31-165 374-516 (1780)
80 KOG2259 Uncharacterized conser 28.7 3.8E+02 0.0083 34.0 10.5 123 101-257 384-510 (823)
81 KOG0686 COP9 signalosome, subu 28.5 35 0.00075 40.3 2.0 116 75-204 269-396 (466)
82 COG5215 KAP95 Karyopherin (imp 28.0 1E+03 0.022 30.2 13.7 221 34-261 473-735 (858)
83 PF11707 Npa1: Ribosome 60S bi 28.0 2.9E+02 0.0063 31.1 9.0 164 25-238 147-315 (330)
84 COG5231 VMA13 Vacuolar H+-ATPa 27.9 1.2E+02 0.0026 35.4 5.9 55 141-195 216-277 (432)
85 PRK05686 fliG flagellar motor 27.4 4.2E+02 0.0092 30.0 10.2 44 67-117 31-74 (339)
86 PF02854 MIF4G: MIF4G domain; 26.9 5.4E+02 0.012 25.2 9.8 166 13-203 3-180 (209)
87 PF13001 Ecm29: Proteasome sta 26.9 3.3E+02 0.007 32.6 9.6 121 143-264 264-412 (501)
88 PF04286 DUF445: Protein of un 26.8 7.6E+02 0.016 27.1 11.8 45 215-261 301-345 (367)
89 PF02854 MIF4G: MIF4G domain; 26.6 6.2E+02 0.013 24.8 11.2 49 189-237 118-173 (209)
90 PF05997 Nop52: Nucleolar prot 26.6 8.2E+02 0.018 26.3 12.6 121 33-162 19-140 (217)
91 PF01423 LSM: LSM domain ; In 26.5 84 0.0018 26.9 3.6 29 710-739 4-32 (67)
92 PF08558 TRF: Telomere repeat 26.1 1.7E+02 0.0037 31.9 6.6 123 81-207 11-157 (238)
93 cd08050 TAF6 TATA Binding Prot 25.6 1.1E+03 0.023 27.1 13.5 127 101-241 174-319 (343)
94 cd00197 VHS_ENTH_ANTH VHS, ENT 25.5 1.5E+02 0.0033 27.8 5.4 60 174-234 19-78 (115)
95 PF10165 Ric8: Guanine nucleot 25.3 4.5E+02 0.0098 31.1 10.2 44 226-269 307-351 (446)
96 PF15611 EH_Signature: EH_Sign 25.1 8.4E+02 0.018 27.4 12.0 111 83-207 106-226 (389)
97 cd00600 Sm_like The eukaryotic 25.1 1E+02 0.0022 25.9 3.8 29 710-739 2-30 (63)
98 cd07920 Pumilio Pumilio-family 25.1 9E+02 0.02 26.2 12.4 141 99-258 141-291 (322)
99 PF14631 FancD2: Fanconi anaem 24.3 5.1E+02 0.011 35.4 11.4 150 28-207 962-1123(1426)
100 KOG2759 Vacuolar H+-ATPase V1 24.2 2.3E+02 0.0049 33.9 7.4 104 71-188 167-274 (442)
101 PF00514 Arm: Armadillo/beta-c 24.1 35 0.00076 26.5 0.8 22 69-90 20-41 (41)
102 KOG1058 Vesicle coat complex C 23.6 1.5E+02 0.0033 37.7 6.2 29 69-97 142-173 (948)
103 PF04147 Nop14: Nop14-like fam 23.6 1.8E+02 0.004 37.0 7.1 42 189-230 486-527 (840)
104 cd03568 VHS_STAM VHS domain fa 23.0 1.9E+02 0.0041 29.2 5.8 69 164-233 9-77 (144)
105 smart00543 MIF4G Middle domain 22.8 7.4E+02 0.016 24.4 13.0 133 81-229 16-155 (200)
106 cd07961 Anticodon_Ia_Ile_ABEc 22.8 1.1E+02 0.0023 31.0 4.0 27 79-105 112-138 (183)
107 PF02576 DUF150: Uncharacteris 22.7 1.3E+02 0.0028 29.8 4.6 41 708-750 81-124 (141)
108 PF00790 VHS: VHS domain; Int 22.0 2.5E+02 0.0055 27.6 6.4 69 163-232 13-81 (140)
109 KOG1991 Nuclear transport rece 21.9 2E+03 0.043 29.1 15.6 196 32-242 616-816 (1010)
110 PRK14637 hypothetical protein; 21.9 1.4E+02 0.0029 30.7 4.6 32 707-738 91-122 (151)
111 KOG2022 Nuclear transport rece 21.7 6.8E+02 0.015 32.7 11.1 90 146-238 499-592 (982)
112 PF14868 DUF4487: Domain of un 21.7 6.2E+02 0.013 31.3 10.6 123 102-241 377-509 (559)
113 KOG4327 mRNA splicing protein 21.5 67 0.0014 34.7 2.4 44 713-756 70-114 (218)
114 PF07039 DUF1325: SGF29 tudor- 21.3 1.9E+02 0.0041 28.9 5.3 39 713-751 74-113 (130)
115 PF07637 PSD5: Protein of unkn 21.2 2.1E+02 0.0045 25.2 5.0 59 10-72 3-61 (64)
116 PF10363 DUF2435: Protein of u 21.2 6.7E+02 0.015 23.6 8.7 82 155-237 3-87 (92)
117 KOG4338 Predicted lipoprotein 21.2 5.5E+02 0.012 35.4 10.6 154 96-267 335-494 (1680)
118 KOG2753 Uncharacterized conser 21.1 4.6E+02 0.01 30.8 8.9 102 153-254 63-172 (378)
119 cd07958 Anticodon_Ia_Leu_BEm A 20.7 1.9E+02 0.0041 26.1 4.9 29 77-105 87-115 (117)
120 PF14675 FANCI_S1: FANCI solen 20.6 3.2E+02 0.007 29.8 7.3 146 85-238 26-178 (223)
121 PF12825 DUF3818: Domain of un 20.6 9.3E+02 0.02 27.9 11.3 80 86-165 160-252 (341)
122 KOG1991 Nuclear transport rece 20.5 3E+02 0.0065 36.0 7.9 55 73-137 435-491 (1010)
123 COG5218 YCG1 Chromosome conden 20.2 1.9E+03 0.041 28.1 16.0 86 127-217 66-152 (885)
124 KOG2344 Exocyst component prot 20.2 1.6E+02 0.0036 36.4 5.6 34 221-258 382-415 (623)
125 PRK14086 dnaA chromosomal repl 20.2 4.5E+02 0.0098 32.8 9.2 74 128-202 399-478 (617)
126 cd00020 ARM Armadillo/beta-cat 20.1 1.9E+02 0.0041 25.6 4.7 61 69-136 57-119 (120)
No 1
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7.8e-51 Score=490.17 Aligned_cols=246 Identities=34% Similarity=0.550 Sum_probs=234.4
Q ss_pred HHHHhccccCCCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhc
Q 002385 13 QLKDAGNLLLNPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRIT 92 (929)
Q Consensus 13 ~l~~~G~kLisppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIy 92 (929)
+.-.-||+++..+++++|||+||++|++||+.++|++.+ .++|.|++.||++++||+|+|+|||+||||||+||||||
T Consensus 4 ~~~~~g~~~~~~~~s~~ell~rLk~l~~~l~~~~qd~~~--~~~~~pl~~~l~~~~~L~h~d~dvrllvacCvseilRi~ 81 (1266)
T KOG1525|consen 4 QFYPPGCLTSLNPISKDELLKRLKKLANCLASLDQDNLD--LASLLPLADHLIKDFLLKHKDKDVRLLVACCVSEILRIY 81 (1266)
T ss_pred cccCCCCccccCcccHHHHHHHHHHHHHHHhhcccCchh--HHHHHHHHHHHhhHHHhcCCCcChhHHHHHHHHHHHHHh
Confidence 445679999999999999999999999999999999866 999999999999999999999999999999999999999
Q ss_pred CCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhH
Q 002385 93 APDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFV 172 (929)
Q Consensus 93 APDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV 172 (929)
||||||++.||+|||+||++||.||.|+.+|||.|||||||+||+||.|++|.|.+|++|+.+||++||+++|.+||.+|
T Consensus 82 aPeaPy~~~~lkdIf~~~~~q~~gL~d~~sp~f~r~~~lletl~~~k~~l~~~l~d~~e~~~~~f~~f~d~~~~~~~~~v 161 (1266)
T KOG1525|consen 82 APEAPYTDEQLKDIFQLILSQFSGLGDVESPYFKRYFYLLETLAKVKFCLLMLLEDCQELVHELFRTFFDLARKGHPKKV 161 (1266)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHhhccCCCCcchhhHHHHHHHHHHhHHHheeeccchHHHHHHHHHHHHHHHhccccHHH
Confidence 99999999999999999999999999999999999999999999999888888888999999999999999999999999
Q ss_pred HHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhc-------CCC-Cc
Q 002385 173 FAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSR-------GIA-LD 244 (929)
Q Consensus 173 ~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~-------Gi~-ld 244 (929)
+. |.+||+.+|.|.+.||.++|++||.+|+++.+++.+.|+.||..+|..|++.+.+.|++||+++ +.+ ..
T Consensus 162 ~~-~~~i~~~li~e~d~v~~e~L~~ll~~lv~~~~~~~~~a~~la~~li~~~a~~~~~~i~~f~~~~~~~~~s~~~~~~~ 240 (1266)
T KOG1525|consen 162 FN-MLDIAIMLITEEDTVQSELLDVLLENLVKPGRDTIKEADKLASDLIERCADNLEDTIANFLNSCLTEYKSRQSSLKI 240 (1266)
T ss_pred HH-HHHHHHHHHHhhccchHHHHHHHHHHhccCCCCccHHHHHHHHHHHHHhhhhhchhHHHHHHHHHhhccccccchhh
Confidence 99 9999999999999999999999999999999999999999999999999999999999999984 222 37
Q ss_pred hhHHHHHHHhccCCCCC
Q 002385 245 DYAEIVACICGSDDENP 261 (929)
Q Consensus 245 ~Y~eIV~sI~q~~s~~l 261 (929)
.||+||+.+..+++.+|
T Consensus 241 ~~he~i~~L~~~~p~ll 257 (1266)
T KOG1525|consen 241 KYHELILELWRIAPQLL 257 (1266)
T ss_pred HHHHHHHHHHHhhHHHH
Confidence 89999999999987765
No 2
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=99.72 E-value=3e-17 Score=200.70 Aligned_cols=247 Identities=31% Similarity=0.376 Sum_probs=232.0
Q ss_pred HHHHhccccCCCCCC--HHHHHHHHHHH--------HHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhh
Q 002385 13 QLKDAGNLLLNPPSP--VDEVINLLDKV--------EHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVT 82 (929)
Q Consensus 13 ~l~~~G~kLisppiS--~dELLKRLkkL--------~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVA 82 (929)
+++.+|.+.+.++++ .++||..+-+. +-.|..+.|....++.+++.+++..|+.=.+..|++-++.+-..
T Consensus 409 ~~~~~~~k~~t~~~swIp~kLL~~~y~~~~~~r~~vE~il~~~L~P~~l~~q~Rmk~l~~~l~~~D~~a~kaf~~i~~~q 488 (1266)
T KOG1525|consen 409 CLRSAGGKEITPPFSWIPDKLLHLYYENDLDDRLLVERILAEYLVPYPLSTQERMKHLYQLLAGLDLNAHKAFNEILKRQ 488 (1266)
T ss_pred HhhccCcccccccccccchhHHhhHhhccccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcccHhhhhHHHHHHHHH
Confidence 677899999999999 99999999877 78888999988888999999999999999999999999999999
Q ss_pred HHHHHHhh--hcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHH--HHHHHhhhhceeeeecc---CCchHHHHH
Q 002385 83 SCISEITR--ITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKAL--SILDTVAKVRSCLLMLD---LECDKLVVE 155 (929)
Q Consensus 83 cCLADILR--IyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~--yLLEtLAeVKS~VLMlD---Le~ddLI~e 155 (929)
.||.+++| |.+|..||+++.|+.||..|+..+..|.|+.+..|.... .+|+.++.+++|+.|++ +.|.++...
T Consensus 489 ~~ls~~vr~~I~~~k~~~~d~~~k~i~~~i~~i~~~lpD~~s~~~~~~~f~~~L~~~~~~~s~~~~L~~~~~~C~~l~~~ 568 (1266)
T KOG1525|consen 489 SRLSEEVRDYITLSKTPNTDDSMKKIFSKIVKISENLPDPSSRSYDSMKFADVLETLAKVRSCLVSLDSPSISCKELLIT 568 (1266)
T ss_pred HHHHHHHHHHhccccCCCccHhHHHHHHHHHHHHHhcCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHH
Confidence 99999999 999999999999999999999999999999887655544 59999999999999999 559999999
Q ss_pred HHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHH
Q 002385 156 MFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEA 235 (929)
Q Consensus 156 LFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~ 235 (929)
||+.||..++..|+.+++..|..+|++.|.+ |+.+++..|+..+...+......+..+++.|+..|+-++..||.+.
T Consensus 569 v~~~l~e~~~~~~s~nlF~~~~~~li~~I~~---v~~di~~s~~~~ik~~~~~i~~~~~~l~e~v~~~~a~kl~~~lle~ 645 (1266)
T KOG1525|consen 569 VKEILFELGRKKQSKNLFSSMEKELIERIAE---VSLDILESISALIKLNNIVIAEVSLLLLEGVLSEKALKLKKYLLEA 645 (1266)
T ss_pred HHHHHHHHhhhccccchHHHHHHHHHHHhcc---hhhhhHHHHHHHHhhhhhhHHHHHhhcccccchhhHHhHHHHHHHH
Confidence 9999999999999999999999999999999 9999999999999988888899999999999999999999999999
Q ss_pred HHhcCCCCchhHHHHHHHhccCCCCCC
Q 002385 236 VQSRGIALDDYAEIVACICGSDDENPQ 262 (929)
Q Consensus 236 fnS~Gi~ld~Y~eIV~sI~q~~s~~l~ 262 (929)
|...+-.++-|++++.+||++.....+
T Consensus 646 ls~~~~~~~~~s~~v~~i~~~~~~~~~ 672 (1266)
T KOG1525|consen 646 LSSIHPDLFKYSESVLSILEKLFSEPD 672 (1266)
T ss_pred hhhcCcchhhhhHHHHHHHHHhccchh
Confidence 999999999999999999999887773
No 3
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=98.98 E-value=9e-10 Score=92.98 Aligned_cols=43 Identities=35% Similarity=0.676 Sum_probs=35.9
Q ss_pred ccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCCCcceee
Q 002385 712 LVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYADGDEEIL 754 (929)
Q Consensus 712 lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDDGD~E~L 754 (929)
-.|.+|.+|||++..||+|+|++||..+..|+|.|+||++..|
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGtel~l 49 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGTELEL 49 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-EEEE
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCCEEEe
Confidence 3799999999999999999999999999999999999999544
No 4
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=97.46 E-value=0.00026 Score=58.11 Aligned_cols=44 Identities=23% Similarity=0.530 Sum_probs=39.8
Q ss_pred ccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCC-CcceeeecC
Q 002385 712 LVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYAD-GDEEILNLK 757 (929)
Q Consensus 712 lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDD-GD~E~L~L~ 757 (929)
-+|..|.+.| .|..||.|+|+.+++. +...|.|.| |..+++.+.
T Consensus 4 ~~G~~~~a~~-~d~~wyra~I~~~~~~-~~~~V~f~D~G~~~~v~~~ 48 (57)
T smart00333 4 KVGDKVAARW-EDGEWYRARIIKVDGE-QLYEVFFIDYGNEEVVPPS 48 (57)
T ss_pred CCCCEEEEEe-CCCCEEEEEEEEECCC-CEEEEEEECCCccEEEeHH
Confidence 3799999999 9999999999999987 889999998 999988754
No 5
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=97.27 E-value=0.00052 Score=57.65 Aligned_cols=36 Identities=19% Similarity=0.337 Sum_probs=33.6
Q ss_pred ccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCC
Q 002385 712 LVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYAD 748 (929)
Q Consensus 712 lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDD 748 (929)
.+|.+|.|||+.+..||.|+|+.++. .+++.|.|++
T Consensus 4 ~~G~~Ve~~~~~~~~W~~a~V~~~~~-~~~~~V~~~~ 39 (61)
T smart00743 4 KKGDRVEVFSKEEDSWWEAVVTKVLG-DGKYLVRYLT 39 (61)
T ss_pred CCCCEEEEEECCCCEEEEEEEEEECC-CCEEEEEECC
Confidence 37999999999999999999999998 6789999998
No 6
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=97.21 E-value=0.00076 Score=53.68 Aligned_cols=43 Identities=19% Similarity=0.411 Sum_probs=38.3
Q ss_pred CCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCC-CcceeeecC
Q 002385 714 GSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYAD-GDEEILNLK 757 (929)
Q Consensus 714 G~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDD-GD~E~L~L~ 757 (929)
|..|-+.|+.|..||.|+|..+++ ...-.|.|.| |..+.+.+.
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~-~~~~~V~f~DyG~~~~v~~~ 44 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS-DGKVEVFFVDYGNTEVVPLS 44 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC-CCcEEEEEEcCCCcEEEeHH
Confidence 678899999999999999999998 6778899998 999987654
No 7
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=95.84 E-value=0.013 Score=57.24 Aligned_cols=45 Identities=24% Similarity=0.475 Sum_probs=34.9
Q ss_pred cccccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCCCcceee
Q 002385 709 NEQLVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYADGDEEIL 754 (929)
Q Consensus 709 ge~lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDDGD~E~L 754 (929)
|.++||.||---|-.+.-||.|+|+.. ....+.+|.+|||.+..|
T Consensus 1 ~~~~iG~rV~AkWS~n~yyY~G~I~~~-~~~~kykv~FdDG~~~~v 45 (122)
T PF09038_consen 1 GSSFIGLRVFAKWSDNGYYYPGKITSD-KGKNKYKVLFDDGYECRV 45 (122)
T ss_dssp ---STT-EEEEESSTTSEEEEEEEEEE-ETTTEEEEEETTS-EEEE
T ss_pred CCcccccEEEEEEccCCcccCceEeec-CCCCeEEEEecCCcccee
Confidence 568999999999997777799999995 667889999999998644
No 8
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=94.53 E-value=0.08 Score=57.49 Aligned_cols=47 Identities=21% Similarity=0.429 Sum_probs=40.2
Q ss_pred ccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcC-CCcceeeecCc
Q 002385 712 LVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYA-DGDEEILNLKK 758 (929)
Q Consensus 712 lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YD-DGD~E~L~L~~ 758 (929)
-||-+|...|-.|..||.++|++.+...+.-.|+|. -|..|++.|..
T Consensus 70 kvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~~~~V~f~gYgn~e~v~l~d 117 (264)
T PF06003_consen 70 KVGDKCMAVYSEDGQYYPATIESIDEEDGTCVVVFTGYGNEEEVNLSD 117 (264)
T ss_dssp -TT-EEEEE-TTTSSEEEEEEEEEETTTTEEEEEETTTTEEEEEEGGG
T ss_pred CCCCEEEEEECCCCCEEEEEEEEEcCCCCEEEEEEcccCCeEeeehhh
Confidence 399999999999999999999999999999999998 57788888874
No 9
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=92.35 E-value=0.07 Score=58.32 Aligned_cols=57 Identities=23% Similarity=0.481 Sum_probs=42.5
Q ss_pred CcccccccCCeEEEeeCCCCceEEEEEEEecC-CCCeEEEEcCCCcceeeecCcceEEEeeCCC
Q 002385 706 PALNEQLVGSRIKVWWPMDETFYKGVVDNYDP-IKKKHRILYADGDEEILNLKKERWELIKGGS 768 (929)
Q Consensus 706 ~~~ge~lVG~RVkV~WP~D~~wY~G~V~syd~-~tkkH~V~YDDGD~E~L~L~~Ek~e~l~~~s 768 (929)
...++.+||++|..-||+++.||++.|+.|+. ...+|.+.||--+ -.+-|+|++...
T Consensus 154 n~pp~slvgr~v~~k~pdk~~~te~iit~~~~~~E~~~~l~~~~~~------~~~p~~wvdl~~ 211 (273)
T KOG4675|consen 154 NVPPESLVGRKVWIKWPDKRKFTEAIITQYDAEKEGHHLLVPDIND------CNDPWEWVDLRE 211 (273)
T ss_pred cCCchhhccccccccCcccccccccccccchhhhhhhhhccccccc------ccCCcccccccc
Confidence 44566799999999999999999999999555 5567888888433 344555555443
No 10
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=90.25 E-value=2.6 Score=52.36 Aligned_cols=117 Identities=9% Similarity=0.123 Sum_probs=74.0
Q ss_pred CCCCCcchHHHHHHHHHhhhhceeeeeccCC---chHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCC-CcHH
Q 002385 118 SHASGRYYMKALSILDTVAKVRSCLLMLDLE---CDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESED-VSWD 193 (929)
Q Consensus 118 aD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe---~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~-VP~e 193 (929)
.+|++|.| ++||+|+++-+= ...++-+ --.+...||=.|-.+.+.+. .....+...||..+++-+.. +|..
T Consensus 603 KNPs~P~f--nHYLFEsi~~li--~~t~~~~~~~vs~~e~aL~p~fq~Il~eDI-~EfiPYvfQlla~lve~~~~~ip~~ 677 (960)
T KOG1992|consen 603 KNPSNPQF--NHYLFESIGLLI--RKTCKANPSAVSSLEEALFPVFQTILSEDI-QEFIPYVFQLLAVLVEHSSGTIPDS 677 (960)
T ss_pred cCCCCchh--HHHHHHHHHHHH--HHHhccCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhcCCCCchh
Confidence 34666765 578999997651 1112332 12466777755555545443 34556778899999998876 7765
Q ss_pred HH---HHHHHHhhccCCCCChhhHHHHHHHHhhchHHHH-----HHHHHHHHhc
Q 002385 194 LL---RILLASVRKENQDVSPTSWKLGEKVFTKCAAKLK-----TNLKEAVQSR 239 (929)
Q Consensus 194 LL---DvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~-----p~I~q~fnS~ 239 (929)
.. -+||+.-+..-..+.|+.-.|-..+|...+..+. .+|-.+|+.+
T Consensus 678 ~~~l~~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLGifqkL 731 (960)
T KOG1992|consen 678 YSPLFPPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILGIFQKL 731 (960)
T ss_pred HHHHHHHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHHHHHHH
Confidence 43 4444444445577889998999888887776554 4455667755
No 11
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=84.44 E-value=5.3 Score=46.60 Aligned_cols=140 Identities=12% Similarity=0.226 Sum_probs=82.9
Q ss_pred hhhHHHHHHhhhcCCC-CCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhh-ceeeeeccCCch---HHHH
Q 002385 80 SVTSCISEITRITAPD-SPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKV-RSCLLMLDLECD---KLVV 154 (929)
Q Consensus 80 yVAcCLADILRIyAPD-APYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeV-KS~VLMlDLe~d---dLI~ 154 (929)
|+.=||+=|+=++.-+ .||.+.-|.. +.-++... -.+|++|.|. +|+.|+|+.+ |. +++-+.+ .+-.
T Consensus 45 ylMk~iMRvl~~~~e~~~p~~~~il~~-L~~il~~v--~kNPsnP~Fn--HylFEsi~~lir~---~~~~~~~~v~~~E~ 116 (435)
T PF03378_consen 45 YLMKCIMRVLSVLQEDILPIAVEILQH-LTAILKEV--SKNPSNPRFN--HYLFESIGALIRF---VCEADPEAVSQFEE 116 (435)
T ss_dssp HHHHHHHHHHHHSTTTTGGGHHHHHHH-HHHHHHHH--HTS---HHHH--HHHHHHHHHHHHH---S-GGGHH---HHHH
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHH-HHHHHHHH--HhCCCCcchh--hhHHHHHHHHHHh---ccCCChhHHHHHHH
Confidence 6666777666555444 5664422222 22222221 1348888884 5788998876 42 2222222 4556
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccC--CCc---HHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHH
Q 002385 155 EMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESE--DVS---WDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKL 228 (929)
Q Consensus 155 eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE--~VP---~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL 228 (929)
.||-.|..+...+.. ....+.-.||+.+++-.. .+| ..++..||...+.+.+.+.|+.-+|-...|..++..+
T Consensus 117 ~L~P~f~~ILq~dV~-EF~PYvfQIla~Lle~~~~~~~p~~y~~L~~~Ll~p~lWe~~gniPalvrLL~a~i~k~~~~i 194 (435)
T PF03378_consen 117 ALFPPFQEILQQDVQ-EFIPYVFQILAQLLELRPSSPLPDAYKQLFPPLLSPALWERRGNIPALVRLLQAYIKKDPSFI 194 (435)
T ss_dssp HHHHHHHHHHHTT-T-TTHHHHHHHHHHHHHHSS--S--TTTGGGHHHHTSGGGGGSTTTHHHHHHHHHHHHHHHGGG-
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHcCcchhccCCCcCcHHHHHHHHHHhCchhh
Confidence 666666666665543 334555677777777655 555 4678888888888888888998888888888888765
No 12
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=81.69 E-value=2.8 Score=36.73 Aligned_cols=34 Identities=18% Similarity=0.185 Sum_probs=26.8
Q ss_pred cCCeEEEeeCCC---CceEEEEEEEecCCCCeEEEEcC
Q 002385 713 VGSRIKVWWPMD---ETFYKGVVDNYDPIKKKHRILYA 747 (929)
Q Consensus 713 VG~RVkV~WP~D---~~wY~G~V~syd~~tkkH~V~YD 747 (929)
.|.+|.|+--.+ .+||.|+|....... +..|.|+
T Consensus 3 ~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~-~~~V~Y~ 39 (68)
T PF05641_consen 3 KGDEVEVSSDEDGFRGAWFPATVLKENGDD-KYLVEYD 39 (68)
T ss_dssp TT-EEEEEE-SBTT--EEEEEEEEEEETT--EEEEEET
T ss_pred CCCEEEEEEcCCCCCcEEEEEEEEEeCCCc-EEEEEEC
Confidence 588999988664 599999999999865 8999996
No 13
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.31 E-value=14 Score=46.25 Aligned_cols=200 Identities=16% Similarity=0.252 Sum_probs=120.1
Q ss_pred HHHHHHHHHHHHHHHhccc-CCch--hhHHhhHHHHHhhhhhhh--------------------cc---CCCcCeehhhh
Q 002385 29 DEVINLLDKVEHLLANVEQ-APSR--SMRDALLPTMKGLITNDL--------------------LR---RSDMDVRLSVT 82 (929)
Q Consensus 29 dELLKRLkkL~~eLs~vDQ-~pvd--S~~~SL~pl~k~LVs~~L--------------------Lk---HKDkdVRlyVA 82 (929)
+-|-+--++|+..|-+||. +++- .|...| .+..|+.+.. .+ +-|.|+|+++-
T Consensus 213 dLIHknyrklC~ll~dvdeWgQvvlI~mL~RY--AR~~l~~P~~~~~~~e~n~~~~~~~~~~~~~~~P~~~d~D~~lLL~ 290 (968)
T KOG1060|consen 213 DLIHKNYRKLCRLLPDVDEWGQVVLINMLTRY--ARHQLPDPTVVDSSLEDNGRSCNLKDKYNEIRTPYVNDPDLKLLLQ 290 (968)
T ss_pred HHhhHHHHHHHhhccchhhhhHHHHHHHHHHH--HHhcCCCccccccccccCcccccccccccccCCCcccCccHHHHHH
Confidence 4455666788888887754 3332 333333 3456666633 12 23888887743
Q ss_pred --------------HHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC
Q 002385 83 --------------SCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE 148 (929)
Q Consensus 83 --------------cCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe 148 (929)
...|.++-+.||-. |+.-|-+-+|+.|+. .... ++-+|.+||.+-.-
T Consensus 291 stkpLl~S~n~sVVmA~aql~y~lAP~~-----~~~~i~kaLvrLLrs--~~~v-----qyvvL~nIa~~s~~------- 351 (968)
T KOG1060|consen 291 STKPLLQSRNPSVVMAVAQLFYHLAPKN-----QVTKIAKALVRLLRS--NREV-----QYVVLQNIATISIK------- 351 (968)
T ss_pred hccHHHhcCCcHHHHHHHhHHHhhCCHH-----HHHHHHHHHHHHHhc--CCcc-----hhhhHHHHHHHHhc-------
Confidence 23467777777754 888888888886653 2222 23567777765211
Q ss_pred chHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHH
Q 002385 149 CDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKL 228 (929)
Q Consensus 149 ~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL 228 (929)
-..|+.-.|+.|| |+..-|..+-..-..||+.++.|+. -..+|..+..++...+.. .+ ..|..-|.+|+..+
T Consensus 352 ~~~lF~P~lKsFf--v~ssDp~~vk~lKleiLs~La~esn--i~~ILrE~q~YI~s~d~~--fa--a~aV~AiGrCA~~~ 423 (968)
T KOG1060|consen 352 RPTLFEPHLKSFF--VRSSDPTQVKILKLEILSNLANESN--ISEILRELQTYIKSSDRS--FA--AAAVKAIGRCASRI 423 (968)
T ss_pred chhhhhhhhhceE--eecCCHHHHHHHHHHHHHHHhhhcc--HHHHHHHHHHHHhcCchh--HH--HHHHHHHHHHHHhh
Confidence 2356666777777 7777888888888999999999953 345666666777665552 22 24455688898876
Q ss_pred HHHHHHHHHhc--------CCCCchhHHHHHHHhccC
Q 002385 229 KTNLKEAVQSR--------GIALDDYAEIVACICGSD 257 (929)
Q Consensus 229 ~p~I~q~fnS~--------Gi~ld~Y~eIV~sI~q~~ 257 (929)
-..-...|+.+ -.-+.+|.-+|..+.|.+
T Consensus 424 ~sv~~tCL~gLv~Llsshde~Vv~eaV~vIk~Llq~~ 460 (968)
T KOG1060|consen 424 GSVTDTCLNGLVQLLSSHDELVVAEAVVVIKRLLQKD 460 (968)
T ss_pred CchhhHHHHHHHHHHhcccchhHHHHHHHHHHHHhhC
Confidence 43333333311 011455665555555544
No 14
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=79.01 E-value=22 Score=40.56 Aligned_cols=24 Identities=29% Similarity=0.422 Sum_probs=21.4
Q ss_pred hccCCCcCeehhhhHHHHHHhhhc
Q 002385 69 LLRRSDMDVRLSVTSCISEITRIT 92 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILRIy 92 (929)
||.++|..||.++..||..|.+.+
T Consensus 275 lL~s~~~nvr~~~L~~L~~l~~~~ 298 (526)
T PF01602_consen 275 LLSSSDPNVRYIALDSLSQLAQSN 298 (526)
T ss_dssp HHTSSSHHHHHHHHHHHHHHCCHC
T ss_pred HhhcccchhehhHHHHHHHhhccc
Confidence 778999999999999999999886
No 15
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=77.09 E-value=5.5 Score=39.06 Aligned_cols=41 Identities=20% Similarity=0.360 Sum_probs=35.2
Q ss_pred CCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCCCcceeee
Q 002385 714 GSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYADGDEEILN 755 (929)
Q Consensus 714 G~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDDGD~E~L~ 755 (929)
|.+|=..|+.|.-||.|+|..+- ..+...|.+++|+.+.+.
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~-~~~~~lV~f~~~~~~~v~ 41 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV-SSGQFLVEFDDGDTQEVP 41 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc-CCCEEEEEECCCCEEEeC
Confidence 78899999999999999999998 567788888888877653
No 16
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=73.75 E-value=26 Score=38.40 Aligned_cols=171 Identities=12% Similarity=0.185 Sum_probs=98.6
Q ss_pred hhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccC
Q 002385 68 DLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDL 147 (929)
Q Consensus 68 ~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDL 147 (929)
..|.+.|..+|+-.--||++||-=+.|+. .+..|+.-++.||.+-| .|... +...|.-+...+-|-.+
T Consensus 6 ~~Ltsed~~~R~ka~~~Ls~vL~~lp~~~-L~~~ev~~L~~F~~~rl---~D~~~--------~~~~l~gl~~L~~~~~~ 73 (262)
T PF14500_consen 6 EYLTSEDPIIRAKALELLSEVLERLPPDF-LSRQEVQVLLDFFCSRL---DDHAC--------VQPALKGLLALVKMKNF 73 (262)
T ss_pred hhhCCCCHHHHHHHHHHHHHHHHhCCHhh-ccHHHHHHHHHHHHHHh---ccHhh--------HHHHHHHHHHHHhCcCC
Confidence 36788999999999999999997764443 78899999999999866 33322 22222222333333334
Q ss_pred CchHHHHHHHHHHHHHhh-cCCchhHHHHHHHHHHHHhcc----cCCCcHHHHHHHHHHhhccCCCC--ChhhHHHHHHH
Q 002385 148 ECDKLVVEMFQHFLKVIR-SNHPHFVFAAMETIMTLVIDE----SEDVSWDLLRILLASVRKENQDV--SPTSWKLGEKV 220 (929)
Q Consensus 148 e~ddLI~eLFktFF~iVr-~~hp~kV~~~M~dIMs~VIEE----SE~VP~eLLDvIL~~Ll~~~ks~--~PaAy~LA~~V 220 (929)
.. +.+..|.+.||+-+. ..++...+...-.||..+++. ...+..+.+..++..+ .+.++. .-.++.|.
T Consensus 74 ~~-~~~~~i~~~l~~~~~~q~~~q~~R~~~~~ll~~l~~~~~~~l~~~~~~fv~~~i~~~-~gEkDPRnLl~~F~l~--- 148 (262)
T PF14500_consen 74 SP-ESAVKILRSLFQNVDVQSLPQSTRYAVYQLLDSLLENHREALQSMGDDFVYGFIQLI-DGEKDPRNLLLSFKLL--- 148 (262)
T ss_pred Ch-hhHHHHHHHHHHhCChhhhhHHHHHHHHHHHHHHHHHhHHHHHhchhHHHHHHHHHh-ccCCCHHHHHHHHHHH---
Confidence 32 235555555555333 345666666555666555554 3456677777776644 444442 22333333
Q ss_pred HhhchHHHHHHHHHHHHhcCCCCchhHHHHHHHhccCCCCCCCCC
Q 002385 221 FTKCAAKLKTNLKEAVQSRGIALDDYAEIVACICGSDDENPQHGH 265 (929)
Q Consensus 221 I~~CadKL~p~I~q~fnS~Gi~ld~Y~eIV~sI~q~~s~~l~~~~ 265 (929)
+.|.+.|.- +-..+++.+|++.-|=++..-..||.
T Consensus 149 ---------~~i~~~~~~-~~~~e~lFd~~~cYFPI~F~pp~~dp 183 (262)
T PF14500_consen 149 ---------KVILQEFDI-SEFAEDLFDVFSCYFPITFRPPPNDP 183 (262)
T ss_pred ---------HHHHHhccc-chhHHHHHHHhhheeeeeeeCCCCCC
Confidence 333333331 22235566666666666666555554
No 17
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=73.13 E-value=9.1 Score=32.39 Aligned_cols=38 Identities=13% Similarity=0.276 Sum_probs=31.7
Q ss_pred cCCeEEEeeCCCCceEEEEEEEecCCCC--eEEEEcCCCcc
Q 002385 713 VGSRIKVWWPMDETFYKGVVDNYDPIKK--KHRILYADGDE 751 (929)
Q Consensus 713 VG~RVkV~WP~D~~wY~G~V~syd~~tk--kH~V~YDDGD~ 751 (929)
||.+|.++| .+..||.++|.......+ ...|.|..=+.
T Consensus 3 vG~~v~~~~-~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nk 42 (55)
T PF11717_consen 3 VGEKVLCKY-KDGQWYEAKILDIREKNGEPEYYVHYQGWNK 42 (55)
T ss_dssp TTEEEEEEE-TTTEEEEEEEEEEEECTTCEEEEEEETTSTG
T ss_pred cCCEEEEEE-CCCcEEEEEEEEEEecCCCEEEEEEcCCCCC
Confidence 899999999 899999999999988553 67888875443
No 18
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=73.12 E-value=5.1 Score=45.66 Aligned_cols=116 Identities=16% Similarity=0.216 Sum_probs=61.8
Q ss_pred hhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHH-HHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeec
Q 002385 67 NDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKE-FFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLML 145 (929)
Q Consensus 67 ~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKD-IFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMl 145 (929)
..+|.|.+.-||--++.||..|+|.+ |+ .+.. ++..+...| .|.+-..-...+++|..+
T Consensus 120 ~~ll~~~~~~VRk~A~~~l~~i~~~~-p~------~~~~~~~~~l~~lL---~d~~~~V~~~a~~~l~~i---------- 179 (526)
T PF01602_consen 120 IKLLSDPSPYVRKKAALALLKIYRKD-PD------LVEDELIPKLKQLL---SDKDPSVVSAALSLLSEI---------- 179 (526)
T ss_dssp HHHHHSSSHHHHHHHHHHHHHHHHHC-HC------CHHGGHHHHHHHHT---THSSHHHHHHHHHHHHHH----------
T ss_pred HHHhcCCchHHHHHHHHHHHHHhccC-HH------HHHHHHHHHHhhhc---cCCcchhHHHHHHHHHHH----------
Confidence 34788999999999999999999993 33 2222 333333333 444422333344444444
Q ss_pred cCCch---HHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCc--HHHHHHHHHHhh
Q 002385 146 DLECD---KLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVS--WDLLRILLASVR 203 (929)
Q Consensus 146 DLe~d---dLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP--~eLLDvIL~~Ll 203 (929)
.-+.+ .++..+|+.+...+. ....-+...+..++..+.......+ ..++..|+..+.
T Consensus 180 ~~~~~~~~~~~~~~~~~L~~~l~-~~~~~~q~~il~~l~~~~~~~~~~~~~~~~i~~l~~~l~ 241 (526)
T PF01602_consen 180 KCNDDSYKSLIPKLIRILCQLLS-DPDPWLQIKILRLLRRYAPMEPEDADKNRIIEPLLNLLQ 241 (526)
T ss_dssp HCTHHHHTTHHHHHHHHHHHHHT-CCSHHHHHHHHHHHTTSTSSSHHHHHHHHHHHHHHHHHH
T ss_pred ccCcchhhhhHHHHHHHhhhccc-ccchHHHHHHHHHHHhcccCChhhhhHHHHHHHHHHHhh
Confidence 11111 455555555555442 3333344445555555544444444 455666655554
No 19
>PTZ00429 beta-adaptin; Provisional
Probab=72.84 E-value=72 Score=40.09 Aligned_cols=146 Identities=12% Similarity=0.114 Sum_probs=82.9
Q ss_pred HHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhh
Q 002385 59 PTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKV 138 (929)
Q Consensus 59 pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeV 138 (929)
.++..|. .+|.|.|..|-+-++.||..+.-.. ..+.++.++.-+...|-.|. +++ ..-+|-+|.+|..+
T Consensus 256 ~il~~l~--~~Lq~~N~AVVl~Aik~il~l~~~~------~~~~~~~~~~rl~~pLv~L~--ss~-~eiqyvaLr~I~~i 324 (746)
T PTZ00429 256 TLLTRVL--PRMSHQNPAVVMGAIKVVANLASRC------SQELIERCTVRVNTALLTLS--RRD-AETQYIVCKNIHAL 324 (746)
T ss_pred HHHHHHH--HHhcCCCHHHHHHHHHHHHHhcCcC------CHHHHHHHHHHHHHHHHHhh--CCC-ccHHHHHHHHHHHH
Confidence 3444443 3588999999988888888775211 23566666655554433442 122 23445666665433
Q ss_pred ceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHH
Q 002385 139 RSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGE 218 (929)
Q Consensus 139 KS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~ 218 (929)
-.. .-.++..-++.||-.. +-|..|...-.+||..+..+... ..||+.|..++. +..+.=...|.
T Consensus 325 ~~~-------~P~lf~~~~~~Ff~~~--~Dp~yIK~~KLeIL~~Lane~Nv--~~IL~EL~eYa~----d~D~ef~r~aI 389 (746)
T PTZ00429 325 LVI-------FPNLLRTNLDSFYVRY--SDPPFVKLEKLRLLLKLVTPSVA--PEILKELAEYAS----GVDMVFVVEVV 389 (746)
T ss_pred HHH-------CHHHHHHHHHhhhccc--CCcHHHHHHHHHHHHHHcCcccH--HHHHHHHHHHhh----cCCHHHHHHHH
Confidence 211 1256666677887543 34667888888999999887532 345555555443 22222223334
Q ss_pred HHHhhchHHHHH
Q 002385 219 KVFTKCAAKLKT 230 (929)
Q Consensus 219 ~VI~~CadKL~p 230 (929)
.-|..|+.++..
T Consensus 390 rAIg~lA~k~~~ 401 (746)
T PTZ00429 390 RAIASLAIKVDS 401 (746)
T ss_pred HHHHHHHHhChH
Confidence 446677777554
No 20
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=72.63 E-value=1e+02 Score=31.71 Aligned_cols=181 Identities=12% Similarity=0.163 Sum_probs=82.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHhc-ccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhH
Q 002385 24 PPSPVDEVINLLDKVEHLLANV-EQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDEL 102 (929)
Q Consensus 24 ppiS~dELLKRLkkL~~eLs~v-DQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdq 102 (929)
...+-++-+.-|++|...+..- .+.........|..+...| ...+. ....-|-.-++-||.+|.+.+.. .
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i-~~~l~-d~Rs~v~~~A~~~l~~l~~~l~~-------~ 87 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAI-IKQLS-DLRSKVSKTACQLLSDLARQLGS-------H 87 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHH-HH-S--HH---HHHHHHHHHHHHHHHHGG-------G
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHH-HHHHh-hhHHHHHHHHHHHHHHHHHHHhH-------h
Confidence 3445666666677777766654 2222232233333222222 22222 22233444556678888888643 2
Q ss_pred HHHHHHHHHHH-hcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHH
Q 002385 103 MKEFFQLAVSA-FENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMT 181 (929)
Q Consensus 103 LKDIFqLfV~q-f~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs 181 (929)
+...+..++.. |..+++............|..|...=++ ...++ +..+... ..+....|.......|.
T Consensus 88 ~~~~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~~-------~~~~~---~~~l~~~-~~~Kn~~vR~~~~~~l~ 156 (228)
T PF12348_consen 88 FEPYADILLPPLLKKLGDSKKFIREAANNALDAIIESCSY-------SPKIL---LEILSQG-LKSKNPQVREECAEWLA 156 (228)
T ss_dssp GHHHHHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS-H---------HHH---HHHHHHH-TT-S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCCc-------HHHHH---HHHHHHH-HhCCCHHHHHHHHHHHH
Confidence 55555555554 5666766544455556666666553110 01221 3333333 23455667777777788
Q ss_pred HHhcccC----CCcHH-HHHHHHHHhhccCCCCChhhHHHHHHHHhhc
Q 002385 182 LVIDESE----DVSWD-LLRILLASVRKENQDVSPTSWKLGEKVFTKC 224 (929)
Q Consensus 182 ~VIEESE----~VP~e-LLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~C 224 (929)
.+|.... .+... .++.|+..+...-.+..|..+..|+.++...
T Consensus 157 ~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l 204 (228)
T PF12348_consen 157 IILEKWGSDSSVLQKSAFLKQLVKALVKLLSDADPEVREAARECLWAL 204 (228)
T ss_dssp HHHTT-----GGG--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHH
T ss_pred HHHHHccchHhhhcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 8887765 12222 2344444444433456677777776665544
No 21
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=72.37 E-value=64 Score=40.80 Aligned_cols=132 Identities=17% Similarity=0.153 Sum_probs=75.3
Q ss_pred CCHHHHHHHHHHHHHHH----------HhcccCCc---hhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhc
Q 002385 26 SPVDEVINLLDKVEHLL----------ANVEQAPS---RSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRIT 92 (929)
Q Consensus 26 iS~dELLKRLkkL~~eL----------s~vDQ~pv---dS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIy 92 (929)
+...+|+..|+.++.-= .-+.|-.. .+...-|.++++- +.+ +|.....-||..+|.||+-++-.-
T Consensus 507 lgip~llpfLkavc~SkkSwqaRhTgIkivqqIail~Gcsvlphl~~lv~i-i~~-gl~De~qkVR~itAlalsalaeaa 584 (1172)
T KOG0213|consen 507 LGIPALLPFLKAVCGSKKSWQARHTGIKIVQQIAILSGCSVLPHLKPLVKI-IEH-GLKDEQQKVRTITALALSALAEAA 584 (1172)
T ss_pred hCcHHHHHHHHHHhccccchhhhchhhHHHHHHHHHhcchhhhhhHHHHHH-HHH-hhcccchhhhhHHHHHHHHHHHhc
Confidence 34567777777766422 22222100 1233445555443 233 455556679999999999988765
Q ss_pred CCCCCCChhHHHHHHHHHHH---------------HhcccCCCCCcchHHHHH---HHHHhhhhc------------eee
Q 002385 93 APDSPYDDELMKEFFQLAVS---------------AFENLSHASGRYYMKALS---ILDTVAKVR------------SCL 142 (929)
Q Consensus 93 APDAPYtDdqLKDIFqLfV~---------------qf~~LaD~sSP~F~qy~y---LLEtLAeVK------------S~V 142 (929)
.||.-+++-.||..+-. .+.-|-.-..+.|.-||. ||-.+-+.. .+-
T Consensus 585 ---~Pygie~fDsVlkpLwkgir~hrgk~laafLkAigyliplmd~eya~yyTrevmlil~rEf~sPDeemkkivLKVv~ 661 (1172)
T KOG0213|consen 585 ---TPYGIEQFDSVLKPLWKGIRQHRGKELAAFLKAIGYLIPLMDAEYASYYTREVMLILIREFGSPDEEMKKIVLKVVK 661 (1172)
T ss_pred ---CCcchHHHHHHHHHHHHHHHHccChHHHHHHHHHhhccccccHHHHHHhHHHHHHHHHHhhCCChHHHHHHHHHHHH
Confidence 57998888888876522 222222233455555555 554443321 111
Q ss_pred eeccCC-------chHHHHHHHHHHHH
Q 002385 143 LMLDLE-------CDKLVVEMFQHFLK 162 (929)
Q Consensus 143 LMlDLe-------~ddLI~eLFktFF~ 162 (929)
-||+-+ -.+++.++|+.|+.
T Consensus 662 qcc~t~Gv~~~y~r~dilp~ff~~fw~ 688 (1172)
T KOG0213|consen 662 QCCATDGVEPAYIRFDILPEFFFSFWG 688 (1172)
T ss_pred HHhcccCCCHHHHhhhhhHHHHhhhhh
Confidence 234443 35889999999886
No 22
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=71.17 E-value=4.9 Score=50.17 Aligned_cols=44 Identities=16% Similarity=0.487 Sum_probs=35.3
Q ss_pred cCCeEEEeeCCC----CceEEEEEEEecCCC--------CeEEEEcCCCcceeeec
Q 002385 713 VGSRIKVWWPMD----ETFYKGVVDNYDPIK--------KKHRILYADGDEEILNL 756 (929)
Q Consensus 713 VG~RVkV~WP~D----~~wY~G~V~syd~~t--------kkH~V~YDDGD~E~L~L 756 (929)
.+-++||||.+. .+|++|+|-+.-|.. .++.|+||.++.+.+.-
T Consensus 981 ~~d~crvwwrda~~e~g~WWeG~ils~~pksp~fpdSpwery~v~~~~~e~~~~sp 1036 (1113)
T KOG0644|consen 981 CRDKCRVWWRDAGEEDGAWWEGRILSVKPKSPDFPDSPWERYIVRYDNTETELHSP 1036 (1113)
T ss_pred cccceeEEEccCCCcCCceeeeeeeeccCCCCCCCCCcceeEEEEecCCcccccCc
Confidence 578999999864 689999999987755 36899999997765543
No 23
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.39 E-value=1.2e+02 Score=39.83 Aligned_cols=157 Identities=15% Similarity=0.134 Sum_probs=94.7
Q ss_pred CCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC---c
Q 002385 73 SDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE---C 149 (929)
Q Consensus 73 KDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe---~ 149 (929)
.+.-+|+----||.-|++..- .+..--|+++|...+=.+.+.+...=+..|-+|-.|..+.++ +|.. .
T Consensus 709 ~~~~~~~~rl~~L~~L~~~~~------~e~~~~i~k~I~EvIL~~Ke~n~~aR~~Af~lL~~i~~i~~~---~d~g~e~~ 779 (1176)
T KOG1248|consen 709 SSSPAQASRLKCLKRLLKLLS------AEHCDLIPKLIPEVILSLKEVNVKARRNAFALLVFIGAIQSS---LDDGNEPA 779 (1176)
T ss_pred cchHHHHHHHHHHHHHHHhcc------HHHHHHHHHHHHHHHHhcccccHHHHhhHHHHHHHHHHHHhh---hcccccch
Confidence 344467777789999998862 444555566666655455555555666678888888875444 4553 4
Q ss_pred hHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHH--
Q 002385 150 DKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAK-- 227 (929)
Q Consensus 150 ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadK-- 227 (929)
.+.|.++|.+++...-++-+..+-..+..|-..+-+....+..+.|.-+|..+---=.+..|.-...|...|..|..+
T Consensus 780 ~~~lnefl~~Isagl~gd~~~~~as~Ivai~~il~e~~~~ld~~~l~~li~~V~~~L~s~sreI~kaAI~fikvlv~~~p 859 (1176)
T KOG1248|consen 780 SAILNEFLSIISAGLVGDSTRVVASDIVAITHILQEFKNILDDETLEKLISMVCLYLASNSREIAKAAIGFIKVLVYKFP 859 (1176)
T ss_pred HHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcCC
Confidence 567777777777653344444444446666666666777788888888887644322333444444444444444433
Q ss_pred ---HHHHHHHHHHh
Q 002385 228 ---LKTNLKEAVQS 238 (929)
Q Consensus 228 ---L~p~I~q~fnS 238 (929)
|++++.++|-+
T Consensus 860 e~~l~~~~~~LL~s 873 (1176)
T KOG1248|consen 860 EECLSPHLEELLPS 873 (1176)
T ss_pred HHHHhhhHHHHHHH
Confidence 45555554443
No 24
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.85 E-value=63 Score=42.24 Aligned_cols=144 Identities=15% Similarity=0.143 Sum_probs=92.5
Q ss_pred hhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHHHhhcCC
Q 002385 90 RITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIRSNH 168 (929)
Q Consensus 90 RIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr~~h 168 (929)
++|-=-++|.+..+. -.++..+..|. ++..--..-++.|.-|.+-..|+-.+|.+ |-.=+..+|..||.+ -...
T Consensus 250 ~lf~~~~~~l~a~~~---a~lL~al~~l~-ps~~D~~~t~~W~~v~~~~~~~la~~q~~~~~~~~~~~~~~~~t~-~~s~ 324 (1176)
T KOG1248|consen 250 SLFKKHPTALAAELN---ARLLTALMTLS-PSENDDLLTVAWLKVLNEAHDILATLQEEKALQALPRLFSLFFTI-LESL 324 (1176)
T ss_pred HHHhcCCCcchHHHH---HHHHHHHHHhC-CCccchHHHHHHHHHHHHHHHHHHHhCHHHHHHhhhhhhhHHHHH-Hhcc
Confidence 444444445554433 23334444443 33333345677777788877787778887 666777888899984 4444
Q ss_pred chhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccC-CCCChhhHHHHHHHHhhchHHHHHHHHHHHHh
Q 002385 169 PHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKEN-QDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQS 238 (929)
Q Consensus 169 p~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~-ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS 238 (929)
.+.+.+...+++..|+.|+-.+-..+....|..++... ....+..+++-..++..|...--|++...|..
T Consensus 325 ~~e~~q~a~q~l~~il~~sv~~~~~~c~~~~~~~l~~kf~~~~~~ilqi~s~~fek~G~~s~~~l~~~L~~ 395 (1176)
T KOG1248|consen 325 IEELVQAASQSLKEILKESVTVIDALCSKQLHSLLDYKFHAVWRFILQILSALFEKCGELSGPELTKTLEG 395 (1176)
T ss_pred cHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHhhhhcCHHHHHHHHH
Confidence 56677888999999999988866666666666665432 22345555666667778887766776666664
No 25
>KOG1949 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.60 E-value=1.1e+02 Score=38.75 Aligned_cols=145 Identities=23% Similarity=0.340 Sum_probs=79.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhcccCCchhh--------------------HHhhHHHHHhhhhhhhccCCCcCeehhhh
Q 002385 23 NPPSPVDEVINLLDKVEHLLANVEQAPSRSM--------------------RDALLPTMKGLITNDLLRRSDMDVRLSVT 82 (929)
Q Consensus 23 sppiS~dELLKRLkkL~~eLs~vDQ~pvdS~--------------------~~SL~pl~k~LVs~~LLkHKDkdVRlyVA 82 (929)
.|.....+.=..|++-..+|+.+=.++.-.. .+-+..++.- |-..+-...-.+||+.|-
T Consensus 206 dpd~~~e~mD~i~~kQf~~l~~LL~d~~p~VRS~a~~gv~k~~s~fWe~iP~~i~~~ll~k-I~d~~a~dt~s~VR~svf 284 (1005)
T KOG1949|consen 206 DPDLHAEEMDSIIQKQFEELYSLLEDPYPMVRSTAILGVCKITSKFWEMIPPTILIDLLKK-ITDELAFDTSSDVRCSVF 284 (1005)
T ss_pred CCCccHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHH-HHHHhhhccchheehhHh
Confidence 4445556666667777777776655444210 1112222222 122334445567888888
Q ss_pred HHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHH----HH
Q 002385 83 SCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEM----FQ 158 (929)
Q Consensus 83 cCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eL----Fk 158 (929)
-||-.|+- .| +---+|..++-.++. .|+.+...||... -+|+..+ |-
T Consensus 285 ~gl~~~l~-----np----~sh~~le~~Lpal~~-------------~l~D~se~VRvA~-------vd~ll~ik~vra~ 335 (1005)
T KOG1949|consen 285 KGLPMILD-----NP----LSHPLLEQLLPALRY-------------SLHDNSEKVRVAF-------VDMLLKIKAVRAA 335 (1005)
T ss_pred cCcHHHHc-----Cc----cchhHHHHHHHhcch-------------hhhccchhHHHHH-------HHHHHHHHhhhhh
Confidence 88877772 12 233445444444432 2333333333110 0111111 33
Q ss_pred HHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCC
Q 002385 159 HFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQ 207 (929)
Q Consensus 159 tFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~k 207 (929)
.||+++. |..|+..+=.++-.+.--++.+|+..+++-++
T Consensus 336 ~f~~I~~----------~d~~l~~L~~d~~~v~rr~~~li~~s~lP~~k 374 (1005)
T KOG1949|consen 336 KFWKICP----------MDHILVRLETDSRPVSRRLVSLIFNSFLPVNK 374 (1005)
T ss_pred hhhcccc----------HHHHHHHHhccccHHHHHHHHHHHHhhcCCCC
Confidence 4566555 77888877777777888999999999998776
No 26
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=66.55 E-value=12 Score=33.50 Aligned_cols=47 Identities=17% Similarity=0.251 Sum_probs=35.0
Q ss_pred ccccCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEc-CCCcceeeecC
Q 002385 710 EQLVGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILY-ADGDEEILNLK 757 (929)
Q Consensus 710 e~lVG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~Y-DDGD~E~L~L~ 757 (929)
...+|..+-+.=+.|+.||.|+| ..+.....-.|.| |-|..+.+...
T Consensus 51 ~~~~~~~~~~~~~~~~~w~Ra~I-~~~~~~~~~~V~~iD~G~~~~v~~~ 98 (121)
T PF00567_consen 51 ESNPGEGCLCVVSEDGRWYRAVI-TVDIDENQYKVFLIDYGNTEKVSAS 98 (121)
T ss_dssp T--TTEEEEEEETTTSEEEEEEE-EEEECTTEEEEEETTTTEEEEEEGG
T ss_pred ccccCCEEEEEEecCCceeeEEE-EEecccceeEEEEEecCceEEEcHH
Confidence 34467777788888999999999 5555567777877 68988886554
No 27
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=66.04 E-value=54 Score=39.95 Aligned_cols=143 Identities=17% Similarity=0.211 Sum_probs=74.3
Q ss_pred HHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHhcc-cCCchhhHHhhHHHHHhhhh-hhhccCCCcCeehhhhHHH
Q 002385 8 IELEEQLKDAGNLLLNPPSPVDEVINLLDKVEHLLANVE-QAPSRSMRDALLPTMKGLIT-NDLLRRSDMDVRLSVTSCI 85 (929)
Q Consensus 8 ~ele~~l~~~G~kLisppiS~dELLKRLkkL~~eLs~vD-Q~pvdS~~~SL~pl~k~LVs-~~LLkHKDkdVRlyVAcCL 85 (929)
+|.|+.+.+.-++++.. .+.+| ..+|..+-.+|.-+. +.++.+ +..|-.+..+.+. ..-+...|.+.=--+..|+
T Consensus 173 ~E~e~~i~~~ikkvL~D-VTaeE-F~l~m~lL~~lk~~~~~~t~~g-~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~ 249 (556)
T PF05918_consen 173 KEMEEFIVDEIKKVLQD-VTAEE-FELFMSLLKSLKIYGGKQTIEG-RQELVDIIEEQADLDQPFDPSDPESIDRLISCL 249 (556)
T ss_dssp HHHHHHHHHHHHHHCTT---HHH-HHHHHHHHHTSGG---GSSHHH-HHHHHHHHHHHHTTTS---SSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHh-ccHHH-HHHHHHHHHhCccccccCChHH-HHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHH
Confidence 66667777666666642 33333 344445555555432 233333 3334444443221 2224555544322344555
Q ss_pred HHHhhhcCCCCCCChhHHHHHHHHHHHH-hcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHH
Q 002385 86 SEITRITAPDSPYDDELMKEFFQLAVSA-FENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKV 163 (929)
Q Consensus 86 ADILRIyAPDAPYtDdqLKDIFqLfV~q-f~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~i 163 (929)
-.-|=+|.+.+ .-..+|.++... |+.|.+... ...+.||..||++-++. -++++.+++..+|+.|...
T Consensus 250 ~~Alp~fs~~v-----~Sskfv~y~~~kvlP~l~~l~e---~~kl~lLk~lAE~s~~~--~~~d~~~~L~~i~~~L~~y 318 (556)
T PF05918_consen 250 RQALPFFSRGV-----SSSKFVNYMCEKVLPKLSDLPE---DRKLDLLKLLAELSPFC--GAQDARQLLPSIFQLLKKY 318 (556)
T ss_dssp HHHGGG-BTTB-------HHHHHHHHHHTCCCTT--------HHHHHHHHHHHHHTT------THHHHHHHHHHHHHTT
T ss_pred HHhhHHhcCCC-----ChHHHHHHHHHHhcCChhhCCh---HHHHHHHHHHHHHcCCC--CcccHHHHHHHHHHHHHHh
Confidence 55455554433 457788888887 788887622 56789999999997774 3555778888888888764
No 28
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=64.22 E-value=3 Score=31.09 Aligned_cols=25 Identities=24% Similarity=0.476 Sum_probs=21.3
Q ss_pred hhccCCCcCeehhhhHHHHHHhhhc
Q 002385 68 DLLRRSDMDVRLSVTSCISEITRIT 92 (929)
Q Consensus 68 ~LLkHKDkdVRlyVAcCLADILRIy 92 (929)
++|.+.+..||..++.||.+|.+.+
T Consensus 7 ~~l~D~~~~VR~~a~~~l~~i~~~~ 31 (31)
T PF02985_consen 7 QLLNDPSPEVRQAAAECLGAIAEHC 31 (31)
T ss_dssp HHHT-SSHHHHHHHHHHHHHHHHTS
T ss_pred HHcCCCCHHHHHHHHHHHHHHHhhC
Confidence 4788999999999999999998753
No 29
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.21 E-value=1.5e+02 Score=37.83 Aligned_cols=156 Identities=19% Similarity=0.175 Sum_probs=97.6
Q ss_pred HhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHH--HHHHH
Q 002385 55 DALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMK--ALSIL 132 (929)
Q Consensus 55 ~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~q--y~yLL 132 (929)
+....++++|+. |--.+++||-.|-|||+-|--. -+.+|.=.+..|--- +.+|+-.+ -..||
T Consensus 318 ~~~~~i~kaLvr---LLrs~~~vqyvvL~nIa~~s~~-----------~~~lF~P~lKsFfv~--ssDp~~vk~lKleiL 381 (968)
T KOG1060|consen 318 NQVTKIAKALVR---LLRSNREVQYVVLQNIATISIK-----------RPTLFEPHLKSFFVR--SSDPTQVKILKLEIL 381 (968)
T ss_pred HHHHHHHHHHHH---HHhcCCcchhhhHHHHHHHHhc-----------chhhhhhhhhceEee--cCCHHHHHHHHHHHH
Confidence 355677888888 4456788998888888876522 234555445544311 23343332 25677
Q ss_pred HHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChh
Q 002385 133 DTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPT 212 (929)
Q Consensus 133 EtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~Pa 212 (929)
.+||.-.. |-++|+.|..-|+..+-. +...-..-+..+-.-.-.|+.-.|+-|+.-+..++....-.
T Consensus 382 s~La~esn------------i~~ILrE~q~YI~s~d~~-faa~aV~AiGrCA~~~~sv~~tCL~gLv~Llsshde~Vv~e 448 (968)
T KOG1060|consen 382 SNLANESN------------ISEILRELQTYIKSSDRS-FAAAAVKAIGRCASRIGSVTDTCLNGLVQLLSSHDELVVAE 448 (968)
T ss_pred HHHhhhcc------------HHHHHHHHHHHHhcCchh-HHHHHHHHHHHHHHhhCchhhHHHHHHHHHHhcccchhHHH
Confidence 77776543 334455555545544432 33322333344444555788999999999998888777777
Q ss_pred hHHHHHHHHhhchHHHHHHHHHHHHhc
Q 002385 213 SWKLGEKVFTKCAAKLKTNLKEAVQSR 239 (929)
Q Consensus 213 Ay~LA~~VI~~CadKL~p~I~q~fnS~ 239 (929)
|-...+.+|++-..+--.+|.+++..+
T Consensus 449 aV~vIk~Llq~~p~~h~~ii~~La~ll 475 (968)
T KOG1060|consen 449 AVVVIKRLLQKDPAEHLEILFQLARLL 475 (968)
T ss_pred HHHHHHHHHhhChHHHHHHHHHHHHHh
Confidence 777778888888877666777766643
No 30
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=58.35 E-value=62 Score=40.77 Aligned_cols=47 Identities=17% Similarity=0.255 Sum_probs=34.3
Q ss_pred hhhccCCC----cCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcc
Q 002385 67 NDLLRRSD----MDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFEN 116 (929)
Q Consensus 67 ~~LLkHKD----kdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~ 116 (929)
...|.+.| .+++..++.||.-|+|+++|++|-..++|-. +|++.|..
T Consensus 557 ~~~l~~~dr~q~~eLQs~Lc~~Lq~i~rk~~~~~~~~~d~iM~---lflri~~s 607 (859)
T KOG1241|consen 557 SQILSLADRAQLNELQSLLCNTLQSIIRKVGSDIREVSDQIMG---LFLRIFES 607 (859)
T ss_pred HHhccHhhHHHHHHHHHHHHHHHHHHHHHccccchhHHHHHHH---HHHHHHcC
Confidence 44555555 4688999999999999999998877666554 44444443
No 31
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=57.33 E-value=1.9e+02 Score=31.96 Aligned_cols=123 Identities=20% Similarity=0.193 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHH--
Q 002385 28 VDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKE-- 105 (929)
Q Consensus 28 ~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKD-- 105 (929)
.++-+..+++++.....-.+.-.+.....+..++-.|++.- ..+.++.-|+-..|.||++. -|+-.+-+..
T Consensus 27 s~~~~~~ik~~~~~~~~~~~~~~~~~~~~~~~~~l~lL~~~---~~~~d~v~yvL~li~dll~~----~~~~~~~~~~~~ 99 (312)
T PF03224_consen 27 SEEDLSLIKKLDKQSKEERRELLEEDGDQYASLFLNLLNKL---SSNDDTVQYVLTLIDDLLSD----DPSRVELFLELA 99 (312)
T ss_dssp -HHHHHHHHHHHHHHH-------------------HHHHHH------HHHHHHHHHHHHHHHH-----SSSSHHHHHHHH
T ss_pred CHHHHHHHHHHHCCCHHHHHHHHHhchhhHHHHHHHHHHHc---cCcHHHHHHHHHHHHHHHhc----CHHHHHHHHHhc
Confidence 45556677777776665533333333445555555555554 56888999999999999964 4455443333
Q ss_pred ------HHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhc
Q 002385 106 ------FFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRS 166 (929)
Q Consensus 106 ------IFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~ 166 (929)
+|..|++ .|...+..-..+..++|-.|+.-..- .......+++..||+.++.
T Consensus 100 ~~~~~~~~~~fl~---ll~~~D~~i~~~a~~iLt~Ll~~~~~------~~~~~~~~~l~~ll~~L~~ 157 (312)
T PF03224_consen 100 KQDDSDPYSPFLK---LLDRNDSFIQLKAAFILTSLLSQGPK------RSEKLVKEALPKLLQWLSS 157 (312)
T ss_dssp H-TTH--HHHHHH---H-S-SSHHHHHHHHHHHHHHHTSTTT--------HHHHHHHHHHHHHHHH-
T ss_pred ccccchhHHHHHH---HhcCCCHHHHHHHHHHHHHHHHcCCc------cccchHHHHHHHHHHHHHH
Confidence 5666665 33444444556677888777654311 1223234566666666664
No 32
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=56.21 E-value=83 Score=37.97 Aligned_cols=100 Identities=11% Similarity=0.205 Sum_probs=57.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhH
Q 002385 23 NPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDEL 102 (929)
Q Consensus 23 sppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdq 102 (929)
..++++.+|...|+.|..+.+.++.. - ..|..+|++-..+...+.-|++|+.-++.=+. -....
T Consensus 45 ~d~~~~~~l~~~L~~L~~~Vs~Ld~~-~-------~~LV~ail~~~W~~~~~~~v~~y~~Fl~~Lvs--------a~~~y 108 (563)
T PF05327_consen 45 KDAISVSQLIRWLKALSSCVSLLDSS-C-------KQLVEAILSLNWLGRDEDFVEAYIQFLINLVS--------AQPKY 108 (563)
T ss_dssp TTS--HHHHHHHHHHHHHGGGGG-SC-C-------HHHHHHHHT-TGGGS-HHHHHHHHHHHHHHHH--------H-GGG
T ss_pred cccccHHHHHHHHHHHHHHHHHhhhH-H-------HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHH--------hhHHH
Confidence 35667899999999999999999886 3 35667777777777777777777753321111 02356
Q ss_pred HHHHHHHHHHHhcccCC-----------CCCcchHHHHHHHHHhhhh
Q 002385 103 MKEFFQLAVSAFENLSH-----------ASGRYYMKALSILDTVAKV 138 (929)
Q Consensus 103 LKDIFqLfV~qf~~LaD-----------~sSP~F~qy~yLLEtLAeV 138 (929)
+..|+..+|..|.--.. ....-|.+.+.+|..|..+
T Consensus 109 l~~vl~~LV~~f~p~~~~~~~~~~~~~~~~~~~~~~vH~~L~~Il~l 155 (563)
T PF05327_consen 109 LSPVLSMLVKNFIPPPSSIAEWPGCPPEKRREIYERVHDALQKILRL 155 (563)
T ss_dssp HHHHHHHHHHGGGS-HHHHHH---------------HHHHHHHHHHH
T ss_pred HHHHHHHHHHhccCCCccccccchhhhhhhhhhHHHHHHHHHHHHHH
Confidence 77777777777652211 1223566677777776543
No 33
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=55.94 E-value=38 Score=40.70 Aligned_cols=92 Identities=15% Similarity=0.300 Sum_probs=62.4
Q ss_pred chHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCC----CCChhhHHHHHHHHhhc
Q 002385 149 CDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQ----DVSPTSWKLGEKVFTKC 224 (929)
Q Consensus 149 ~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~k----s~~PaAy~LA~~VI~~C 224 (929)
.-.||.+|+-+++..+.+.+.-.|+.-+. |.+|.+-|..|+..|...+. .+.|-..++...++..|
T Consensus 279 ~~~Li~ELd~~vl~~v~DQngnHViQK~i----------e~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c 348 (503)
T KOG1488|consen 279 QIQLIDELDGHLLKCVKDQNGNHVIQKCI----------ETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHC 348 (503)
T ss_pred HHHHHHHHHhhHHHHHhhcccceehhhhh----------hccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcC
Confidence 56899999888888888766555543332 37899999999999987533 45677777778888888
Q ss_pred hHH-HHHHHHHHHHhc-CCCCchhHHHH
Q 002385 225 AAK-LKTNLKEAVQSR-GIALDDYAEIV 250 (929)
Q Consensus 225 adK-L~p~I~q~fnS~-Gi~ld~Y~eIV 250 (929)
.+. .++.+..+...+ .+.-|.|.+-|
T Consensus 349 ~~~~~~~i~~ei~~~~~~L~~dQygNYV 376 (503)
T KOG1488|consen 349 SEDQKQPLMEEIIRNCDQLAQDQYGNYV 376 (503)
T ss_pred ChHhhhHHHHHHHHHHHHHHhhhhhhHH
Confidence 765 344444443332 34457775544
No 34
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=55.54 E-value=91 Score=32.01 Aligned_cols=137 Identities=15% Similarity=0.237 Sum_probs=60.4
Q ss_pred ehhhhHHHHHHhhhcCCCCCCCh--hHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHH
Q 002385 78 RLSVTSCISEITRITAPDSPYDD--ELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVE 155 (929)
Q Consensus 78 RlyVAcCLADILRIyAPDAPYtD--dqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~e 155 (929)
|.-.--.|-.|++-.+|...+.+ ..|+++...|+.++. |..+.-....+.+|..|+..=.. .-+..+..
T Consensus 24 r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~---d~Rs~v~~~A~~~l~~l~~~l~~------~~~~~~~~ 94 (228)
T PF12348_consen 24 RVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLS---DLRSKVSKTACQLLSDLARQLGS------HFEPYADI 94 (228)
T ss_dssp HHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S----HH---HHHHHHHHHHHHHHHHGG------GGHHHHHH
T ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHh---hhHHHHHHHHHHHHHHHHHHHhH------hHHHHHHH
Confidence 33333444444444433322221 345555555555554 45577777888888888766111 13456677
Q ss_pred HHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHH-HHHHHHHhhccCCCCChhhHHHHHHHHhhch
Q 002385 156 MFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDL-LRILLASVRKENQDVSPTSWKLGEKVFTKCA 225 (929)
Q Consensus 156 LFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eL-LDvIL~~Ll~~~ks~~PaAy~LA~~VI~~Ca 225 (929)
++..+|..+... ...|.......|..++.-+. .+..+ +..|...+...+...-..+..+...++....
T Consensus 95 ~l~~Ll~~~~~~-~~~i~~~a~~~L~~i~~~~~-~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~ 163 (228)
T PF12348_consen 95 LLPPLLKKLGDS-KKFIREAANNALDAIIESCS-YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWG 163 (228)
T ss_dssp HHHHHHHGGG----HHHHHHHHHHHHHHHTTS--H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHccc-cHHHHHHHHHHHHHHHHHCC-cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcc
Confidence 777777765532 34566666777777777654 34566 3444333332222222223333444444444
No 35
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=54.34 E-value=25 Score=35.24 Aligned_cols=35 Identities=9% Similarity=0.216 Sum_probs=28.8
Q ss_pred CCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCCCc
Q 002385 714 GSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYADGD 750 (929)
Q Consensus 714 G~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDDGD 750 (929)
...|...| ...||.|++.+.+....+..|.|+||.
T Consensus 13 ~~avW~~~--~~~yYPa~~~~~~~~~~~~~V~Fedg~ 47 (131)
T PF08605_consen 13 ENAVWAGY--NLKYYPATCVGSGVDRDRSLVRFEDGT 47 (131)
T ss_pred ccceeecC--CCeEeeEEEEeecCCCCeEEEEEecCc
Confidence 34455555 789999999999887778999999998
No 36
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=54.01 E-value=41 Score=41.87 Aligned_cols=110 Identities=15% Similarity=0.251 Sum_probs=74.3
Q ss_pred HHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHHHhh--------cCCchhHH-------HHHHHHHHHHhcccC----
Q 002385 129 LSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIR--------SNHPHFVF-------AAMETIMTLVIDESE---- 188 (929)
Q Consensus 129 ~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr--------~~hp~kV~-------~~M~dIMs~VIEESE---- 188 (929)
|-|||.|+.|-+.+-.--++ |..+ |+-+|+++. ..|+..+. -.-.+.++.+++-..
T Consensus 580 fPLLEClSsia~AL~~gF~P~~~~V----y~Rc~~il~~t~q~~~~~~~~~~~~~pdkdfiI~sLDL~SGLaegLg~~ie 655 (885)
T KOG2023|consen 580 FPLLECLSSIASALGVGFLPYAQPV----YQRCFRILQKTLQLLAKVQQDPTVEAPDKDFIIVSLDLLSGLAEGLGSHIE 655 (885)
T ss_pred HHHHHHHHHHHHHHhccccccCHHH----HHHHHHHHHHHHHHHHhccCCccccCCCcceEEEeHHHHhHHHHHhhhchH
Confidence 46888888886655544455 5544 444444444 22322211 122355555554322
Q ss_pred --CCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCCC
Q 002385 189 --DVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGIA 242 (929)
Q Consensus 189 --~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi~ 242 (929)
.-+..++++||..+..+-....-.||.|--+++..|.+.+.|++..||--+|.-
T Consensus 656 ~Lva~snl~~lll~C~~D~~peVRQS~FALLGDltk~c~~~v~p~~~~fl~~lg~N 711 (885)
T KOG2023|consen 656 PLVAQSNLLDLLLQCLQDEVPEVRQSAFALLGDLTKACFEHVIPNLADFLPILGAN 711 (885)
T ss_pred HHhhhccHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHhhc
Confidence 245568999999998888888888999999999999999999999999876654
No 37
>KOG0915 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.46 E-value=88 Score=42.13 Aligned_cols=87 Identities=22% Similarity=0.442 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhh--------------hhccC-CCcCeehhhhHH--HHHHhh
Q 002385 28 VDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITN--------------DLLRR-SDMDVRLSVTSC--ISEITR 90 (929)
Q Consensus 28 ~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~--------------~LLkH-KDkdVRlyVAcC--LADILR 90 (929)
.++|-.-|++|-=-|++..=+|.-..++|+..+-+.||.. .||.+ .++.-|+--||| |+||+|
T Consensus 989 ~~kl~p~l~kLIPrLyRY~yDP~~~Vq~aM~sIW~~Li~D~k~~vd~y~neIl~eLL~~lt~kewRVReasclAL~dLl~ 1068 (1702)
T KOG0915|consen 989 GEKLEPYLKKLIPRLYRYQYDPDKKVQDAMTSIWNALITDSKKVVDEYLNEILDELLVNLTSKEWRVREASCLALADLLQ 1068 (1702)
T ss_pred HHhhhhHHHHhhHHHhhhccCCcHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHc
Confidence 4555566777777777776666666666776666666665 45555 889999999999 569998
Q ss_pred hcCCCCCCCh--hHHHHHHHHHHHHhcccC
Q 002385 91 ITAPDSPYDD--ELMKEFFQLAVSAFENLS 118 (929)
Q Consensus 91 IyAPDAPYtD--dqLKDIFqLfV~qf~~La 118 (929)
= .|+++ +.|.+||..+|+....+.
T Consensus 1069 g----~~~~~~~e~lpelw~~~fRvmDDIK 1094 (1702)
T KOG0915|consen 1069 G----RPFDQVKEKLPELWEAAFRVMDDIK 1094 (1702)
T ss_pred C----CChHHHHHHHHHHHHHHHHHHHHHH
Confidence 6 67775 688888887777765544
No 38
>smart00139 MyTH4 Domain in Myosin and Kinesin Tails. Domain present twice in myosin-VIIa, and also present in 3 other myosins.
Probab=52.45 E-value=1.9e+02 Score=29.06 Aligned_cols=101 Identities=17% Similarity=0.174 Sum_probs=61.1
Q ss_pred chHHHHHHHHHHHHHhhcCC---chhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhcc---CCC--CChhhHHHHHHH
Q 002385 149 CDKLVVEMFQHFLKVIRSNH---PHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKE---NQD--VSPTSWKLGEKV 220 (929)
Q Consensus 149 ~ddLI~eLFktFF~iVr~~h---p~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~---~ks--~~PaAy~LA~~V 220 (929)
....-++||+.++....+.. +......+..|+...|+. .+|-|.|+-+|++. |.+ ..--+|+|-.-+
T Consensus 18 ~~~~A~~iF~~Il~ymgd~~~~~~~~~~~l~~~i~~~~~~~-----~~LrDEiy~QLiKQtt~Np~~~s~~rgW~Ll~l~ 92 (144)
T smart00139 18 LQKEAVKIFKAILKFMGDLPLPKPDSHLDLVQFILQKGLAH-----PELRDEIYCQLIKQLTDNPSRQSEERGWELLYLC 92 (144)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCcchHHHHHHHHHHHHhcc-----HHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHH
Confidence 55777899999888765421 222344566777777753 56677777776643 221 223455544333
Q ss_pred H--hhchHHHHHHHHHHHHhcCCCCchhHHHHHHHhcc
Q 002385 221 F--TKCAAKLKTNLKEAVQSRGIALDDYAEIVACICGS 256 (929)
Q Consensus 221 I--~~CadKL~p~I~q~fnS~Gi~ld~Y~eIV~sI~q~ 256 (929)
+ =-++..|.+||..||+...-..+. ..++..|+.
T Consensus 93 ~~~FpPS~~l~~yL~~~l~~~~~~~~~--~~~a~~c~~ 128 (144)
T smart00139 93 TSLFPPSERLLPYLLQFLSRRADQPSE--QGLAKYCLY 128 (144)
T ss_pred HhHcCChHHHHHHHHHHHHhcCCCccH--HHHHHHHHh
Confidence 2 235678999999999986544322 445566664
No 39
>PF12612 TFCD_C: Tubulin folding cofactor D C terminal; InterPro: IPR022577 This region is found in eukaryotes, and is typically between 182 and 199 amino acids in length. There is a single completely conserved residue R that may be functionally important. Tubulin folding cofactor D does not co-polymerise with microtubules either in vivo or in vitro, but instead modulates microtubule dynamics by sequestering beta-tubulin from GTP-bound alphabeta-heterodimers in microtubules [].
Probab=50.44 E-value=1.1e+02 Score=31.80 Aligned_cols=111 Identities=17% Similarity=0.276 Sum_probs=56.5
Q ss_pred eehhhhHHHHHHhhhcCCCCCCC--hhHHHHHHHHHHHHhccc-CCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHH
Q 002385 77 VRLSVTSCISEITRITAPDSPYD--DELMKEFFQLAVSAFENL-SHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLV 153 (929)
Q Consensus 77 VRlyVAcCLADILRIyAPDAPYt--DdqLKDIFqLfV~qf~~L-aD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI 153 (929)
||..++-||..|+.-..|..|+- .++|.+||..--.. .+ .-....+|.+.+-||. + +.+-
T Consensus 23 vR~~A~~~l~~ll~~~~~~~~~ip~~~~L~~i~~~~~~~--~~~w~~~~~~F~~l~~LL~-------------~--~~y~ 85 (193)
T PF12612_consen 23 VREVAGKCLQRLLHSQDPTIPHIPHREELQDIFPSESEA--SLNWSSSSEYFPRLVKLLD-------------L--PEYR 85 (193)
T ss_pred HHHHHHHHHHHHhcCCCccccCCCcHHHHHHHccccccc--ccccCCHHHHHHHHHHHhc-------------c--HHHH
Confidence 88889999999985544433333 36777777543322 11 1122335655554432 1 1333
Q ss_pred HHHHHHHHHHhhcCCchhHHHHHHHHHHHHh---cccCCCcHHHHHHHHHHhhcc
Q 002385 154 VEMFQHFLKVIRSNHPHFVFAAMETIMTLVI---DESEDVSWDLLRILLASVRKE 205 (929)
Q Consensus 154 ~eLFktFF~iVr~~hp~kV~~~M~dIMs~VI---EESE~VP~eLLDvIL~~Ll~~ 205 (929)
..++..++-.+- ...+.+......-|...| ++.......++..|+..|..+
T Consensus 86 ~~ll~Glv~S~G-~~tesl~~~s~~AL~~~~~~~~~~~~~~~~v~~~l~~il~~~ 139 (193)
T PF12612_consen 86 YSLLSGLVVSAG-GLTESLVRASSAALLSYLRELSDSPEELEQVLSDLLSILKEN 139 (193)
T ss_pred HHHHhHHHhcCC-CCchhHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHh
Confidence 444444444332 244555555544444444 334445555666666555543
No 40
>PTZ00429 beta-adaptin; Provisional
Probab=50.36 E-value=93 Score=39.17 Aligned_cols=80 Identities=15% Similarity=0.056 Sum_probs=46.1
Q ss_pred hhccCCCcCeehhhhHHHHHHhhhcCCCCCCCh---hHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeee
Q 002385 68 DLLRRSDMDVRLSVTSCISEITRITAPDSPYDD---ELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLM 144 (929)
Q Consensus 68 ~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtD---dqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLM 144 (929)
..|.|++.-||--+|.|+.-|+|++ |+.=... ++|.+ + |.|.+----...+.+|..|..-..-
T Consensus 147 k~L~D~~pYVRKtAalai~Kly~~~-pelv~~~~~~~~L~~---L-------L~D~dp~Vv~nAl~aL~eI~~~~~~--- 212 (746)
T PTZ00429 147 RAVADPDPYVRKTAAMGLGKLFHDD-MQLFYQQDFKKDLVE---L-------LNDNNPVVASNAAAIVCEVNDYGSE--- 212 (746)
T ss_pred HHhcCCCHHHHHHHHHHHHHHHhhC-cccccccchHHHHHH---H-------hcCCCccHHHHHHHHHHHHHHhCch---
Confidence 3468999999999999999999975 5431111 22222 1 5566555555666666655432110
Q ss_pred ccCCchHHHHHHHHHHHHHhh
Q 002385 145 LDLECDKLVVEMFQHFLKVIR 165 (929)
Q Consensus 145 lDLe~ddLI~eLFktFF~iVr 165 (929)
.-.+....|..++..+.
T Consensus 213 ----~l~l~~~~~~~Ll~~L~ 229 (746)
T PTZ00429 213 ----KIESSNEWVNRLVYHLP 229 (746)
T ss_pred ----hhHHHHHHHHHHHHHhh
Confidence 11344555555555543
No 41
>KOG4256 consensus Kinetochore component [Cell cycle control, cell division, chromosome partitioning]
Probab=50.30 E-value=1.2e+02 Score=39.75 Aligned_cols=31 Identities=19% Similarity=0.365 Sum_probs=21.5
Q ss_pred hhhhhccCCCcCeehhhhHHHHHHhhhcCCCC
Q 002385 65 ITNDLLRRSDMDVRLSVTSCISEITRITAPDS 96 (929)
Q Consensus 65 Vs~~LLkHKDkdVRlyVAcCLADILRIyAPDA 96 (929)
..+.+++.-|. ..+.-|.|+-|++|-||--+
T Consensus 498 AKkRlikdeDi-lalI~ad~lkevlgahaiia 528 (2209)
T KOG4256|consen 498 AKKRLIKDEDI-LALIEADCLKEVLGAHAIIA 528 (2209)
T ss_pred HHHhhcchHHH-HHHHHHHHHHHHHhhhhhhc
Confidence 44455555554 56677999999999887443
No 42
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=49.84 E-value=1.7e+02 Score=32.11 Aligned_cols=174 Identities=9% Similarity=0.142 Sum_probs=0.0
Q ss_pred hhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhH------HHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhh
Q 002385 63 GLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDEL------MKEFFQLAVSAFENLSHASGRYYMKALSILDTVA 136 (929)
Q Consensus 63 ~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdq------LKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLA 136 (929)
.|.-..+ ...+..||+-+.-||.||+-+|-++..-.... ...|.++|...|... +++ -+....|-|+
T Consensus 67 ~l~~~~~-~~~~~~v~~~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~-~~~-----~~~~a~EGl~ 139 (298)
T PF12719_consen 67 PLFLQAL-QKDDEEVKITALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSE-NPE-----LQAIAVEGLC 139 (298)
T ss_pred HHHHHHH-HhCCHHHHHHHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcC-CHH-----HHHHHHHHHH
Q ss_pred hhceeeeeccCCchHHHHHHHHHHHHHhhc---------------------CCchhHHHHHHHHHHHHhcccCCC-----
Q 002385 137 KVRSCLLMLDLECDKLVVEMFQHFLKVIRS---------------------NHPHFVFAAMETIMTLVIDESEDV----- 190 (929)
Q Consensus 137 eVKS~VLMlDLe~ddLI~eLFktFF~iVr~---------------------~hp~kV~~~M~dIMs~VIEESE~V----- 190 (929)
+.=.+-.+.| ...++..|+-.+|+-... .|+..+.......+..+..-.+..
T Consensus 140 KLlL~~~i~~--~~~vL~~Lll~yF~p~t~~~~~LrQ~L~~Ffp~y~~s~~~~Q~~l~~~f~~~l~~~~~~~~~~~~~~~ 217 (298)
T PF12719_consen 140 KLLLSGRISD--PPKVLSRLLLLYFNPSTEDNQRLRQCLSVFFPVYASSSPENQERLAEAFLPTLRTLSNAPDELDSPLA 217 (298)
T ss_pred HHHhcCCCCc--HHHHHHHHHHHHcCcccCCcHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhCcccccCchh
Q ss_pred ---cHHHHHHHHHHhhccCCCCChh------------hHHHHHHHHhhchHH--HHHHHHHHHHhcCCCCch
Q 002385 191 ---SWDLLRILLASVRKENQDVSPT------------SWKLGEKVFTKCAAK--LKTNLKEAVQSRGIALDD 245 (929)
Q Consensus 191 ---P~eLLDvIL~~Ll~~~ks~~Pa------------Ay~LA~~VI~~CadK--L~p~I~q~fnS~Gi~ld~ 245 (929)
+..+...++.-.-+........ |..+...+...+..+ ....++++|+.+-++.++
T Consensus 218 ~v~~~~v~~~lv~lt~~~~~~~~~~~~~~~~~~h~~La~~il~~i~~~~~~~~~~~k~~~~~L~~L~i~~~~ 289 (298)
T PF12719_consen 218 MVSPSQVASFLVDLTDPSKLVKESNQEIQNESVHVDLAIDILNEILSDPEKEKEERKALCKALSKLEISLDE 289 (298)
T ss_pred hCCHHHHHHHHHHHCChhhccCccccccccccHHHHHHHHHHHHHHhccccchHHHHHHHHHHhccccCcCC
No 43
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=49.52 E-value=58 Score=35.82 Aligned_cols=113 Identities=15% Similarity=0.277 Sum_probs=54.3
Q ss_pred HhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHH------HHHHHHhcccC-CCCCcchHH
Q 002385 55 DALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFF------QLAVSAFENLS-HASGRYYMK 127 (929)
Q Consensus 55 ~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIF------qLfV~qf~~La-D~sSP~F~q 127 (929)
..|..++.-|.+ .+.+.+.+++..+..||+.+||+ .+.+.+| ..++..|.... ..++..++-
T Consensus 146 ~~l~~ll~~L~~--~l~~~~~~~~~~av~~L~~LL~~---------~~~R~~f~~~~~v~~l~~iL~~~~~~~~~~~~Ql 214 (312)
T PF03224_consen 146 EALPKLLQWLSS--QLSSSDSELQYIAVQCLQNLLRS---------KEYRQVFWKSNGVSPLFDILRKQATNSNSSGIQL 214 (312)
T ss_dssp HHHHHHHHHHH---TT-HHHH---HHHHHHHHHHHTS---------HHHHHHHHTHHHHHHHHHHHH---------HHHH
T ss_pred HHHHHHHHHHHH--hhcCCCcchHHHHHHHHHHHhCc---------chhHHHHHhcCcHHHHHHHHHhhcccCCCCchhH
Confidence 456566666555 77888999999999999999987 2333333 44444442222 233444444
Q ss_pred HHHHHHHhhhhceeeeeccCCchHHHHH-----HHHHHHHHhhcCCchhHHHHHHHHHHHHhcc
Q 002385 128 ALSILDTVAKVRSCLLMLDLECDKLVVE-----MFQHFLKVIRSNHPHFVFAAMETIMTLVIDE 186 (929)
Q Consensus 128 y~yLLEtLAeVKS~VLMlDLe~ddLI~e-----LFktFF~iVr~~hp~kV~~~M~dIMs~VIEE 186 (929)
.|++| .|++++=++. +++.+ +|..+.++++...-++|......|+.-+++-
T Consensus 215 ~Y~~l-------l~lWlLSF~~-~~~~~~~~~~~i~~L~~i~~~~~KEKvvRv~la~l~Nl~~~ 270 (312)
T PF03224_consen 215 QYQAL-------LCLWLLSFEP-EIAEELNKKYLIPLLADILKDSIKEKVVRVSLAILRNLLSK 270 (312)
T ss_dssp HHHHH-------HHHHHHTTSH-HHHHHHHTTSHHHHHHHHHHH--SHHHHHHHHHHHHHTTSS
T ss_pred HHHHH-------HHHHHHhcCH-HHHHHHhccchHHHHHHHHHhcccchHHHHHHHHHHHHHhc
Confidence 44444 3666666652 12222 3344444444444455555544444444443
No 44
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=48.89 E-value=1.3e+02 Score=30.50 Aligned_cols=78 Identities=22% Similarity=0.283 Sum_probs=44.2
Q ss_pred ccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCC-Cc-----chHH----HHHHHHHhhhhc
Q 002385 70 LRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHAS-GR-----YYMK----ALSILDTVAKVR 139 (929)
Q Consensus 70 LkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~s-SP-----~F~q----y~yLLEtLAeVK 139 (929)
|.-.|.+||.++..||.++++-.-|++ |+..|+..+..|.+.. .+ ...+ |-+||+.+.+
T Consensus 72 l~D~~~~Ir~~A~~~~~e~~~~~~~~~---------i~~~~~e~i~~l~~~~~~~~~~~~~~~~~~~I~~fll~~i~~-- 140 (178)
T PF12717_consen 72 LVDENPEIRSLARSFFSELLKKRNPNI---------IYNNFPELISSLNNCYEHPVYGPLSREKRKKIYKFLLDFIDK-- 140 (178)
T ss_pred HcCCCHHHHHHHHHHHHHHHHhccchH---------HHHHHHHHHHHHhCccccccccccCHHHHHHHHHHHHHHcCc--
Confidence 345567788888899999887764543 3566666666665532 22 2222 3344444432
Q ss_pred eeeeeccCCchHHHHHHHHHHHHHh
Q 002385 140 SCLLMLDLECDKLVVEMFQHFLKVI 164 (929)
Q Consensus 140 S~VLMlDLe~ddLI~eLFktFF~iV 164 (929)
|-..+.|+..+++.|+..+
T Consensus 141 ------d~~~~~l~~kl~~~~~~~~ 159 (178)
T PF12717_consen 141 ------DKQKESLVEKLCQRFLNAV 159 (178)
T ss_pred ------HHHHHHHHHHHHHHHHHHc
Confidence 2224566666666666543
No 45
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=48.19 E-value=1.8e+02 Score=36.27 Aligned_cols=118 Identities=14% Similarity=0.241 Sum_probs=63.3
Q ss_pred chHHHHHHHHHHHHHhhcC------------------CchhHHHHHHHHHHHHhccc----CCCcHHHHHHHHHHhhccC
Q 002385 149 CDKLVVEMFQHFLKVIRSN------------------HPHFVFAAMETIMTLVIDES----EDVSWDLLRILLASVRKEN 206 (929)
Q Consensus 149 ~ddLI~eLFktFF~iVr~~------------------hp~kV~~~M~dIMs~VIEES----E~VP~eLLDvIL~~Ll~~~ 206 (929)
|-+-+.+|.-.|++.+... .-+.|.+.+.++|..||--. +.+...|+.++|.-+-+..
T Consensus 531 ~~d~V~~~~a~~~~~~~~kl~~~isv~~q~l~~eD~~~~~elqSN~~~vl~aiir~~~~~ie~v~D~lm~Lf~r~les~~ 610 (858)
T COG5215 531 CPDAVSDILAGFYDYTSKKLDECISVLGQILATEDQLLVEELQSNYIGVLEAIIRTRRRDIEDVEDQLMELFIRILESTK 610 (858)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHhccC
Confidence 4456666777777766531 12345555666667777643 4566666666665554443
Q ss_pred CCCCh-----hhHHHHH---HHHhhchHHHHHHHHHHHHh-------------------cCCCCchhHHHHHH-HhccCC
Q 002385 207 QDVSP-----TSWKLGE---KVFTKCAAKLKTNLKEAVQS-------------------RGIALDDYAEIVAC-ICGSDD 258 (929)
Q Consensus 207 ks~~P-----aAy~LA~---~VI~~CadKL~p~I~q~fnS-------------------~Gi~ld~Y~eIV~s-I~q~~s 258 (929)
+++.- +--.|+. +=+..-+.++-||+...||. +|..+..|.+++.+ +.|+-+
T Consensus 611 ~t~~~~dV~~aIsal~~sl~e~Fe~y~~~fiPyl~~aln~~d~~v~~~avglvgdlantl~~df~~y~d~~ms~LvQ~ls 690 (858)
T COG5215 611 PTTAFGDVYTAISALSTSLEERFEQYASKFIPYLTRALNCTDRFVLNSAVGLVGDLANTLGTDFNIYADVLMSSLVQCLS 690 (858)
T ss_pred CchhhhHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhc
Confidence 32210 0001111 12344556677777766652 45556889887755 455544
Q ss_pred CCC-CCCCC
Q 002385 259 ENP-QHGHL 266 (929)
Q Consensus 259 ~~l-~~~~~ 266 (929)
+.. +++..
T Consensus 691 s~~~~R~lK 699 (858)
T COG5215 691 SEATHRDLK 699 (858)
T ss_pred Chhhccccc
Confidence 443 66654
No 46
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=47.93 E-value=48 Score=31.34 Aligned_cols=60 Identities=15% Similarity=0.218 Sum_probs=37.0
Q ss_pred hhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhc-ccCCCCCcchHHHHHHHHHh
Q 002385 68 DLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFE-NLSHASGRYYMKALSILDTV 135 (929)
Q Consensus 68 ~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~-~LaD~sSP~F~qy~yLLEtL 135 (929)
..|...|.-||-|++-||-+|.+++ . +++-.-|.-||..|. .++|++ +.=+..-.+|.+|
T Consensus 34 ~~~~D~d~rVRy~AcEaL~ni~k~~------~-~~~l~~f~~IF~~L~kl~~D~d-~~Vr~~a~~Ld~l 94 (97)
T PF12755_consen 34 KCFDDQDSRVRYYACEALYNISKVA------R-GEILPYFNEIFDALCKLSADPD-ENVRSAAELLDRL 94 (97)
T ss_pred HHcCCCcHHHHHHHHHHHHHHHHHH------H-HHHHHHHHHHHHHHHHHHcCCc-hhHHHHHHHHHHH
Confidence 4677888889999999999999997 2 233334555555433 334443 3334444555544
No 47
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=47.70 E-value=19 Score=39.57 Aligned_cols=35 Identities=17% Similarity=0.487 Sum_probs=31.0
Q ss_pred cCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcC
Q 002385 713 VGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYA 747 (929)
Q Consensus 713 VG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YD 747 (929)
||.+|.+-|++|..||..+|....+-.+.--|.++
T Consensus 93 vg~K~~A~~~ddg~~y~AtIe~ita~~~~~ai~f~ 127 (262)
T KOG3026|consen 93 VGDKVQAVFSDDGQIYDATIEHITAMEGTVAIIFA 127 (262)
T ss_pred cCCEEEEeecCCCceEEeehhhccCCCCceeEEEe
Confidence 89999999999999999999999997666666665
No 48
>PF12074 DUF3554: Domain of unknown function (DUF3554); InterPro: IPR022716 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 287 to 356 amino acids in length. This domain is found associated with PF02985 from PFAM.
Probab=46.76 E-value=4.5e+02 Score=29.27 Aligned_cols=95 Identities=11% Similarity=0.120 Sum_probs=53.3
Q ss_pred CHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHH
Q 002385 27 PVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEF 106 (929)
Q Consensus 27 S~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDI 106 (929)
+-..|.-.|..+...|..+..+.++ .+.+.+++ =|..+...||-....|+.++|+ .+...-....+..|
T Consensus 36 nE~aL~~~l~al~~~~~~~~~~~~~-------~~~~~~~k--Gl~~kk~~vR~~w~~~~~~~~~--~~~~~~~~~~~~~~ 104 (339)
T PF12074_consen 36 NEAALSALLSALFKHLFFLSSELPK-------KVVDAFKK--GLKDKKPPVRRAWLLCLGEALW--ESPNSDSLKFAEPF 104 (339)
T ss_pred CHHHHHHHHHHHHHHHHHhCcCCCH-------HHHHHHHH--HhcCCCCcHHHHHHHHHHHHHh--hccCchHHHHHHHH
Confidence 4455777777777777777443333 22222222 3455555599999999999999 11111112455566
Q ss_pred HHHHHHHhccc-CC-----CCCcchHHHHHHH
Q 002385 107 FQLAVSAFENL-SH-----ASGRYYMKALSIL 132 (929)
Q Consensus 107 FqLfV~qf~~L-aD-----~sSP~F~qy~yLL 132 (929)
.-.++..|..- .. ..+....-|++++
T Consensus 105 ~~~L~~~~~~~~~~p~~~~~~~~~~~a~~~l~ 136 (339)
T PF12074_consen 105 LPKLLQSLKEASANPLQSAQNGELVGAYVLLA 136 (339)
T ss_pred HHHHHHHHHHHHhCCCCccccccHHHHHHHHH
Confidence 66666665422 11 2244555666666
No 49
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal
Probab=46.58 E-value=1.6e+02 Score=34.35 Aligned_cols=162 Identities=18% Similarity=0.234 Sum_probs=83.2
Q ss_pred hHHHHHHHHHHHHhcccCCCCCcchHHHHH-HHH----Hhhhhceeeeecc-----CCchHHHHHHHHHHHHHhh-----
Q 002385 101 ELMKEFFQLAVSAFENLSHASGRYYMKALS-ILD----TVAKVRSCLLMLD-----LECDKLVVEMFQHFLKVIR----- 165 (929)
Q Consensus 101 dqLKDIFqLfV~qf~~LaD~sSP~F~qy~y-LLE----tLAeVKS~VLMlD-----Le~ddLI~eLFktFF~iVr----- 165 (929)
.-++++|-+|+.-+..+.-..++|-.+..- |+. .+.--.+.+..+- .-...-..++.+.+++.++
T Consensus 139 ~ai~k~lpl~lqGl~~~~~~~dayL~~~l~~ii~~y~~~Fl~~~~~~~~~~l~~~~~~~~~~~~~l~~~il~~i~~~fl~ 218 (373)
T PF14911_consen 139 QAIRKSLPLFLQGLGRLSQRQDAYLNQQLRNIIQQYLPRFLPASPSKLVARLSTLLSAFTPRNEELRKFILQVIRSNFLE 218 (373)
T ss_pred HHHHHHHHHHHHHHHhcccccChHHHHHHHHHHHHHHhHhccCCCccccccccccccchhhhhhHHHHHHHHHHHHHHhc
Confidence 568899999998888888777777665421 111 1111111111111 1011122333333333333
Q ss_pred --cCCchhHHHHHHHHHHHHhcc----cCCCcHHHHHHHH----HHhhccC--CCCChhhHHHHHHHHhhch--------
Q 002385 166 --SNHPHFVFAAMETIMTLVIDE----SEDVSWDLLRILL----ASVRKEN--QDVSPTSWKLGEKVFTKCA-------- 225 (929)
Q Consensus 166 --~~hp~kV~~~M~dIMs~VIEE----SE~VP~eLLDvIL----~~Ll~~~--ks~~PaAy~LA~~VI~~Ca-------- 225 (929)
+.-|+.-......++.+++++ ....-..+++.+| .+++--+ ...-..|-.+-..+++.|.
T Consensus 219 ~~~~~p~p~l~~vL~fl~~Ll~~~~~~~~~~~~~~~~~~lp~lL~c~~~v~e~~~~k~~a~e~l~~mv~~~~~~~~~~~~ 298 (373)
T PF14911_consen 219 FKGSAPPPRLASVLAFLQQLLKRLQRQNENQILTLLRLVLPSLLECLMLVNEEPQVKKLATELLQYMVESCQVGSSGEPR 298 (373)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHhcCcccchhHHHHHHHhhHHHHHHHhhcCCCcchhHHHHHHHHHHHHcccccCcchHH
Confidence 233333334555556666666 2333333344333 3333222 1222333344455566776
Q ss_pred HHHHHHHHHHHHhcCCC-CchhHHHHHHHhccCCCCCC
Q 002385 226 AKLKTNLKEAVQSRGIA-LDDYAEIVACICGSDDENPQ 262 (929)
Q Consensus 226 dKL~p~I~q~fnS~Gi~-ld~Y~eIV~sI~q~~s~~l~ 262 (929)
+.|...+++|.+..+.- --.|..++.+|+..+++.+.
T Consensus 299 ~~l~s~lrsfvqk~l~~~t~~~f~~l~~vA~l~p~lV~ 336 (373)
T PF14911_consen 299 EQLTSVLRSFVQKYLAHYTYQYFQFLEKVAELDPQLVI 336 (373)
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCHHHHH
Confidence 44777777777764332 45689999999998887664
No 50
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown. It is found associated with prokaryotic bifunctional transcriptional repressors [] and eukaryotic enzymes involved in biotin utilization [, ]. In Escherichia coli the biotin operon repressor (BirA) is a bifunctional protein. BirA acts both as the acetyl-coA carboxylase biotin holoenzyme synthetase (6.3.4.15 from EC) and as the biotin operon repressor. DNA sequence analysis of mutations indicates that the helix-turn-helix DNA binding region is located at the N terminus while mutations affecting enzyme function, although mapping over a large region, are found mainly in the central part of the protein's primary sequence [].; GO: 0006464 protein modification process; PDB: 3RUX_A 2CGH_A 3L1A_B 3L2Z_A 1HXD_A 1BIB_A 2EWN_B 1BIA_A 2EJ9_A 3FJP_A ....
Probab=44.96 E-value=62 Score=26.71 Aligned_cols=39 Identities=15% Similarity=0.248 Sum_probs=31.2
Q ss_pred cCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcCCCcceee
Q 002385 713 VGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYADGDEEIL 754 (929)
Q Consensus 713 VG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YDDGD~E~L 754 (929)
+|++|+|.++ +..|.|.+...|. .+.=.|..+||..+.+
T Consensus 2 lG~~V~v~~~--~~~~~G~~~gId~-~G~L~v~~~~g~~~~i 40 (48)
T PF02237_consen 2 LGQEVRVETG--DGEIEGIAEGIDD-DGALLVRTEDGSIRTI 40 (48)
T ss_dssp TTSEEEEEET--SCEEEEEEEEEET-TSEEEEEETTEEEEEE
T ss_pred CCCEEEEEEC--CeEEEEEEEEECC-CCEEEEEECCCCEEEE
Confidence 6999999994 4577999999998 4777888888855544
No 51
>KOG0301 consensus Phospholipase A2-activating protein (contains WD40 repeats) [Lipid transport and metabolism]
Probab=44.41 E-value=1.9e+02 Score=36.25 Aligned_cols=92 Identities=21% Similarity=0.166 Sum_probs=47.5
Q ss_pred CHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhh---c--------------cC--CCcCeehhhhHHHHH
Q 002385 27 PVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDL---L--------------RR--SDMDVRLSVTSCISE 87 (929)
Q Consensus 27 S~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~L---L--------------kH--KDkdVRlyVAcCLAD 87 (929)
..++.+..| .+|..+.|-|.+-|--+|.-++-.+.++.+ + .. .+.--++++.=||+.
T Consensus 539 ~~~e~~~~l----~~l~~l~~wp~~~~fPalDilRl~v~h~~~~s~~~~~~~~~~~~~~li~~~~~~~an~ll~vR~L~N 614 (745)
T KOG0301|consen 539 YSSEVLQSL----LALAILLQWPVEMMFPALDILRLAVKHHSSNSLFCDREEGQNLVGTLIPILNADPANQLLVVRCLAN 614 (745)
T ss_pred ccchhHHHH----HHHHHHhcCCHHHhhhHHHHHHHHHhccchhhhhhhhhhhhHHHHhhhcccccchhHHHHHHHHHHH
Confidence 344444444 466677777877665566555443332211 1 11 123345667777777
Q ss_pred HhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHH
Q 002385 88 ITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMK 127 (929)
Q Consensus 88 ILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~q 127 (929)
+| ++ |+.-.-+---+..+++.|....-.++..++.
T Consensus 615 ~f----~~-~~g~~~~~s~~~~i~~~~~~~~s~~~knl~i 649 (745)
T KOG0301|consen 615 LF----SN-PAGRELFMSRLESILDPVIEASSLSNKNLQI 649 (745)
T ss_pred hc----cC-HHHHHHHHHHHHHHhhhhhhhhcccchhHHH
Confidence 77 55 5555444444555555555554444444433
No 52
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=43.65 E-value=37 Score=40.35 Aligned_cols=37 Identities=19% Similarity=0.263 Sum_probs=30.9
Q ss_pred ccCCeEEEeeCCCCceEEEEEEEecCCC------CeEEEEcCC
Q 002385 712 LVGSRIKVWWPMDETFYKGVVDNYDPIK------KKHRILYAD 748 (929)
Q Consensus 712 lVG~RVkV~WP~D~~wY~G~V~syd~~t------kkH~V~YDD 748 (929)
-||.+|.++|..|..||.++|....... ...-|.|..
T Consensus 55 ~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g 97 (450)
T PLN00104 55 EVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTE 97 (450)
T ss_pred ccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEec
Confidence 4999999999999999999999988633 357788873
No 53
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=43.18 E-value=1.7e+02 Score=37.41 Aligned_cols=205 Identities=14% Similarity=0.200 Sum_probs=110.7
Q ss_pred hccccCCCCCCHHHHHHHHHHHHHHHHhcccCCchh--------hHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHH
Q 002385 17 AGNLLLNPPSPVDEVINLLDKVEHLLANVEQAPSRS--------MRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEI 88 (929)
Q Consensus 17 ~G~kLisppiS~dELLKRLkkL~~eLs~vDQ~pvdS--------~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADI 88 (929)
+++++|+..+++.+.-+++=.-. .|.++-- .-+|..+....|.+.. =.-.|.++....|.||++-
T Consensus 44 V~~~IisldL~v~~Vy~~vW~~~------~~~~pM~v~YR~~Gl~geAtE~~v~~l~~~~-~~~~d~e~~~~~~~v~~~~ 116 (802)
T PF13764_consen 44 VNNKIISLDLPVRDVYEKVWKPN------NQNPPMRVVYRMRGLDGEATEEFVESLEDDS-EEEEDPEQEFKIASVLAEC 116 (802)
T ss_pred ecCeeecCCCcHHHHHHHHhccc------CCCCCeEEEEeecCCCCccchhhHhhccCcc-ccccCHHHHHHHHHHhhcC
Confidence 67788888899888888775211 2222210 0234445555554422 1113555566666665431
Q ss_pred hhhcCCCCCCChhHHHHHHHHHHHHhcccCCC--CCcchHHHHHHHHHhhhhcee-eeeccCCchHHHHHHHHHHHHHhh
Q 002385 89 TRITAPDSPYDDELMKEFFQLAVSAFENLSHA--SGRYYMKALSILDTVAKVRSC-LLMLDLECDKLVVEMFQHFLKVIR 165 (929)
Q Consensus 89 LRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~--sSP~F~qy~yLLEtLAeVKS~-VLMlDLe~ddLI~eLFktFF~iVr 165 (929)
.-|.. +++.+..+.|. .-.....-+.||....+|+.+ -.++.+.+-..++..++.+|..-.
T Consensus 117 ------------gGL~~----ll~~l~~~~~~~~~~~ll~~llkLL~~c~Kv~~NR~~Ll~~~al~~LL~~L~~~l~~~~ 180 (802)
T PF13764_consen 117 ------------GGLEV----LLSRLDSIRDFSRGRELLQVLLKLLRYCCKVKVNRRALLELNALNRLLSVLNRALQANQ 180 (802)
T ss_pred ------------CCHHH----HHHHHHhhccccCcHHHHHHHHHHHHHHHhhHHHHHHHHHcCCHHHHHHHHHHHHhCcc
Confidence 11221 22223333332 223456667888888888766 344557777888888888888644
Q ss_pred cCCchhHHHHHHHHHHHHhcccCC--C---------------cHHHHHHHHHHhhccCCCCCh-hhHHHHHHHHhhc---
Q 002385 166 SNHPHFVFAAMETIMTLVIDESED--V---------------SWDLLRILLASVRKENQDVSP-TSWKLGEKVFTKC--- 224 (929)
Q Consensus 166 ~~hp~kV~~~M~dIMs~VIEESE~--V---------------P~eLLDvIL~~Ll~~~ks~~P-aAy~LA~~VI~~C--- 224 (929)
+.....+..-|..||..|+.|... + ..+-++.+|..+-......++ ..-.|++ ||-.-
T Consensus 181 ~~~~~~i~E~LL~IiE~ll~ea~~~~~~~~~~~~~~~~~~~~~~~~v~~lL~~l~s~~~r~~~~i~~~l~R-iLP~Lt~G 259 (802)
T PF13764_consen 181 NSSQAEIAEQLLEIIESLLSEANSSSSSESKSSSSLSGSEEQDKEQVEMLLERLNSPFVRSNPQILQALAR-ILPFLTYG 259 (802)
T ss_pred ccccchHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccHHHHHHHHHHhcCccccCCHHHHHHHHH-HhhHHhcC
Confidence 444455666666777777666542 1 456688888888755432333 2222333 32211
Q ss_pred hHHHHHHHHHHHHhcCCCCchh
Q 002385 225 AAKLKTNLKEAVQSRGIALDDY 246 (929)
Q Consensus 225 adKL~p~I~q~fnS~Gi~ld~Y 246 (929)
....--+|.++|.-+ +.++.|
T Consensus 260 ~~e~m~~Lv~~F~p~-l~f~~~ 280 (802)
T PF13764_consen 260 NEEKMDALVEHFKPY-LDFDKF 280 (802)
T ss_pred CHHHHHHHHHHHHHh-cChhhc
Confidence 122334455556543 455555
No 54
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=42.67 E-value=4.4e+02 Score=31.47 Aligned_cols=94 Identities=12% Similarity=0.248 Sum_probs=57.1
Q ss_pred CcCeehhhhHHHHHHhhhcCCCCCCChhHHHHH------HHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccC
Q 002385 74 DMDVRLSVTSCISEITRITAPDSPYDDELMKEF------FQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDL 147 (929)
Q Consensus 74 DkdVRlyVAcCLADILRIyAPDAPYtDdqLKDI------FqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDL 147 (929)
+.+.+-.++.||+.+||+ +..+.+ +.+++..|..- ...++-.|++| .|++++-+
T Consensus 157 ~~~~~~~~v~~L~~LL~~---------~~~R~~f~~~~~v~~L~~~L~~~----~~~~Ql~Y~~l-------l~lWlLSF 216 (429)
T cd00256 157 NNDYVQTAARCLQMLLRV---------DEYRFAFVLADGVPTLVKLLSNA----TLGFQLQYQSI-------FCIWLLTF 216 (429)
T ss_pred CcchHHHHHHHHHHHhCC---------chHHHHHHHccCHHHHHHHHhhc----cccHHHHHHHH-------HHHHHHhc
Confidence 466666677999999987 223333 33555555421 12333333333 35666666
Q ss_pred Cc--hHHH--HHHHHHHHHHhhcCCchhHHHHHHHHHHHHhccc
Q 002385 148 EC--DKLV--VEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDES 187 (929)
Q Consensus 148 e~--ddLI--~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEES 187 (929)
++ .+.+ ..++..+.++++...-++|......|+.-+++-.
T Consensus 217 ~~~~~~~~~~~~~i~~l~~i~k~s~KEKvvRv~l~~l~Nll~~~ 260 (429)
T cd00256 217 NPHAAEVLKRLSLIQDLSDILKESTKEKVIRIVLAIFRNLISKR 260 (429)
T ss_pred cHHHHHhhccccHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhcc
Confidence 52 2333 3466777777777777889888888888888854
No 55
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal
Probab=42.62 E-value=4.4e+02 Score=30.96 Aligned_cols=123 Identities=15% Similarity=0.259 Sum_probs=78.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCC--h
Q 002385 23 NPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYD--D 100 (929)
Q Consensus 23 sppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYt--D 100 (929)
.||......|..|.+|-+.+..-.+ .....-+..+.-.|...-++-|--.-||..+.--|-.|++-+. ..+.. .
T Consensus 223 ~p~p~l~~vL~fl~~Ll~~~~~~~~---~~~~~~~~~~lp~lL~c~~~v~e~~~~k~~a~e~l~~mv~~~~-~~~~~~~~ 298 (373)
T PF14911_consen 223 APPPRLASVLAFLQQLLKRLQRQNE---NQILTLLRLVLPSLLECLMLVNEEPQVKKLATELLQYMVESCQ-VGSSGEPR 298 (373)
T ss_pred CCCCcHHHHHHHHHHHHHhcCcccc---hhHHHHHHHhhHHHHHHHhhcCCCcchhHHHHHHHHHHHHccc-ccCcchHH
Confidence 3666677888888888877651111 1112333444445555556666677799888877888877665 12222 3
Q ss_pred hHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhh
Q 002385 101 ELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIR 165 (929)
Q Consensus 101 dqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr 165 (929)
++|..+|.-|+.---. -|-.+||.+|++||... .+||..||-++=..+.
T Consensus 299 ~~l~s~lrsfvqk~l~------~~t~~~f~~l~~vA~l~----------p~lV~~Lip~i~q~l~ 347 (373)
T PF14911_consen 299 EQLTSVLRSFVQKYLA------HYTYQYFQFLEKVAELD----------PQLVISLIPTIRQSLK 347 (373)
T ss_pred HHHHHHHHHHHHHHhh------hhhHHHHHHHHHHHHhC----------HHHHHHHHHHHHHHHH
Confidence 7888888888875322 34557899999999986 4666666655544433
No 56
>KOG4338 consensus Predicted lipoprotein [Lipid transport and metabolism]
Probab=41.58 E-value=1.5e+02 Score=40.29 Aligned_cols=30 Identities=10% Similarity=0.406 Sum_probs=20.0
Q ss_pred hhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHH
Q 002385 81 VTSCISEITRITAPDSPYDDELMKEFFQLAVSA 113 (929)
Q Consensus 81 VAcCLADILRIyAPDAPYtDdqLKDIFqLfV~q 113 (929)
.+.-|+.+.|++ |++ +.+||+.||++.|..
T Consensus 367 ~~~tla~~Vkl~-~e~--s~dqLk~i~r~~ve~ 396 (1680)
T KOG4338|consen 367 TRHTLARLVKLL-REP--SHDQLKKIYRLLVET 396 (1680)
T ss_pred HHHHHHHHHHHh-ccC--CHHHHHHHHHHHHhh
Confidence 344456666664 333 569999999988554
No 57
>PF11935 DUF3453: Domain of unknown function (DUF3453); InterPro: IPR021850 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. ; PDB: 3ODS_A 3ODR_A 3O2Q_A 3O2T_A 3O2S_A 3GS3_A.
Probab=41.34 E-value=3.6e+02 Score=29.14 Aligned_cols=172 Identities=13% Similarity=0.103 Sum_probs=84.3
Q ss_pred hhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCC--CCCcchHHH
Q 002385 51 RSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSH--ASGRYYMKA 128 (929)
Q Consensus 51 dS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD--~sSP~F~qy 128 (929)
..+++.+..+...+++. +.+.+.|||+.+.=.|--+.=++.|..++++..... ..--.|+. ++.|+
T Consensus 35 ~~~W~~~~~lK~~Il~~--~~~~~~gvk~~~iKFle~vIl~qs~~~~~~~~~~~~------~~d~SL~~vp~~Hp~---- 102 (239)
T PF11935_consen 35 EQLWESMNELKDRILSL--WDSENPGVKLAAIKFLERVILVQSPGSSDSPPRRGS------PNDFSLSSVPPNHPL---- 102 (239)
T ss_dssp HHHHHHHHHHHHHHHHG--GGSSSHHHHHHHHHHHHHHHHHTS---TTS---GGG------TTS--GGGS-TT-SS----
T ss_pred HHHHHHHHHHHHHHHHH--hcCCCchHHHHHHHHHHHHHHhcCCCCCCCcccccc------ccCCCHHHcCCCCCc----
Confidence 45788888888888887 888899999999988888888888888776543000 00011222 22232
Q ss_pred HHHHHHhhhhceeeeeccC--CchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccC
Q 002385 129 LSILDTVAKVRSCLLMLDL--ECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKEN 206 (929)
Q Consensus 129 ~yLLEtLAeVKS~VLMlDL--e~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ 206 (929)
+-.-.| |+..|+..|+..|+... .+..++..+.+-|..|+--=...-.-||.+|+..-....
T Consensus 103 -------------l~~~~Le~Ea~~lL~~Ll~~l~~~~---i~~~~~~a~insL~~Iak~RP~~~~~Il~~ll~~~~~~~ 166 (239)
T PF11935_consen 103 -------------LNPQQLEAEANGLLDRLLDVLQSPH---ISSPLLTAIINSLSNIAKQRPQFMSRILPALLSFNPNLS 166 (239)
T ss_dssp -------------S-HHHHHHHHHHHHHHHHHHHC-TT-----HHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHS--
T ss_pred -------------CCHHHHHHHHHHHHHHHHHHHhhcc---cchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcCcccc
Confidence 222223 25566666666665422 355555555555555555433444445555554322110
Q ss_pred CCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCCCCchhHHHHHHHhc
Q 002385 207 QDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGIALDDYAEIVACICG 255 (929)
Q Consensus 207 ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi~ld~Y~eIV~sI~q 255 (929)
....+.-+.++..-+ .-.|+-.|..+|+.-.. ..|+.-|...+.
T Consensus 167 ~~~~~~~~~~~v~sv---~k~lk~~l~~llk~~~~--~~~~~~i~~~L~ 210 (239)
T PF11935_consen 167 PMQPPTLSKLQVKSV---EKTLKIFLLHLLKHPAS--SPFQGRITQALT 210 (239)
T ss_dssp ----TTCSHHHHHHH---HHHHHHHHHHHHTSGGG--GGGHHHHHHHHH
T ss_pred ccCCccchHHHHHHH---HHHHHHHHHHHHCCCCc--hhhHHHHHHHHH
Confidence 011222223332222 22356666666663222 266665555554
No 58
>PF08767 CRM1_C: CRM1 C terminal; InterPro: IPR014877 CRM1 (also known as Exportin1) mediates the nuclear export of proteins bearing a leucine-rich nuclear export signal (NES). CRM1 forms a complex with the NES containing protein and the small GTPase Ran. This region forms an alpha helical structure formed by six helical hairpin motifs that are structurally similar to the HEAT repeat, but share little sequence similarity to the HEAT repeat []. ; PDB: 3M1I_C 3GB8_A 1W9C_A 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D.
Probab=41.14 E-value=4.4e+02 Score=29.75 Aligned_cols=100 Identities=19% Similarity=0.281 Sum_probs=54.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcC------eehhhhHHHHHHhhhcCCCCCCChh
Q 002385 28 VDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMD------VRLSVTSCISEITRITAPDSPYDDE 101 (929)
Q Consensus 28 ~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkd------VRlyVAcCLADILRIyAPDAPYtDd 101 (929)
..|.|..+..+...|...-++.+.-+.+++-..-..+++..+..-++-- +|+++..|..=++.+ +.+
T Consensus 89 ~~evL~l~~~ii~kl~~~~~~~v~~I~~~vf~~Tl~MI~~d~~~yPe~r~~ff~LL~~i~~~~f~~l~~l-------p~~ 161 (319)
T PF08767_consen 89 EPEVLSLMATIINKLGELIQPQVPQILEAVFECTLPMINKDFEEYPEHRVNFFKLLRAINEHCFPALLQL-------PPE 161 (319)
T ss_dssp -HHHHHHHHHHHHHHGGGCCCCHHHHHHHHHHHHHHHHSSTSSSSHHHHHHHHHHHHHHHHHHTHHHHHS--------HH
T ss_pred ChhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHhhhhhChHHHHHHHHHHHHHHHHhHHHHHcC-------CHH
Confidence 5678888888888888766666665666666666677777666544322 233444454444443 445
Q ss_pred HHHHHHHHHHHHhcccCCCCCc----chHHHHHHHHHhhh
Q 002385 102 LMKEFFQLAVSAFENLSHASGR----YYMKALSILDTVAK 137 (929)
Q Consensus 102 qLKDIFqLfV~qf~~LaD~sSP----~F~qy~yLLEtLAe 137 (929)
+++.++..++-.+ .++... ...-...||+.++.
T Consensus 162 ~f~~~idsi~wg~---kh~~~~I~~~~L~~l~~ll~~~~~ 198 (319)
T PF08767_consen 162 QFKLVIDSIVWGF---KHTNREISETGLNILLELLNNVSK 198 (319)
T ss_dssp HHHHHHHHHHHHH---TSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHHHHHh
Confidence 5555555554444 444433 33333444555544
No 59
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=40.20 E-value=37 Score=27.66 Aligned_cols=47 Identities=19% Similarity=0.274 Sum_probs=31.4
Q ss_pred HHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHH
Q 002385 40 HLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEI 88 (929)
Q Consensus 40 ~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADI 88 (929)
..|..+-+...+.+...+..++..|+ .+|.+.+..||..++-||..|
T Consensus 9 ~aLg~l~~~~~~~~~~~~~~~~~~L~--~~L~d~~~~VR~~A~~aLg~l 55 (55)
T PF13513_consen 9 WALGRLAEGCPELLQPYLPELLPALI--PLLQDDDDSVRAAAAWALGNL 55 (55)
T ss_dssp HHHHCTTTTTHHHHHHHHHHHHHHHH--HHTTSSSHHHHHHHHHHHHCH
T ss_pred HHHhhHhcccHHHHHHHHHHHHHHHH--HHHcCCCHHHHHHHHHHHhcC
Confidence 34555544444434445555666666 677888889999999999765
No 60
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=39.50 E-value=5.1e+02 Score=30.57 Aligned_cols=111 Identities=13% Similarity=0.165 Sum_probs=70.7
Q ss_pred CCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHH
Q 002385 121 SGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLA 200 (929)
Q Consensus 121 sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~ 200 (929)
+...+.+.|.+|.++-+..+..+ .++.|..|.+..+.+.+..........-..++-.||- ...||.+-+..++.
T Consensus 147 ~~~~l~~ll~~l~nviKfn~~~l-----~e~~i~~lv~~i~~iC~~Ts~~~di~~~L~vldaii~-y~~iP~~sl~~~i~ 220 (464)
T PF11864_consen 147 EESNLSDLLQFLVNVIKFNFNYL-----DEDEISSLVDQICTICKSTSSEDDIEACLSVLDAIIT-YGDIPSESLSPCIE 220 (464)
T ss_pred hhhhHHHHHHHHHHHHhcCCCCC-----CHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHH-cCcCChHHHHHHHH
Confidence 45566777777777777665543 3466666666666665544444444444566666665 67899888877775
Q ss_pred Hhhcc-C-CCCChhhHHHHHHHH-hhchHHHHHHHHHHHH
Q 002385 201 SVRKE-N-QDVSPTSWKLGEKVF-TKCAAKLKTNLKEAVQ 237 (929)
Q Consensus 201 ~Ll~~-~-ks~~PaAy~LA~~VI-~~CadKL~p~I~q~fn 237 (929)
-|=.- + .+-...+|++.+++| ..++...=..++.+|.
T Consensus 221 vLCsi~~~~~l~~~~w~~m~nL~~S~~g~~~i~~L~~iL~ 260 (464)
T PF11864_consen 221 VLCSIVNSVSLCKPSWRTMRNLLKSHLGHSAIRTLCDILR 260 (464)
T ss_pred HHhhHhcccccchhHHHHHHHHHcCccHHHHHHHHHHHHc
Confidence 54321 1 134567888888888 4456666777888883
No 61
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=39.36 E-value=2.6e+02 Score=30.21 Aligned_cols=14 Identities=7% Similarity=0.181 Sum_probs=6.5
Q ss_pred chh-HHHHHHHhccC
Q 002385 244 DDY-AEIVACICGSD 257 (929)
Q Consensus 244 d~Y-~eIV~sI~q~~ 257 (929)
+.| +.||..++...
T Consensus 234 ~k~Gs~Vve~~l~~~ 248 (322)
T cd07920 234 HKFASNVVEKCLKHA 248 (322)
T ss_pred CcchHHHHHHHHHHC
Confidence 444 44554444443
No 62
>KOG2022 consensus Nuclear transport receptor LGL2 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=39.30 E-value=4e+02 Score=34.66 Aligned_cols=184 Identities=16% Similarity=0.265 Sum_probs=104.4
Q ss_pred HhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHH
Q 002385 55 DALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDT 134 (929)
Q Consensus 55 ~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEt 134 (929)
..+-+++..+.+ .-|+..| +.=|.|+..+--+.--..||..--|.+++.|+++ |- .++.+ -+
T Consensus 701 ~k~i~~~~kv~s-~~~~~s~----vve~~C~i~~~~v~~~~~sF~~p~l~~l~~Fi~r-~~-----~~~~a-------~t 762 (982)
T KOG2022|consen 701 QKAIPVFEKVLS-MWLGLSD----VVEASCIIMVKGVRSLLTSFPEPMLPSLCPFIVR-FL-----TSCLA-------VT 762 (982)
T ss_pred HHHHHHHHHHHH-HHhcchh----HHHHHHHHHHhccccccccchhhhHHHHHHHHHH-hc-----cchHH-------HH
Confidence 344556666555 3344433 3668898888887766688989999999999999 53 22221 22
Q ss_pred hhhhceeeeeccC--CchHHHHHHH----HHHHHHhh----cCCchhHHHHHHHHHHHHhcccCCCc----HHHHHHHHH
Q 002385 135 VAKVRSCLLMLDL--ECDKLVVEMF----QHFLKVIR----SNHPHFVFAAMETIMTLVIDESEDVS----WDLLRILLA 200 (929)
Q Consensus 135 LAeVKS~VLMlDL--e~ddLI~eLF----ktFF~iVr----~~hp~kV~~~M~dIMs~VIEESE~VP----~eLLDvIL~ 200 (929)
+.-.+-|++|.-- .|-+|+...| +..|-+.. .++|..+...|. .++.+|.--..++ ...-..||.
T Consensus 763 l~l~~~~l~~~~~~~~~~~lv~~~~~~~~q~sl~lf~~~~f~n~~Di~~~~~~-~v~~ilkk~P~~~~~~~~~~ts~i~~ 841 (982)
T KOG2022|consen 763 LSLIAACLLAKSTVEQCKPLVGQDMANAFQQSLLLFEQHPFSNQPDIYLQLIG-FVRQILKKIPKFLEPSMLAFTSLILI 841 (982)
T ss_pred HHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHHhccCCCCCchHHHHHHH-HHHHHHHhCcCccccchHHHHHHHHH
Confidence 2223334444333 2545544444 44333333 255666666665 5666666544332 223344553
Q ss_pred H----hhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCCC-----------------CchhHHHHHHHhccC
Q 002385 201 S----VRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGIA-----------------LDDYAEIVACICGSD 257 (929)
Q Consensus 201 ~----Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi~-----------------ld~Y~eIV~sI~q~~ 257 (929)
+ +..+.+.+..+|.++-..++..|....=-.+.++++.-|-. +|-|++|+..++..-
T Consensus 842 ~a~~ll~~pE~~~i~aa~qF~t~~~~~~~s~~~~tv~~~V~~~G~~Li~~im~~vgg~~~RS~ld~~aDIL~al~~k~ 919 (982)
T KOG2022|consen 842 CAFILLNSPEPTTIRAASQFLTALATYATSHDLVTVTSVVAEIGPILIYAIMRGVGGEASRSTLDALADILLALNAKF 919 (982)
T ss_pred HHHHhcCCCccHHHHHHHHHHHHHHhhcccchhHHHHHHHHhcchHHHHHHHHHhcCcCccchhHHHHHHHHHHHHhh
Confidence 3 22344555566666555677777775555555556543321 588999988876543
No 63
>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]
Probab=39.22 E-value=2.3e+02 Score=36.22 Aligned_cols=51 Identities=16% Similarity=0.199 Sum_probs=29.6
Q ss_pred HHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCCCCchh
Q 002385 195 LRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGIALDDY 246 (929)
Q Consensus 195 LDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi~ld~Y 246 (929)
++..++.|+.+|....-.=....+.| ++....-...|.+.|-.+|+.-|.|
T Consensus 292 ik~~l~FL~~~N~tD~~iL~~iK~s~-r~sv~H~A~~iAN~fMh~GTT~D~F 342 (929)
T KOG2062|consen 292 IKLYLQFLLRHNNTDLLILEEIKESV-RNSVCHTATLIANAFMHAGTTSDTF 342 (929)
T ss_pred HHHHHHHHHHcCCchHHHHHHHHHHH-HHhhhhHHHHHHHHHHhcCCcchHH
Confidence 45666778877766553333333333 4444444555666666778886654
No 64
>PF02565 RecO_C: Recombination protein O C terminal; InterPro: IPR003717 The damage avoidance-tolerance pathway(s) requires functional recA, recF, recO, and recR genes, suggesting the mechanism to be daughter strand gap repair. The ruvABC genes or the recG gene is also required. The RecG pathway appears to be more active than the RuvABC pathway []. RecO may contain a mononucleotide-binding fold [].; GO: 0006281 DNA repair, 0006310 DNA recombination; PDB: 3Q8D_B 1W3S_B 2V1C_C 1U5K_B.
Probab=38.31 E-value=73 Score=28.95 Aligned_cols=59 Identities=20% Similarity=0.306 Sum_probs=40.3
Q ss_pred eehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHH-HHHHHhhhhc
Q 002385 77 VRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKAL-SILDTVAKVR 139 (929)
Q Consensus 77 VRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~-yLLEtLAeVK 139 (929)
.+.++|+.++|++.-+.|+.- .-..+|.++...|..|....++...-.+ ++|.-+...-
T Consensus 5 ~~~~~a~~~~El~~~~~~~~~----~~~~lf~ll~~~L~~L~~~~~~~~~~~~~f~l~ll~~~G 64 (118)
T PF02565_consen 5 ERLAYASYIAELLDRLLPEGE----PNPELFDLLLAALDALEEGEDPWLLLLIQFELKLLKLLG 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHS-CTS------HHHHHHHHHHHHHHHCSSSHCHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHHHHcccCC----ChHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHcC
Confidence 577889999999988765531 2256999999999999877655444444 5666555544
No 65
>KOG1949 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.37 E-value=2.3e+02 Score=36.05 Aligned_cols=152 Identities=18% Similarity=0.245 Sum_probs=85.6
Q ss_pred hhhhhhh---ccCCCcCeehhhhHHHHHHhhhcCCCCCCC--hhHHHHHHHHHHHHhc------------ccCCCCCcc-
Q 002385 63 GLITNDL---LRRSDMDVRLSVTSCISEITRITAPDSPYD--DELMKEFFQLAVSAFE------------NLSHASGRY- 124 (929)
Q Consensus 63 ~LVs~~L---LkHKDkdVRlyVAcCLADILRIyAPDAPYt--DdqLKDIFqLfV~qf~------------~LaD~sSP~- 124 (929)
-|.++.| |+-.|..||.-+|.-+.|.+=|--||+--. |..|..=|.++-+.|+ |+.-.-+-|
T Consensus 173 rL~~p~l~R~L~a~Ns~VrsnAa~lf~~~fP~~dpd~~~e~mD~i~~kQf~~l~~LL~d~~p~VRS~a~~gv~k~~s~fW 252 (1005)
T KOG1949|consen 173 RLYKPILWRGLKARNSEVRSNAALLFVEAFPIRDPDLHAEEMDSIIQKQFEELYSLLEDPYPMVRSTAILGVCKITSKFW 252 (1005)
T ss_pred HHHhHHHHHhhccCchhhhhhHHHHHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHH
Confidence 3444555 566899999999999999999999998333 2333333333333222 000000000
Q ss_pred --------hHHHHHHHHH----------hhhhceeeeeccCC-chHHHHHHHHHHHHHhhc---CCchhHHHHHHHHHHH
Q 002385 125 --------YMKALSILDT----------VAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIRS---NHPHFVFAAMETIMTL 182 (929)
Q Consensus 125 --------F~qy~yLLEt----------LAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr~---~hp~kV~~~M~dIMs~ 182 (929)
-.--.||... ++.++.+..|+|.+ |..++. .++-.++. +.++.|+.+|.+|+..
T Consensus 253 e~iP~~i~~~ll~kI~d~~a~dt~s~VR~svf~gl~~~l~np~sh~~le----~~Lpal~~~l~D~se~VRvA~vd~ll~ 328 (1005)
T KOG1949|consen 253 EMIPPTILIDLLKKITDELAFDTSSDVRCSVFKGLPMILDNPLSHPLLE----QLLPALRYSLHDNSEKVRVAFVDMLLK 328 (1005)
T ss_pred HHcCHHHHHHHHHHHHHHhhhccchheehhHhcCcHHHHcCccchhHHH----HHHHhcchhhhccchhHHHHHHHHHHH
Confidence 0111233332 23445555677776 655544 44444443 5678899999998876
Q ss_pred Hhcc-----cCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhc
Q 002385 183 VIDE-----SEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKC 224 (929)
Q Consensus 183 VIEE-----SE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~C 224 (929)
|=+- -.-+|. |.||..|-. +..|.++.++.-|+..|
T Consensus 329 ik~vra~~f~~I~~~---d~~l~~L~~---d~~~v~rr~~~li~~s~ 369 (1005)
T KOG1949|consen 329 IKAVRAAKFWKICPM---DHILVRLET---DSRPVSRRLVSLIFNSF 369 (1005)
T ss_pred HHhhhhhhhhccccH---HHHHHHHhc---cccHHHHHHHHHHHHhh
Confidence 5432 223443 556666533 44567777776666554
No 66
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=36.52 E-value=76 Score=28.15 Aligned_cols=64 Identities=17% Similarity=0.124 Sum_probs=40.4
Q ss_pred hccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHH-HHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhh
Q 002385 69 LLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMK-EFFQLAVSAFENLSHASGRYYMKALSILDTVAKV 138 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLK-DIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeV 138 (929)
+|.+.+..+|..++.||..|..-. +++....+. +++..++..|. +.+.........+|.+|+..
T Consensus 15 ~l~~~~~~~~~~a~~~l~~l~~~~---~~~~~~~~~~~~i~~l~~~l~---~~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 15 LLSSSDENVQREAAWALSNLSAGN---NDNIQAVVEAGGLPALVQLLK---SEDEEVVKAALWALRNLAAG 79 (120)
T ss_pred HHHcCCHHHHHHHHHHHHHHhcCC---HHHHHHHHHCCChHHHHHHHh---CCCHHHHHHHHHHHHHHccC
Confidence 667778899999999999887653 222233333 56666666554 34444555567777777644
No 67
>PF08568 Kinetochor_Ybp2: Uncharacterised protein family, YAP/Alf4/glomulin; InterPro: IPR013877 This is a family of proteins integrally involved in the central kinetochore. In baker's yeast the protein seems to be part of a macromolecular kinetochore complex and appears to contribute to the proper associations among the central kinetochore sub-complexes and the kinetochore-specific nucleosome. The family is localised in such a way as to bridge the COMA and Ndc80 complexes onto the centromeric nucleosome []. This family also includes aberrant root formation protein 4 and glomulin. Aberrant root formation protein 4 (Alf4) of Arabidopsis thaliana (Mouse-ear cress) is required for the initiation of lateral roots independent from auxin signalling. It may also function in maintaining the pericycle in the mitotically competent state needed for lateral root formation []. Glomulin (FAP68) is essential for normal development of the vasculature and may represent a naturally occurring ligand of the immunophilins FKBP59 and FKBP12 [, ].
Probab=35.91 E-value=3.9e+02 Score=32.73 Aligned_cols=125 Identities=18% Similarity=0.273 Sum_probs=66.5
Q ss_pred CCHHHHHHHHHHHHHHHHhcccCCchhh-HHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHH
Q 002385 26 SPVDEVINLLDKVEHLLANVEQAPSRSM-RDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMK 104 (929)
Q Consensus 26 iS~dELLKRLkkL~~eLs~vDQ~pvdS~-~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLK 104 (929)
.+.++--..|..|.+.|.+ .|.-+..+ ++-..++...+....+ ..+.-.+--||-+|-|..-| |
T Consensus 36 ~~~~~~~~~l~~L~~~L~~-n~~l~~~igWDL~~~l~~~~~~~~~-----~~~~~~~~~~l~~la~~gnP---------k 100 (633)
T PF08568_consen 36 YSNEEKEEFLPELLEILQD-NQELTYEIGWDLPKLLLPFLPSSEI-----SPCVDCCMKCLEELARLGNP---------K 100 (633)
T ss_pred cchhhHHHHHHHHHHHHhh-CHHHHHHccccCHHHHHHHhhhhhc-----chHHHHHHHHHHHHHHhCCH---------H
Confidence 3344445556666666642 22212111 2222333333332222 34555666677777777655 6
Q ss_pred HHHHHHHHHhcccCCCC---------------CcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCc
Q 002385 105 EFFQLAVSAFENLSHAS---------------GRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHP 169 (929)
Q Consensus 105 DIFqLfV~qf~~LaD~s---------------SP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp 169 (929)
++|--+..+|..|...+ ...|.-.|| ++.+|.++.+.-+...+|
T Consensus 101 E~~l~~~E~l~~l~~ed~~~~~~~~~~~~~~~~~~~~~kf~---------------------~Ll~~l~~~l~ri~t~~p 159 (633)
T PF08568_consen 101 ELLLKVCELLEELSPEDEDDEEDDESIERNQIEEPFDLKFY---------------------CLLELLQIVLKRIQTKYP 159 (633)
T ss_pred HHHHHHHHHHHhcccccccccccccccccccchhhhHHHHH---------------------HHHHHHHHHHHHhcccch
Confidence 67776777776665310 111111111 267777888887788888
Q ss_pred hh-HHHHHHHHHHHHhcc
Q 002385 170 HF-VFAAMETIMTLVIDE 186 (929)
Q Consensus 170 ~k-V~~~M~dIMs~VIEE 186 (929)
.. |..++..|+..+=.-
T Consensus 160 s~Fl~~~l~~i~~~~~~~ 177 (633)
T PF08568_consen 160 SRFLAMALSAILNFLKNN 177 (633)
T ss_pred hHHHHHHHHHHHHHHHhc
Confidence 87 777777777665443
No 68
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=34.06 E-value=4.6e+02 Score=31.28 Aligned_cols=114 Identities=15% Similarity=0.209 Sum_probs=62.7
Q ss_pred hccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceee--e---
Q 002385 69 LLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCL--L--- 143 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~V--L--- 143 (929)
.|.|.+..||.+++-.|..+.|- ++.-..--.=.+||.+++..+ .+++...-.....+|..|+...... |
T Consensus 85 gL~h~~~~Vr~l~l~~l~~~~~~--~~~~~~~~~~~~l~~~i~~~L---~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~ 159 (503)
T PF10508_consen 85 GLTHPSPKVRRLALKQLGRIARH--SEGAAQLLVDNELLPLIIQCL---RDPDLSVAKAAIKALKKLASHPEGLEQLFDS 159 (503)
T ss_pred HhcCCCHHHHHHHHHHHHHHhcC--CHHHHHHhcCccHHHHHHHHH---cCCcHHHHHHHHHHHHHHhCCchhHHHHhCc
Confidence 57799999999877775555532 111000001134555655554 6787778888888898888764332 1
Q ss_pred --eccCC-----ch-HHHHHHHHHHHHHhhcCCchhHHHHHHH--HHHHHhcccCC
Q 002385 144 --MLDLE-----CD-KLVVEMFQHFLKVIRSNHPHFVFAAMET--IMTLVIDESED 189 (929)
Q Consensus 144 --MlDLe-----~d-dLI~eLFktFF~iVr~~hp~kV~~~M~d--IMs~VIEESE~ 189 (929)
+..|. ++ .+-..++..+-.+. .++......+.. ++..++.|.+.
T Consensus 160 ~~~~~L~~l~~~~~~~vR~Rv~el~v~i~--~~S~~~~~~~~~sgll~~ll~eL~~ 213 (503)
T PF10508_consen 160 NLLSKLKSLMSQSSDIVRCRVYELLVEIA--SHSPEAAEAVVNSGLLDLLLKELDS 213 (503)
T ss_pred chHHHHHHHHhccCHHHHHHHHHHHHHHH--hcCHHHHHHHHhccHHHHHHHHhcC
Confidence 11111 12 23333333333332 355555555554 77777776655
No 69
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.72 E-value=3.4e+02 Score=34.83 Aligned_cols=165 Identities=17% Similarity=0.211 Sum_probs=89.5
Q ss_pred HHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhh
Q 002385 58 LPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAK 137 (929)
Q Consensus 58 ~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAe 137 (929)
..+++.|+. ||...|.++|.-+|.=|+++.-=|||+-=|--++|-.||..-=+-. .+.--..+|.-||+
T Consensus 384 ~~mv~eLl~--fL~~~d~~~k~~~as~I~~laEkfaP~k~W~idtml~Vl~~aG~~V---------~~dv~~nll~LIa~ 452 (866)
T KOG1062|consen 384 RVMVKELLE--FLESSDEDFKADIASKIAELAEKFAPDKRWHIDTMLKVLKTAGDFV---------NDDVVNNLLRLIAN 452 (866)
T ss_pred HHHHHHHHH--HHHhccHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHhccccc---------chhhHHHHHHHHhc
Confidence 445556653 8999999999999999999999999998887777777775420000 00011112222211
Q ss_pred hceeeeeccCCchHHHHHHHHHHHHHhhcCCc-hhHHHHHHHHHHHHhcccC-------------CC-cHHHHHHHHHHh
Q 002385 138 VRSCLLMLDLECDKLVVEMFQHFLKVIRSNHP-HFVFAAMETIMTLVIDESE-------------DV-SWDLLRILLASV 202 (929)
Q Consensus 138 VKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp-~kV~~~M~dIMs~VIEESE-------------~V-P~eLLDvIL~~L 202 (929)
- .+.+.+.-+..| |..+..+.. .-=...+..+++-+|.|.. .+ +.++++.|..-+
T Consensus 453 ~------~~e~~~y~~~rL----y~a~~~~~~~~is~e~l~qVa~W~IGEYGdlll~~~~~~~p~~vtesdivd~l~~v~ 522 (866)
T KOG1062|consen 453 A------FQELHEYAVLRL----YLALSEDTLLDISQEPLLQVASWCIGEYGDLLLDGANEEEPIKVTESDIVDKLEKVL 522 (866)
T ss_pred C------CcchhhHHHHHH----HHHHhhhhhhhhhhhhHHHHHHHHhhhhhHHhhcCccccCCCcCCHHHHHHHHHHHH
Confidence 1 011111122222 222221110 0001123566777777766 22 256777776666
Q ss_pred hccCCCCChhhHHHHHHH-----HhhchHHHHHHHHHHHHhcCCCC
Q 002385 203 RKENQDVSPTSWKLGEKV-----FTKCAAKLKTNLKEAVQSRGIAL 243 (929)
Q Consensus 203 l~~~ks~~PaAy~LA~~V-----I~~CadKL~p~I~q~fnS~Gi~l 243 (929)
..+..+..--+|.|+.-. +..|..+++..|..|-.+..+.+
T Consensus 523 ~~~~s~~~tk~yal~Al~KLSsr~~s~~~ri~~lI~~~~~s~~~el 568 (866)
T KOG1062|consen 523 MSHSSDSTTKGYALTALLKLSSRFHSSSERIKQLISSYKSSLDTEL 568 (866)
T ss_pred HhccchHHHHHHHHHHHHHHHhhccccHHHHHHHHHHhcccccHHH
Confidence 655555444555554321 23457777877877766655554
No 70
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=33.54 E-value=8.1e+02 Score=28.35 Aligned_cols=229 Identities=13% Similarity=0.109 Sum_probs=0.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCCh
Q 002385 21 LLNPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDD 100 (929)
Q Consensus 21 LisppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtD 100 (929)
+...|.+..+-..+.+..-+.|..+-..+.- ...+.+-....+..-+=...+.+.-..+..||..++.-..-+.++.+
T Consensus 5 l~~Lpd~~~~~~~~~~~~L~~l~~ls~~~~i--~~~~~~~ll~kl~~~~~~~~~~~~~~~il~tl~~~~~~~~~~~~~~~ 82 (415)
T PF12460_consen 5 LALLPDSDSSTDSNYERILEALAALSTSPQI--LETLSIRLLNKLSIVCQSESSSDYCHAILSTLQSLLEKKQEDKQFED 82 (415)
T ss_pred HhhCCCCCCcchhHHHHHHHHHHHHHCChhH--HHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHhcccccccch
Q ss_pred -hHHHH--HHHHHHHHhcccCCCCCcchHHHHHHHHHhhhh-ceeeeeccCC-chHHHHHHHHHHH----------HHhh
Q 002385 101 -ELMKE--FFQLAVSAFENLSHASGRYYMKALSILDTVAKV-RSCLLMLDLE-CDKLVVEMFQHFL----------KVIR 165 (929)
Q Consensus 101 -dqLKD--IFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeV-KS~VLMlDLe-~ddLI~eLFktFF----------~iVr 165 (929)
....+ |...|++.+-...+.+.. ....+|+.++.+ +.++..++.+ .+.++.++|..|+ ....
T Consensus 83 ~~~y~~~~lv~~l~~~~~~~~~~~~~---~~~~~L~~~~~l~~~iv~~l~~~~q~~~~~~~~~lf~~~~~~~~~~~~~~~ 159 (415)
T PF12460_consen 83 NSWYFHRILVPRLFELALQASDQSSD---LDDRVLELLSRLINLIVRSLSPEKQQEILDELYSLFLSPKSFSPFQPSSST 159 (415)
T ss_pred HHHHHHhHHHHHHHHHHHhhcccccc---cchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHccccccCCCCccccc
Q ss_pred cC-CchhHHHHHHHHHHHHhcccC-CCcHHHHHHHHHHhhccC-CCCChhhHHHHHHHHhh--chHHHHHHHHHHHHhc-
Q 002385 166 SN-HPHFVFAAMETIMTLVIDESE-DVSWDLLRILLASVRKEN-QDVSPTSWKLGEKVFTK--CAAKLKTNLKEAVQSR- 239 (929)
Q Consensus 166 ~~-hp~kV~~~M~dIMs~VIEESE-~VP~eLLDvIL~~Ll~~~-ks~~PaAy~LA~~VI~~--CadKL~p~I~q~fnS~- 239 (929)
.. .+......+..|+..+=-+.. .-..++++-++.-..... ......+.++..-++++ ..+.+..++..+++..
T Consensus 160 ~~~~~~~~~~l~~~il~~l~~~~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK~~~~~~l~~~l~~~~~~~~ 239 (415)
T PF12460_consen 160 ISEQQSRLVILFSAILCSLRKDVSLPDLEELLQSLLNLALSSEDEFSRLAALQLLASLVNKWPDDDDLDEFLDSLLQSIS 239 (415)
T ss_pred cccccccHHHHHHHHHHcCCcccCccCHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCChhhHHHHHHHHHhhhc
Q ss_pred -CCCCchhHHHHHHHh
Q 002385 240 -GIALDDYAEIVACIC 254 (929)
Q Consensus 240 -Gi~ld~Y~eIV~sI~ 254 (929)
..........+..++
T Consensus 240 ~~~~~~~~~~~~~~~~ 255 (415)
T PF12460_consen 240 SSEDSELRPQALEILI 255 (415)
T ss_pred ccCCcchhHHHHHHHH
No 71
>cd04405 RhoGAP_BRCC3-like RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain and an N-terminal DEP (Disheveled, Egl-10, and Pleckstrin) domain. The function(s) of BRCC3 and DEPDC7 are unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=32.44 E-value=1.9e+02 Score=32.06 Aligned_cols=108 Identities=14% Similarity=0.239 Sum_probs=73.3
Q ss_pred HHHHHHHHHHHHhcccCCC--CCcchHHHHHHHHHhh---------hhceeeeeccCCchHHHHHHHHHHHHHhhcCC--
Q 002385 102 LMKEFFQLAVSAFENLSHA--SGRYYMKALSILDTVA---------KVRSCLLMLDLECDKLVVEMFQHFLKVIRSNH-- 168 (929)
Q Consensus 102 qLKDIFqLfV~qf~~LaD~--sSP~F~qy~yLLEtLA---------eVKS~VLMlDLe~ddLI~eLFktFF~iVr~~h-- 168 (929)
-=++||..+.+-|..|.+| .+.+|.-+..|++-+- .++.|++++.=+.-+++..|..-+..++..+.
T Consensus 104 ~e~dv~~ti~qyf~~LpEPLLT~~l~~~~~~I~~ll~~~~~e~aleAlQl~~lLLP~enRe~Lq~LL~fl~~va~~~~~~ 183 (235)
T cd04405 104 FKRLLFKTIAKYYGQLKEPLLTFHLFDIFVGILELLGNGKEEVALEALQLCLLLLPPASRRELRRLLRFMARAAKNDMPR 183 (235)
T ss_pred hHHHHHHHHHHHHhcCCCccCcchHHHHHHHHHHHhcCccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCccc
Confidence 3457888888888888774 5667777777777544 56777777666666777777776666655542
Q ss_pred -ch--hHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCC
Q 002385 169 -PH--FVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDV 209 (929)
Q Consensus 169 -p~--kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~ 209 (929)
.. .-...|..+.+..|--+..++....+.|+..++.+.+..
T Consensus 184 L~~~~~nR~~v~~~Fs~~ii~~~~l~~~~~~~LV~Fmmd~~~~i 227 (235)
T cd04405 184 LHKEIENRMLVKQTFSRAILCSKDLDEGLADLLVLFLMDHHQDI 227 (235)
T ss_pred cccccchHHHHHHHhhhHhcCccccCHHHHHHHHHHHHHcchhh
Confidence 12 223466677777777777888888888888888776543
No 72
>KOG0211 consensus Protein phosphatase 2A regulatory subunit A and related proteins [Signal transduction mechanisms]
Probab=32.28 E-value=8.2e+02 Score=31.43 Aligned_cols=145 Identities=10% Similarity=0.105 Sum_probs=91.2
Q ss_pred HHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhce
Q 002385 61 MKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRS 140 (929)
Q Consensus 61 ~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS 140 (929)
+..|.... |.+..-.||-.+|-|+..+.+.|-. .| .....|++++...... .|..|+.+|-+|+.+
T Consensus 519 ~~~l~~~~-l~d~v~~Ir~~aa~~l~~l~~~~G~--~w--~~~~~i~k~L~~~~q~-------~y~~R~t~l~si~~l-- 584 (759)
T KOG0211|consen 519 LAELLRTW-LPDHVYSIREAAARNLPALVETFGS--EW--ARLEEIPKLLAMDLQD-------NYLVRMTTLFSIHEL-- 584 (759)
T ss_pred HHHHHHhh-hhhhHHHHHHHHHHHhHHHHHHhCc--ch--hHHHhhHHHHHHhcCc-------ccchhhHHHHHHHHH--
Confidence 33344433 4455566999999999999999873 22 3566777777765543 788888888888822
Q ss_pred eeeeccCCchHHHHHHHHHHHHHhhcCCchhHH----HHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHH
Q 002385 141 CLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVF----AAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKL 216 (929)
Q Consensus 141 ~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~----~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~L 216 (929)
..+=..++..+.|=.+|.-...+.-.+|. .++..|+..++. .+-.+.|-.++..|...+.-.-+.+..+
T Consensus 585 ----a~v~g~ei~~~~Llp~~~~l~~D~vanVR~nvak~L~~i~~~L~~---~~~~~~v~pll~~L~~d~~~dvr~~a~~ 657 (759)
T KOG0211|consen 585 ----AEVLGQEITCEDLLPVFLDLVKDPVANVRINVAKHLPKILKLLDE---SVRDEEVLPLLETLSSDQELDVRYRAIL 657 (759)
T ss_pred ----HHHhccHHHHHHHhHHHHHhccCCchhhhhhHHHHHHHHHhhcch---HHHHHHHHHHHHHhccCcccchhHHHHH
Confidence 22224566666666666544545444544 455566655544 3445566777777777555556666667
Q ss_pred HHHHHhhchH
Q 002385 217 GEKVFTKCAA 226 (929)
Q Consensus 217 A~~VI~~Cad 226 (929)
|..+|..|.-
T Consensus 658 a~~~i~l~~~ 667 (759)
T KOG0211|consen 658 AFGSIELSRL 667 (759)
T ss_pred HHHHHHHHHH
Confidence 7766665543
No 73
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=31.71 E-value=3.6e+02 Score=32.77 Aligned_cols=106 Identities=15% Similarity=0.186 Sum_probs=60.3
Q ss_pred HHHHHHhhhcCCCCCCChh-----HHHHHHHHHHHHhccc-CCCCCcchHHHHHHHHHhhhhceeeeeccCC-chHHHHH
Q 002385 83 SCISEITRITAPDSPYDDE-----LMKEFFQLAVSAFENL-SHASGRYYMKALSILDTVAKVRSCLLMLDLE-CDKLVVE 155 (929)
Q Consensus 83 cCLADILRIyAPDAPYtDd-----qLKDIFqLfV~qf~~L-aD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe-~ddLI~e 155 (929)
+|+.-+|..+.+ .|+.. +...+|..++..|... =.+-...|.|++ +=-++.. +-+ ++.++..
T Consensus 282 ~im~~lf~~l~~--~~~~~~~~~~~~~~lf~~Ll~~F~~~ILpT~~sr~vQFl--~Fy~~s~-------~~~~~~~Fl~~ 350 (563)
T PF05327_consen 282 SIMDLLFEYLDS--CFTNGSLDEGNADSLFNTLLSIFESHILPTHKSRHVQFL--LFYFCSL-------DPELADAFLSF 350 (563)
T ss_dssp HHHHHHHHHHHH--HS-HHHHHSSTHHHHHHHHHHHHHHTCCCC-S-SSTTHH--HHHHHTT-------SHHHHHHHHHH
T ss_pred HHHHHHHHHHHH--hccCCccchhHHHHHHHHHHHHHHHHccCCCccchHHHH--HHHHHHc-------CchHHHHHHHH
Confidence 455555655544 44543 3666999999998843 334444566652 2222221 222 5666777
Q ss_pred HHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHh
Q 002385 156 MFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASV 202 (929)
Q Consensus 156 LFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~L 202 (929)
|++.+| +++.|..++..-..=|...|--+-.||..++..+|..|
T Consensus 351 L~~~~~---~~~~~~~~R~~A~~YlaSflaRAk~v~~~~v~~~l~~L 394 (563)
T PF05327_consen 351 LWKIAF---DPNQPPVTRQAAAAYLASFLARAKFVPLSTVRSVLSYL 394 (563)
T ss_dssp HHHHHH----SSS-HHHHHHHHHHHHHHHHHBTT--HHHHHHHHHHH
T ss_pred HHHHHh---CCCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 777766 35667777777777778888887778777665555544
No 74
>PF04118 Dopey_N: Dopey, N-terminal; InterPro: IPR007249 DopA is the founding member of the Dopey family and is required for correct cell morphology and spatiotemporal organisation of multicellular structures in the filamentous fungus Emericella nidulans (Aspergillus nidulans). DopA homologues are found in mammals. Saccharomyces cerevisiae DOP1 is essential for viability and, affects cellular morphogenesis [].
Probab=30.68 E-value=2.7e+02 Score=31.65 Aligned_cols=41 Identities=17% Similarity=0.457 Sum_probs=32.0
Q ss_pred CCChhHHHHHHH-HHHHHhcccCCCCCcchHHHHHHHHHhhhh
Q 002385 97 PYDDELMKEFFQ-LAVSAFENLSHASGRYYMKALSILDTVAKV 138 (929)
Q Consensus 97 PYtDdqLKDIFq-LfV~qf~~LaD~sSP~F~qy~yLLEtLAeV 138 (929)
|-.. .|+-++. ||+.-|+||.|.++.+|.+-+.||+.|...
T Consensus 127 pL~~-~L~p~l~~li~slLpGLede~sE~~~~~~~ll~~l~~~ 168 (307)
T PF04118_consen 127 PLGP-ALRPCLKGLILSLLPGLEDEGSEFFDRTLKLLDKLKEA 168 (307)
T ss_pred CccH-HHHHHHHHHHHHhccccccCCchHHHHHHHHHHHHHHh
Confidence 4445 5666555 555569999999999999999999999754
No 75
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=30.36 E-value=2.2e+02 Score=36.16 Aligned_cols=24 Identities=21% Similarity=0.358 Sum_probs=22.5
Q ss_pred hhccCCCcCeehhhhHHHHHHhhh
Q 002385 68 DLLRRSDMDVRLSVTSCISEITRI 91 (929)
Q Consensus 68 ~LLkHKDkdVRlyVAcCLADILRI 91 (929)
.+|.|.+.-||-.+|.||..|+|+
T Consensus 134 ~~l~d~~ayVRk~Aalav~kly~l 157 (757)
T COG5096 134 KLLTDPHAYVRKTAALAVAKLYRL 157 (757)
T ss_pred HHccCCcHHHHHHHHHHHHHHHhc
Confidence 478999999999999999999988
No 76
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.92 E-value=6.8e+02 Score=32.20 Aligned_cols=170 Identities=23% Similarity=0.345 Sum_probs=99.8
Q ss_pred hHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCC--CCCChhHHHHHHHH------------HHHHhcccC
Q 002385 53 MRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPD--SPYDDELMKEFFQL------------AVSAFENLS 118 (929)
Q Consensus 53 ~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPD--APYtDdqLKDIFqL------------fV~qf~~La 118 (929)
.++||+|.+.-|+.+ |...|++|.-.+..-|||+-|=- |- .|+.. ..|+| +|..|..|.
T Consensus 175 YPeAlr~~FprL~Ek--LeDpDp~V~SAAV~VICELArKn-PknyL~LAP----~ffkllttSsNNWmLIKiiKLF~aLt 247 (877)
T KOG1059|consen 175 YPEALRPCFPRLVEK--LEDPDPSVVSAAVSVICELARKN-PQNYLQLAP----LFYKLLVTSSNNWVLIKLLKLFAALT 247 (877)
T ss_pred hhHhHhhhHHHHHHh--ccCCCchHHHHHHHHHHHHHhhC-CcccccccH----HHHHHHhccCCCeehHHHHHHHhhcc
Confidence 367899999998865 89999999999999999998852 22 22221 22332 244455555
Q ss_pred CCCCcchH-------------HHHHH-HHHhhhhceeeeeccC-Cc---hHHHHHHHHHH---------------HHHhh
Q 002385 119 HASGRYYM-------------KALSI-LDTVAKVRSCLLMLDL-EC---DKLVVEMFQHF---------------LKVIR 165 (929)
Q Consensus 119 D~sSP~F~-------------qy~yL-LEtLAeVKS~VLMlDL-e~---ddLI~eLFktF---------------F~iVr 165 (929)
-.+=..=. -..+| -|.+.+|=+..+..-+ ++ -.|-.+=.++| |..|-
T Consensus 248 plEPRLgKKLieplt~li~sT~AmSLlYECvNTVVa~s~s~g~~d~~asiqLCvqKLr~fiedsDqNLKYlgLlam~KI~ 327 (877)
T KOG1059|consen 248 PLEPRLGKKLIEPITELMESTVAMSLLYECVNTVVAVSMSSGMSDHSASIQLCVQKLRIFIEDSDQNLKYLGLLAMSKIL 327 (877)
T ss_pred ccCchhhhhhhhHHHHHHHhhHHHHHHHHHHHHheeehhccCCCCcHHHHHHHHHHHhhhhhcCCccHHHHHHHHHHHHh
Confidence 32211100 01222 2344444333333333 12 23333333333 33444
Q ss_pred cCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHH----------------HHhhccCCCCChhhH--HHHHHHHhhchHH
Q 002385 166 SNHPHFVFAAMETIMTLVIDESEDVSWDLLRILL----------------ASVRKENQDVSPTSW--KLGEKVFTKCAAK 227 (929)
Q Consensus 166 ~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL----------------~~Ll~~~ks~~PaAy--~LA~~VI~~CadK 227 (929)
..||.-|..+-.-|+..+-+.-++|--.-||++. .++.... +..| .|+-.||.-|+..
T Consensus 328 ktHp~~Vqa~kdlIlrcL~DkD~SIRlrALdLl~gmVskkNl~eIVk~LM~~~~~ae----~t~yrdell~~II~iCS~s 403 (877)
T KOG1059|consen 328 KTHPKAVQAHKDLILRCLDDKDESIRLRALDLLYGMVSKKNLMEIVKTLMKHVEKAE----GTNYRDELLTRIISICSQS 403 (877)
T ss_pred hhCHHHHHHhHHHHHHHhccCCchhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcc----chhHHHHHHHHHHHHhhhh
Confidence 6899999999999998888888888776666554 3333322 2344 4888999999876
Q ss_pred HHHHHH
Q 002385 228 LKTNLK 233 (929)
Q Consensus 228 L~p~I~ 233 (929)
=-.||.
T Consensus 404 nY~~It 409 (877)
T KOG1059|consen 404 NYQYIT 409 (877)
T ss_pred hhhhhh
Confidence 433433
No 77
>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.
Probab=29.81 E-value=2.5e+02 Score=30.43 Aligned_cols=101 Identities=10% Similarity=0.064 Sum_probs=63.4
Q ss_pred HHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhH-------HHHHHHHHHHHhcccCCCCCcchH
Q 002385 54 RDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDEL-------MKEFFQLAVSAFENLSHASGRYYM 126 (929)
Q Consensus 54 ~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdq-------LKDIFqLfV~qf~~LaD~sSP~F~ 126 (929)
-...+.++.+|+...+=.+....-.+++++||+=|--==.+|.-|+.+. --.||..|-+-+... .
T Consensus 32 Fr~~rdi~e~ll~~~~~~~a~~~k~l~i~QfLsRI~eG~~LD~~Fd~~~~~TPLESAl~v~~~I~~E~~~~--------~ 103 (200)
T cd00280 32 FRRTRDIAEALLVGPLKLTATQLKTLRIMQFLSRIAEGKNLDCQFENDEELTPLESALMVLESIEKEFSLP--------E 103 (200)
T ss_pred HHHHHHHHHHHHhccccccccchhHhHHHHHHHHHHcCCCCCCccCCCCCcChHHHHHHHHHHHHHhcCCc--------H
Confidence 4556788888888777667777788999999987766667888888532 234555544443311 1
Q ss_pred HHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHH
Q 002385 127 KALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLK 162 (929)
Q Consensus 127 qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~ 162 (929)
.-+-..+.|-.+..+++|..-.-.++-.++|+.+|+
T Consensus 104 ~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~ 139 (200)
T cd00280 104 TLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFS 139 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhc
Confidence 123344444555555555555555666667777775
No 78
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=29.28 E-value=1.4e+02 Score=29.35 Aligned_cols=68 Identities=16% Similarity=0.244 Sum_probs=48.1
Q ss_pred hcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHH
Q 002385 165 RSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLK 233 (929)
Q Consensus 165 r~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~ 233 (929)
++..+..=...+..|.- +|...+.-|.+.+..|...|...+..+.--|..|...++.+|...+...|+
T Consensus 10 s~~l~~~dw~~~l~icD-~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~ 77 (133)
T smart00288 10 SPSLLEEDWELILEICD-LINSTPDGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVA 77 (133)
T ss_pred CcCCCCcCHHHHHHHHH-HHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence 33444444445555543 455557889999999999998777666667777888888999888765554
No 79
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=28.83 E-value=4.5e+02 Score=36.67 Aligned_cols=129 Identities=15% Similarity=0.203 Sum_probs=69.8
Q ss_pred HHHHHHHHHHHHHhcccCCch-hhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCC--hhHHHHHH
Q 002385 31 VINLLDKVEHLLANVEQAPSR-SMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYD--DELMKEFF 107 (929)
Q Consensus 31 LLKRLkkL~~eLs~vDQ~pvd-S~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYt--DdqLKDIF 107 (929)
+-..|--|+=.+.-++..-.- .....|..+.+.-+...||++.-..+-.....||.=++.|+ . -..||.=+
T Consensus 374 ~rsKllsL~Li~~ile~~g~~f~~~~~fi~~ik~~Lc~sL~~n~~S~~~~vf~lsl~If~~L~------~~~R~~LK~ei 447 (1780)
T PLN03076 374 MRGKILALELLKILLENAGAVFRTSDRFLGAIKQYLCLSLLKNSASSLMIIFQLSCSIFISLV------SRFRAGLKAEI 447 (1780)
T ss_pred HHHHHHHHHHHHHHHhcccHhhhcCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH------HHHHHHHHHHH
Confidence 444444444444444442111 11234444555555566666655555544444444344333 2 14555444
Q ss_pred HHHHHH--hcccCCCCCcchHHHHHHHHHhhhh-ceeeeeccC----C----chHHHHHHHHHHHHHhh
Q 002385 108 QLAVSA--FENLSHASGRYYMKALSILDTVAKV-RSCLLMLDL----E----CDKLVVEMFQHFLKVIR 165 (929)
Q Consensus 108 qLfV~q--f~~LaD~sSP~F~qy~yLLEtLAeV-KS~VLMlDL----e----~ddLI~eLFktFF~iVr 165 (929)
.+|+.. |+-|....++.|.+..++|+.|.++ +---+|+|| | |..|+.+|.+.+..++-
T Consensus 448 evF~~~I~l~ile~~~~~s~~qK~~~L~~L~~lc~dp~~lveiyvNYDCD~~~~NifE~lv~~Lsk~a~ 516 (1780)
T PLN03076 448 GVFFPMIVLRVLENVAQPNFQQKMIVLRFLDKLCVDSQILVDIFINYDCDVNSSNIFERMVNGLLKTAQ 516 (1780)
T ss_pred HHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhCccHHHHHHhccCCCCCCchHHHHHHHHHHHHhc
Confidence 455554 3344445678899999999999887 444455554 3 45777777776666554
No 80
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.71 E-value=3.8e+02 Score=33.97 Aligned_cols=123 Identities=18% Similarity=0.223 Sum_probs=77.9
Q ss_pred hHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHH
Q 002385 101 ELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIM 180 (929)
Q Consensus 101 dqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIM 180 (929)
+++-+|=..-|..|..|+ .++|.|.- .|-+++.+||+.=+..||- +-+..|..|.
T Consensus 384 DEf~EVR~AAV~Sl~~La-~ssP~FA~--------------------~aldfLvDMfNDE~~~VRL----~ai~aL~~Is 438 (823)
T KOG2259|consen 384 DEFYEVRRAAVASLCSLA-TSSPGFAV--------------------RALDFLVDMFNDEIEVVRL----KAIFALTMIS 438 (823)
T ss_pred HHHHHHHHHHHHHHHHHH-cCCCCcHH--------------------HHHHHHHHHhccHHHHHHH----HHHHHHHHHH
Confidence 455555555555555555 44444421 1558899999998888882 2333444433
Q ss_pred HHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHH----HHHHHHHHHHhcCCCCchhHHHHHHHhcc
Q 002385 181 TLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAK----LKTNLKEAVQSRGIALDDYAEIVACICGS 256 (929)
Q Consensus 181 s~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadK----L~p~I~q~fnS~Gi~ld~Y~eIV~sI~q~ 256 (929)
.. -.|..+.|+.||..|.. .++-.+.-+.+++..|-.- +.-.|..+|.+++.-..+-.+|+..++.+
T Consensus 439 ~~-----l~i~eeql~~il~~L~D----~s~dvRe~l~elL~~~~~~d~~~i~m~v~~lL~~L~kyPqDrd~i~~cm~~i 509 (823)
T KOG2259|consen 439 VH-----LAIREEQLRQILESLED----RSVDVREALRELLKNARVSDLECIDMCVAHLLKNLGKYPQDRDEILRCMGRI 509 (823)
T ss_pred HH-----heecHHHHHHHHHHHHh----cCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHhhhCCCCcHHHHHHHHHH
Confidence 33 36777889999999864 4455666666666666533 56667777887776666667777777654
Q ss_pred C
Q 002385 257 D 257 (929)
Q Consensus 257 ~ 257 (929)
.
T Consensus 510 G 510 (823)
T KOG2259|consen 510 G 510 (823)
T ss_pred h
Confidence 3
No 81
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=28.51 E-value=35 Score=40.32 Aligned_cols=116 Identities=22% Similarity=0.291 Sum_probs=66.7
Q ss_pred cCeehhhhHHHHHHhhhcCCCCCCChhHHH------HHHHHHHHHhcccCCCCCcch-HHHHHHHHHhhhhceeeeeccC
Q 002385 75 MDVRLSVTSCISEITRITAPDSPYDDELMK------EFFQLAVSAFENLSHASGRYY-MKALSILDTVAKVRSCLLMLDL 147 (929)
Q Consensus 75 kdVRlyVAcCLADILRIyAPDAPYtDdqLK------DIFqLfV~qf~~LaD~sSP~F-~qy~yLLEtLAeVKS~VLMlDL 147 (929)
.||-+|...|-. |+|+-.+|+ .-|++|+..-+.|.+.=..+| .+|-..|+.|.++|.=++ ||+
T Consensus 269 sdv~iYggLcAL---------Atfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~ll-LD~ 338 (466)
T KOG0686|consen 269 SDVAIYGGLCAL---------ATFDRQDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLL-LDM 338 (466)
T ss_pred hhhHHHHhhHhh---------ccCCHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhcccee-ech
Confidence 577888888853 788977776 568888887776666444443 456778888999985433 444
Q ss_pred CchHHHHHHHHHHHHHhhcC-----CchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhc
Q 002385 148 ECDKLVVEMFQHFLKVIRSN-----HPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRK 204 (929)
Q Consensus 148 e~ddLI~eLFktFF~iVr~~-----hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~ 204 (929)
=-.+=+ .++|+.||.. +..-+-.-|..|-..+=...-.+-.+|+.+|+..-+.
T Consensus 339 yLaphV----d~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~sv~~le~~l~~LI~~~~i~ 396 (466)
T KOG0686|consen 339 YLAPHV----DNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTSVAILESELLELILEGKIS 396 (466)
T ss_pred hcchhH----HHHHHHHHHhhHHHhcCccccchHHHHHHHhcccHHHHHHHHHHHHHccchh
Confidence 211222 4445555532 1222222333333333223334666778888866553
No 82
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=28.05 E-value=1e+03 Score=30.17 Aligned_cols=221 Identities=13% Similarity=0.260 Sum_probs=114.8
Q ss_pred HHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHH
Q 002385 34 LLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSA 113 (929)
Q Consensus 34 RLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~q 113 (929)
|..-|...|.........-+.+-|..+...|+.-.=+.--+...|+..-..|..+. .|+||+ -.+-+-.|+.++..-
T Consensus 473 ~~~nlv~h~a~a~~~~~S~l~~fY~ai~~~Lv~~t~~~~Ne~n~R~s~fsaLgtli-~~~~d~--V~~~~a~~~~~~~~k 549 (858)
T COG5215 473 RKENLVDHIAKAVREVESFLAKFYLAILNALVKGTELALNESNLRVSLFSALGTLI-LICPDA--VSDILAGFYDYTSKK 549 (858)
T ss_pred HHHhHHHhhhhhhccccchhHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHH-hhcchh--HHHHHHHHHHHHHHH
Confidence 34445555555554333335667777888888766666556667777777777776 455765 234555666665443
Q ss_pred hc-------ccCCCCCc-----chHHHHHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHHHhhcC-CchhHHHHHHHH
Q 002385 114 FE-------NLSHASGR-----YYMKALSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIRSN-HPHFVFAAMETI 179 (929)
Q Consensus 114 f~-------~LaD~sSP-----~F~qy~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr~~-hp~kV~~~M~dI 179 (929)
|. .+-++++. .-..|..+|+.+-..+- -|++ ..|.+.+||=.++....+. .-..|+..+..+
T Consensus 550 l~~~isv~~q~l~~eD~~~~~elqSN~~~vl~aiir~~~----~~ie~v~D~lm~Lf~r~les~~~t~~~~dV~~aIsal 625 (858)
T COG5215 550 LDECISVLGQILATEDQLLVEELQSNYIGVLEAIIRTRR----RDIEDVEDQLMELFIRILESTKPTTAFGDVYTAISAL 625 (858)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcC----CCcccHHHHHHHHHHHHHhccCCchhhhHHHHHHHHH
Confidence 32 22222222 23456677776644421 3555 4565666655555544332 235677888887
Q ss_pred HHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchH------------------------HHHHHHHHH
Q 002385 180 MTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAA------------------------KLKTNLKEA 235 (929)
Q Consensus 180 Ms~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~Cad------------------------KL~p~I~q~ 235 (929)
|+.+=+-.+.--..++--++..+...+.-....|-.|.-++-+.-.. .|+|.|-..
T Consensus 626 ~~sl~e~Fe~y~~~fiPyl~~aln~~d~~v~~~avglvgdlantl~~df~~y~d~~ms~LvQ~lss~~~~R~lKPaiLSv 705 (858)
T COG5215 626 STSLEERFEQYASKFIPYLTRALNCTDRFVLNSAVGLVGDLANTLGTDFNIYADVLMSSLVQCLSSEATHRDLKPAILSV 705 (858)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcChhhccccchHHHHH
Confidence 77665554432122222222222111111111111122222111111 256666666
Q ss_pred HHh----cCCCCchhHHHHHHHhccCCCCC
Q 002385 236 VQS----RGIALDDYAEIVACICGSDDENP 261 (929)
Q Consensus 236 fnS----~Gi~ld~Y~eIV~sI~q~~s~~l 261 (929)
|.. .|..+..|-+.|--+||.+++.-
T Consensus 706 FgDIAlaiga~F~~YL~~im~L~qqas~~~ 735 (858)
T COG5215 706 FGDIALAIGANFESYLDMIMMLFQQASELD 735 (858)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHhccC
Confidence 654 24446789888889999887765
No 83
>PF11707 Npa1: Ribosome 60S biogenesis N-terminal; InterPro: IPR021714 Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits []. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre []. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.
Probab=28.00 E-value=2.9e+02 Score=31.06 Aligned_cols=164 Identities=12% Similarity=0.167 Sum_probs=95.6
Q ss_pred CCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHH
Q 002385 25 PSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMK 104 (929)
Q Consensus 25 piS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLK 104 (929)
+.-..+||..=..+...+..|.+++.+-...-|..+...++....+...-+ ++++-..||..|..+|.=+.|=....+.
T Consensus 147 ~~~~~~lL~~~~~~~~l~k~l~~D~~~~v~~iL~~l~~~Vl~~~~v~r~~K-~~~fn~~~L~~l~~Ly~~~~~~~~~~~~ 225 (330)
T PF11707_consen 147 PELKRDLLSQKKLMSALFKGLRKDPPETVILILETLKDKVLKDSSVSRSTK-CKLFNEWTLSQLASLYSRDGEDEKSSVA 225 (330)
T ss_pred HHHHHHHHHcCchHHHHHhcccCCCHHHHHHHHHHHHHHhccCCCCChhhh-hhhcCHHHHHHHHHHhcccCCcccchHH
Confidence 333555555444588888999998777556666667767777775555444 8888888999999888777661112222
Q ss_pred HHHHHHHHHhc-----ccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHH
Q 002385 105 EFFQLAVSAFE-----NLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETI 179 (929)
Q Consensus 105 DIFqLfV~qf~-----~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dI 179 (929)
++..-|+-.+. ||-=++...|.+-. -..+
T Consensus 226 ~~vh~fL~~lcT~p~~Gv~f~d~~~~~~~~----------------------------------------------~~~~ 259 (330)
T PF11707_consen 226 DLVHEFLLALCTDPKHGVCFPDNGWYPRES----------------------------------------------DSGV 259 (330)
T ss_pred HHHHHHHHHHhcCCCcccccCCCCcCcCcc----------------------------------------------cccc
Confidence 22222222211 11111111111110 0000
Q ss_pred HHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHh
Q 002385 180 MTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQS 238 (929)
Q Consensus 180 Ms~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS 238 (929)
....-...-.+.+.+|-.+|..|. ....+....|+-.|+..|.+=+.+|+..+-.+
T Consensus 260 ~~~~~~~~~~~~Nk~L~~ll~~lk---p~e~~~q~~Lvl~Il~~~PeLva~Y~~~~~~~ 315 (330)
T PF11707_consen 260 PVTINNKSFKINNKLLLNLLKKLK---PWEDDRQQELVLKILKACPELVAPYFNNLPYS 315 (330)
T ss_pred cccccCCCCCcccHHHHHHHHHCC---CCccHHHHHHHHHHHHHChHHHHHHHHhhhhh
Confidence 011111223566677777777553 33456778899999999999999999887454
No 84
>COG5231 VMA13 Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=27.90 E-value=1.2e+02 Score=35.37 Aligned_cols=55 Identities=18% Similarity=0.286 Sum_probs=38.3
Q ss_pred eeeeccCC--chHHHHHHH---HHHHHHhhcCCchhHHHHHHHHHHHHhccc--CCCcHHHH
Q 002385 141 CLLMLDLE--CDKLVVEMF---QHFLKVIRSNHPHFVFAAMETIMTLVIDES--EDVSWDLL 195 (929)
Q Consensus 141 ~VLMlDLe--~ddLI~eLF---ktFF~iVr~~hp~kV~~~M~dIMs~VIEES--E~VP~eLL 195 (929)
|++++-++ |-++|..|| +.++.+|+.+.-++|......|+..+|+-+ ..|.+-+|
T Consensus 216 ~iw~lTf~~~~aqdi~K~~dli~dli~iVk~~~keKV~Rlc~~Iv~n~~dK~pK~~I~~~ll 277 (432)
T COG5231 216 IIWILTFSKECAQDIDKMDDLINDLIAIVKERAKEKVLRLCCGIVANVLDKSPKGYIFSPLL 277 (432)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhhHh
Confidence 45555554 555665555 555567888888999999999999999965 34554443
No 85
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=27.41 E-value=4.2e+02 Score=30.04 Aligned_cols=44 Identities=9% Similarity=0.197 Sum_probs=31.2
Q ss_pred hhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhccc
Q 002385 67 NDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENL 117 (929)
Q Consensus 67 ~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~L 117 (929)
..+|.|=+.+.+.-++.+++-+=.| +.+++.+|..=|+..|..-
T Consensus 31 a~VL~~L~~~e~~~l~~~ma~l~~v-------s~~~~~~vL~ef~~~~~~~ 74 (339)
T PRK05686 31 AKVLKHLTEEEVQKLSAAMANLRNV-------SPEQVEAVLEEFEDEFEAG 74 (339)
T ss_pred HHHHHcCCHHHHHHHHHHHHcCCCC-------CHHHHHHHHHHHHHHHHhc
Confidence 3477777777777788888776554 4557888877777777643
No 86
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=26.93 E-value=5.4e+02 Score=25.22 Aligned_cols=166 Identities=14% Similarity=0.164 Sum_probs=81.1
Q ss_pred HHHHhccccCCCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhc
Q 002385 13 QLKDAGNLLLNPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRIT 92 (929)
Q Consensus 13 ~l~~~G~kLisppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIy 92 (929)
.++.+-++|- +.+.+.++.-|..+.... + ...+..++..++......+ .-+.+|+.+|-.=..++
T Consensus 3 ~v~~~lnklt--~~n~~~~~~~l~~~~~~~--------~--~~~~~~i~~~i~~~a~~~~--~~~~~~a~l~~~l~~~~- 67 (209)
T PF02854_consen 3 KVRGILNKLT--PSNFESIIDELIKLNWSD--------D--PETLKEIVKLIFEKAVEEP--NFSPLYARLCAALNSRF- 67 (209)
T ss_dssp HHHHHHHHCS--STTHHHHHHHHHHHHHHS--------C--HHHHHHHHHHHHHHHHHSG--GGHHHHHHHHHHHHHHC-
T ss_pred hHHHHHHHCC--HHHHHHHHHHHHHHHhhc--------c--HHHHHHHHHHHhhhhhcCc--hHHHHHHHHHHHHhccc-
Confidence 4555556655 455666666555543322 1 3455667777777776666 45677777774422222
Q ss_pred CCCCCCChhHHHHHHHHHHHHhcc------cCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhc
Q 002385 93 APDSPYDDELMKEFFQLAVSAFEN------LSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRS 166 (929)
Q Consensus 93 APDAPYtDdqLKDIFqLfV~qf~~------LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~ 166 (929)
| .+-...+...+...|.. +.+.......+.+.++.-|++.=.+ .+=...+|.+++..++.....
T Consensus 68 -~-----~~f~~~ll~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~----~vv~~~~i~~~l~~ll~~~~~ 137 (209)
T PF02854_consen 68 -P-----SEFRSLLLNRCQEEFEERYSNEELEENRQSSKQRRRGNIRFLAELFNF----GVVSEKIIFDILRELLSDGTD 137 (209)
T ss_dssp -H-----HHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHT----TSSCHHHHHHHHHHHHHHTSH
T ss_pred -h-----hhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhh----ccccchhHHHHHHHHHhcccc
Confidence 2 12222333333334443 2223334444455555555544211 111345666666666664332
Q ss_pred ----CCchhHHHHHHHHHHHHhcccC--CCcHHHHHHHHHHhh
Q 002385 167 ----NHPHFVFAAMETIMTLVIDESE--DVSWDLLRILLASVR 203 (929)
Q Consensus 167 ----~hp~kV~~~M~dIMs~VIEESE--~VP~eLLDvIL~~Ll 203 (929)
.-...-..++..+|..+=...+ ......++.+|..+.
T Consensus 138 ~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~ 180 (209)
T PF02854_consen 138 ECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQ 180 (209)
T ss_dssp HCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred cccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Confidence 1112334455555555544444 444555666666554
No 87
>PF13001 Ecm29: Proteasome stabiliser; InterPro: IPR024372 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). Ecm29 tethers the proteasome core particle to the regulatory particle, stabilising the interaction between these two components [, , ].
Probab=26.87 E-value=3.3e+02 Score=32.60 Aligned_cols=121 Identities=14% Similarity=0.171 Sum_probs=0.0
Q ss_pred eeccCCchHHHHHHHHHHH------HHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhcc--CCCCChhhH
Q 002385 143 LMLDLECDKLVVEMFQHFL------KVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKE--NQDVSPTSW 214 (929)
Q Consensus 143 LMlDLe~ddLI~eLFktFF------~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~--~ks~~PaAy 214 (929)
+..++|..++|..||..|+ +.-+.-.+..+..-+..+|.. =..+-...+.++.+++..|-.. +..-...+-
T Consensus 264 ~~~~~ed~~~V~~L~~Ly~G~~~~~~~~~~pa~~~lq~kIL~~L~k-S~~Aa~~~~~~~~i~~~~l~~~~~~~klk~~~l 342 (501)
T PF13001_consen 264 LSVSLEDPDLVDRLFDLYLGKGIPPENGRPPASPRLQEKILSLLSK-SVIAATSFPNILQIVFDGLYSDNTNSKLKSLAL 342 (501)
T ss_pred cCCCCCCHHHHHHHHHHHHhcCCchhcCCCCCCHHHHHHHHHHHHH-hHHHHhCCccHHHHHhccccCCccccccchhcc
Q ss_pred HHH---HHHHhhchHHHHHHHHHHHHhcCCCCch-----------------hHHHHHHHhccCCCCCCCC
Q 002385 215 KLG---EKVFTKCAAKLKTNLKEAVQSRGIALDD-----------------YAEIVACICGSDDENPQHG 264 (929)
Q Consensus 215 ~LA---~~VI~~CadKL~p~I~q~fnS~Gi~ld~-----------------Y~eIV~sI~q~~s~~l~~~ 264 (929)
++. ..++..|...+-..|..++.+-|.++-. -|+.|..|++.++..+.++
T Consensus 343 ~F~~~~~~~~~~~~~~~l~~l~~~i~~~g~p~~~~~~~~~~~~~~~~lR~~aYe~lG~L~~~~p~l~~~d 412 (501)
T PF13001_consen 343 QFIRGSSWIFKHISPQILKLLRPVILSQGWPLIQDSSSQSNSSEDIELRSLAYETLGLLAKRAPSLFSKD 412 (501)
T ss_pred hhhhcchHHhhhcCHHHHHHHHHHHHhcCccccccccccCCCcccHHHHHHHHHHHHHHHccCccccccc
No 88
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=26.81 E-value=7.6e+02 Score=27.06 Aligned_cols=45 Identities=13% Similarity=0.218 Sum_probs=31.3
Q ss_pred HHHHHHHhhchHHHHHHHHHHHHhcCCCCchhHHHHHHHhccCCCCC
Q 002385 215 KLGEKVFTKCAAKLKTNLKEAVQSRGIALDDYAEIVACICGSDDENP 261 (929)
Q Consensus 215 ~LA~~VI~~CadKL~p~I~q~fnS~Gi~ld~Y~eIV~sI~q~~s~~l 261 (929)
..+..++..-...+...|.+-++ +.+.++..++|..+...+-..+
T Consensus 301 ~~l~~~v~~~~~~i~~~V~~~l~--~~~~~~l~~~i~~~v~~dL~~I 345 (367)
T PF04286_consen 301 NLLERIVESNHIDIGEIVEEKLN--SLDDEELEELIESKVGKDLQWI 345 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHhHhh
Confidence 34455566666667777777777 5677888888888877665554
No 89
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=26.64 E-value=6.2e+02 Score=24.82 Aligned_cols=49 Identities=16% Similarity=0.202 Sum_probs=31.7
Q ss_pred CCcHHHHHHHHHHhhccCCC-----CChhhHHHHHHHHhhchHHHH--HHHHHHHH
Q 002385 189 DVSWDLLRILLASVRKENQD-----VSPTSWKLGEKVFTKCAAKLK--TNLKEAVQ 237 (929)
Q Consensus 189 ~VP~eLLDvIL~~Ll~~~ks-----~~PaAy~LA~~VI~~CadKL~--p~I~q~fn 237 (929)
.|+..++-.+|..|+..... .......++..++..|+..|. ....+.+.
T Consensus 118 vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~ 173 (209)
T PF02854_consen 118 VVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALD 173 (209)
T ss_dssp SSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred cccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHH
Confidence 46665555555555543322 345667788899999999998 55555544
No 90
>PF05997 Nop52: Nucleolar protein,Nop52; InterPro: IPR010301 Nop52 is believed to be involved in the generation of 28S rRNA [].; GO: 0006364 rRNA processing, 0030688 preribosome, small subunit precursor
Probab=26.61 E-value=8.2e+02 Score=26.25 Aligned_cols=121 Identities=13% Similarity=0.130 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHH
Q 002385 33 NLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVS 112 (929)
Q Consensus 33 KRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~ 112 (929)
+-|+.|..+|..-.+... ...+..+-+.|-=- +-..--+-|+--+|..|++|++.+.++. ..---++-.|.-+.+
T Consensus 19 ~al~~l~~~l~~~~~~~~---~~~~~kLWKGLfy~-mWmsDkpl~Q~~la~~la~l~~~~~~~~-~~~~f~~~f~~tm~r 93 (217)
T PF05997_consen 19 RALKSLRKWLSKRSQLLT---ELDMLKLWKGLFYC-MWMSDKPLVQEELAEELASLIHSFPSEK-AALLFLKAFWETMRR 93 (217)
T ss_pred HHHHHHHHHHHhccccCC---HHHHHHHHHHHHHH-HHhcCCchhHHHHHHHHHHHHHhhcChH-HHHHHHHHHHHHHHH
Confidence 345677777877655321 23344555554322 2222335688889999999999986554 111233444444444
Q ss_pred HhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHH
Q 002385 113 AFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLK 162 (929)
Q Consensus 113 qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~ 162 (929)
.+.+|.- +=-.-||+|-+.---.++.+|-.-. ..+++.++.+.+..
T Consensus 94 EW~~ID~----~R~DKf~~LvR~~~~~~~~~l~~~~w~~~~v~~~~~~l~~ 140 (217)
T PF05997_consen 94 EWDGIDR----LRMDKFLMLVRRFLRQSFRFLKKNGWDKELVEEFNEILSE 140 (217)
T ss_pred HHcccHH----HHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence 4555541 1111245554444444444444333 33444444444444
No 91
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=26.47 E-value=84 Score=26.88 Aligned_cols=29 Identities=24% Similarity=0.530 Sum_probs=24.4
Q ss_pred ccccCCeEEEeeCCCCceEEEEEEEecCCC
Q 002385 710 EQLVGSRIKVWWPMDETFYKGVVDNYDPIK 739 (929)
Q Consensus 710 e~lVG~RVkV~WP~D~~wY~G~V~syd~~t 739 (929)
+.++|++|+|.--. ...|.|++.+||.--
T Consensus 4 ~~~~g~~V~V~l~~-g~~~~G~L~~~D~~~ 32 (67)
T PF01423_consen 4 QKLIGKRVRVELKN-GRTYRGTLVSFDQFM 32 (67)
T ss_dssp HHTTTSEEEEEETT-SEEEEEEEEEEETTE
T ss_pred HHhCCcEEEEEEeC-CEEEEEEEEEeechh
Confidence 46789999998884 588999999999743
No 92
>PF08558 TRF: Telomere repeat binding factor (TRF); InterPro: IPR013867 Telomeres function to shield chromosome ends from degradation and end-to-end fusions, as well as preventing the activation of DNA damage checkpoints. Telomeric repeat binding factor (TRF) proteins TRF1 and TRF2 are major components of vertebrate telomeres required for regulation of telomere stability. TRF1 and TRF2 bind to telomeric DNA as homodimers. Dimerisation involves the TRF homology (TRFH) subdomain contained within the dimerisation domain. The TRFH subdomain is important not only for dimerisation, but for DNA binding, telomere localisation, and interactions with other telomeric proteins. The dimerisation domains of TRF1 and TRF2 show the same multi-helical structure, arranged in a solenoid conformation similar to TPR repeats, which can be divided into an alpha-alpha superhelix and a long alpha hairpin []. The two related human TRF proteins hTRF1 and hTRF2 form homodimers and bind directly to telomeric TTAGGG repeats via the myb DNA binding domain IPR001005 from INTERPRO at the carboxy terminus []. TRF1 is implicated in telomere length regulation and TRF2 in telomere protection []. Other telomere complex associated proteins are recruited through their interaction with either TRF1 or TRF2. The fission yeast protein Taz1p (telomere-associated in Schizosaccharomyces pombe (Fission yeast) has similarity to both hTRF1 and hTRF2 and may perform the dual functions of TRF1 and TRF2 at fission yeast telomeres []. This entry represents dimerisation domain.; GO: 0042162 telomeric DNA binding, 0042803 protein homodimerization activity; PDB: 3BQO_A 1H6O_A 3L82_A 3BUA_B 1H6P_B 3BU8_B.
Probab=26.05 E-value=1.7e+02 Score=31.86 Aligned_cols=123 Identities=15% Similarity=0.168 Sum_probs=61.9
Q ss_pred hhHHHHHHhhh--------cCCCCCCCh--hHHHHHHHHHHHHhcccCCCCCc--------chHHHHHHHHHhhhhceee
Q 002385 81 VTSCISEITRI--------TAPDSPYDD--ELMKEFFQLAVSAFENLSHASGR--------YYMKALSILDTVAKVRSCL 142 (929)
Q Consensus 81 VAcCLADILRI--------yAPDAPYtD--dqLKDIFqLfV~qf~~LaD~sSP--------~F~qy~yLLEtLAeVKS~V 142 (929)
+|.+|.-+||- .-||.+... ..|+++|+.+...+. ..+| .-....+|.++|..+-..-
T Consensus 11 la~qlL~~~~~~p~~~~~~~~~~s~~~~~F~~l~~lFe~~~~~y~----~~~~~L~~~~l~~~~~e~~I~~~lrk~Nla~ 86 (238)
T PF08558_consen 11 LATQLLRAFSQSPDIISLVSDPDSERGESFRRLRDLFEATKRIYS----SDSPFLSVDELALQDKEQRICQTLRKANLAT 86 (238)
T ss_dssp HHHHHHHHHHC-------------T-HHHHHHHHHHHHHHCCT-S----CCTH--------HHHHHHHHHHHHHHHCTTT
T ss_pred HHHHHHHHHHHhhccchhhhccchHHHHHHHHHHHHHHHHHHHcC----CCCccchhhhhhhcchHHHHHHHHHHHHhhc
Confidence 45555555554 345555554 466777666655552 3344 4455677777776663321
Q ss_pred -eeccCCchH-HHHHHHHHHHHHhhcCCc---hhHHHHHHHHHHH-HhcccCCCcHHHHHHHHHHhhccCC
Q 002385 143 -LMLDLECDK-LVVEMFQHFLKVIRSNHP---HFVFAAMETIMTL-VIDESEDVSWDLLRILLASVRKENQ 207 (929)
Q Consensus 143 -LMlDLe~dd-LI~eLFktFF~iVr~~hp---~kV~~~M~dIMs~-VIEESE~VP~eLLDvIL~~Ll~~~k 207 (929)
+..=+++++ =+.++=..||++.++++. +.....-..|-++ +|.-.+..+..-...||..+.+.+-
T Consensus 87 ~l~~~f~~~~i~~~el~~~Fl~if~pe~~~l~k~~~~L~l~LKtQa~i~~l~~~~~~~~~eiL~~lFp~~~ 157 (238)
T PF08558_consen 87 FLDSLFGTDEIGFLELAESFLDIFCPEDSKLLKSQEELYLDLKTQAVISALEKGPFRSAEEILDRLFPDDL 157 (238)
T ss_dssp -TTEE-SSSTS-HHHHHHHHHCCCCCCTC--HHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHTSSSS
T ss_pred hHHHhcCCCCCCHHHHHHHHHHHHcccccchhhhHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHcCCCh
Confidence 222235444 346666889999888766 3333333333333 2222235666666777777665543
No 93
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=25.58 E-value=1.1e+03 Score=27.14 Aligned_cols=127 Identities=10% Similarity=0.152 Sum_probs=64.6
Q ss_pred hHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCc--hhHHHHHHH
Q 002385 101 ELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHP--HFVFAAMET 178 (929)
Q Consensus 101 dqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp--~kV~~~M~d 178 (929)
.++...|.-|+..+.+ .....+..+|++|+.=- .-+.|+.-+.+-+.+.|+.++. -.+...|..
T Consensus 174 ~Elq~yf~~It~a~~~------~~~~~r~~aL~sL~tD~--------gl~~LlPyf~~fI~~~v~~n~~~nl~~L~~lm~ 239 (343)
T cd08050 174 KELQLYFEEITEALVG------SNEEKRREALQSLRTDP--------GLQQLLPYFVRFIAEGVTVNLDQNLALLIYLMR 239 (343)
T ss_pred HHHHHHHHHHHHHHhC------CCHHHHHHHHHHhccCC--------CchhhhhHHHHHHHHHHHhhhcccHHHHHHHHH
Confidence 4566667766666654 22344555666554322 2345666666666666776654 334455556
Q ss_pred HHHHHhcccC-CC---cHHHHHHHHHHhhccCCCCCh------h----hHHHHHHHHhhchHH---HHHHHHHHHHhcCC
Q 002385 179 IMTLVIDESE-DV---SWDLLRILLASVRKENQDVSP------T----SWKLGEKVFTKCAAK---LKTNLKEAVQSRGI 241 (929)
Q Consensus 179 IMs~VIEESE-~V---P~eLLDvIL~~Ll~~~ks~~P------a----Ay~LA~~VI~~CadK---L~p~I~q~fnS~Gi 241 (929)
++..+|.--. .| =+.|+-.+|..++...-...| + |..+...||..+... |+|.|...|....+
T Consensus 240 ~v~ALl~N~~l~le~Ylh~Lip~vltclv~~~l~~~~~~~~h~~LRd~AA~ll~~i~~~f~~~y~~l~~ri~~tl~k~l~ 319 (343)
T cd08050 240 MVRALLDNPNLHLEPYLHQLIPSVLTCLVAKQLCSRPPDDNHWALRDYAARLLAQICRKFSTSYNTLQPRITRTLLKALL 319 (343)
T ss_pred HHHHHhcCCCCchHHhHHHHHHHHHHHhhhHhhcCCCCCchHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHc
Confidence 6666665421 11 112444444444433322222 2 223334566666654 78888765554433
No 94
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=25.49 E-value=1.5e+02 Score=27.84 Aligned_cols=60 Identities=13% Similarity=0.240 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHH
Q 002385 174 AAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKE 234 (929)
Q Consensus 174 ~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q 234 (929)
..|..|...+ .+....+.++++.|...|...+....--|-.|-+.++.+|+..+..+|+.
T Consensus 19 ~~i~~i~d~~-~~~~~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~ 78 (115)
T cd00197 19 PLIMEICDLI-NETNVGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERFHQEVAS 78 (115)
T ss_pred HHHHHHHHHH-HCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHHHHHHHH
Confidence 4555555544 45466788899999999876654445556667788888998887776654
No 95
>PF10165 Ric8: Guanine nucleotide exchange factor synembryn; InterPro: IPR019318 Ric8 is involved in the EGL-30 neurotransmitter signalling pathway []. It is a guanine nucleotide exchange factor [] that regulates neurotransmitter secretion.
Probab=25.28 E-value=4.5e+02 Score=31.06 Aligned_cols=44 Identities=23% Similarity=0.274 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhcCCCCch-hHHHHHHHhccCCCCCCCCCCCCC
Q 002385 226 AKLKTNLKEAVQSRGIALDD-YAEIVACICGSDDENPQHGHLIGS 269 (929)
Q Consensus 226 dKL~p~I~q~fnS~Gi~ld~-Y~eIV~sI~q~~s~~l~~~~~~~~ 269 (929)
+.|.-.+..++++....+.+ .++.++.||..+.+.+...+.-|+
T Consensus 307 ~tL~~rLlrLmt~~~~~~k~~vaellf~Lc~~d~~~~v~~~GyG~ 351 (446)
T PF10165_consen 307 DTLRSRLLRLMTSPDPQLKDAVAELLFVLCKEDASRFVKYVGYGN 351 (446)
T ss_pred cchHHHHHHHhCCCCchHHHHHHHHHHHHHhhhHHHHHHHcCchh
Confidence 34666666666665444444 589999999988877755554444
No 96
>PF15611 EH_Signature: EH_Signature domain
Probab=25.13 E-value=8.4e+02 Score=27.43 Aligned_cols=111 Identities=17% Similarity=0.241 Sum_probs=65.8
Q ss_pred HHHHHHhhhcCCCCCCC--hhHHH---HHHHHHHHHhcccCCCCCc-chH--HHHHHHHHhhhhceeeeeccCCchHHHH
Q 002385 83 SCISEITRITAPDSPYD--DELMK---EFFQLAVSAFENLSHASGR-YYM--KALSILDTVAKVRSCLLMLDLECDKLVV 154 (929)
Q Consensus 83 cCLADILRIyAPDAPYt--DdqLK---DIFqLfV~qf~~LaD~sSP-~F~--qy~yLLEtLAeVKS~VLMlDLe~ddLI~ 154 (929)
-++.++-.++.+++|.. ..-|. ++...|- --+|.+.... +|. ...++|+.+.... ..+++.
T Consensus 106 ~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~l~--~lgi~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~~ 174 (389)
T PF15611_consen 106 ELLRDIPELLSPNGPKWLAARLMQGDSSPLEELA--RLGIPPPHSSSWLWQALFSYYLEQIPELP---------DDEFLD 174 (389)
T ss_pred HHHHHhHhhhcccchHHHHHHHHhccccHHHHHH--HcCCCcccchhHHHHHHHHHHHHHHHhcC---------ChHHHH
Confidence 45666678889998833 33333 4444443 2244443333 332 2345566555544 456777
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHHHHHHhc--ccCCCcHHHHHHHHHHhhccCC
Q 002385 155 EMFQHFLKVIRSNHPHFVFAAMETIMTLVID--ESEDVSWDLLRILLASVRKENQ 207 (929)
Q Consensus 155 eLFktFF~iVr~~hp~kV~~~M~dIMs~VIE--ESE~VP~eLLDvIL~~Ll~~~k 207 (929)
++++.+ .+ ...+......+..+|...++ ..+.+...+.+.||..+..+.-
T Consensus 175 ~l~~~~--l~-~~~~~~~~~~~~~lL~~~~~~~~~~~~~~~l~~~~l~~~GdPr~ 226 (389)
T PF15611_consen 175 ELLKLL--LL-DGRPEQRKRALEALLERYIDRSPDEPVHEALRDLLLAIWGDPRL 226 (389)
T ss_pred HHHHHH--hh-ccchhHHHHHHHHHHHHHHhcCccchhhHHHHHHHHHHhCCCCC
Confidence 777774 23 33555555667777777775 2346788888999987776543
No 97
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=25.09 E-value=1e+02 Score=25.85 Aligned_cols=29 Identities=28% Similarity=0.464 Sum_probs=24.2
Q ss_pred ccccCCeEEEeeCCCCceEEEEEEEecCCC
Q 002385 710 EQLVGSRIKVWWPMDETFYKGVVDNYDPIK 739 (929)
Q Consensus 710 e~lVG~RVkV~WP~D~~wY~G~V~syd~~t 739 (929)
+.++|++|.|--- |..-|.|++.+||.--
T Consensus 2 ~~~~g~~V~V~l~-~g~~~~G~L~~~D~~~ 30 (63)
T cd00600 2 KDLVGKTVRVELK-DGRVLEGVLVAFDKYM 30 (63)
T ss_pred hHHCCCEEEEEEC-CCcEEEEEEEEECCCC
Confidence 4578999998877 5689999999999754
No 98
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=25.07 E-value=9e+02 Score=26.19 Aligned_cols=141 Identities=13% Similarity=0.164 Sum_probs=67.0
Q ss_pred ChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHHHhhcCCchhHHHHHH
Q 002385 99 DDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIRSNHPHFVFAAME 177 (929)
Q Consensus 99 tDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr~~hp~kV~~~M~ 177 (929)
+.++...|+..|...+..|.-....+ ++++.+-+.- +-+ ...|+.++...+..++.+.+-.-|...+.
T Consensus 141 ~~~~~~~i~~~l~~~~~~l~~~~~G~-----~vvq~~l~~~------~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l 209 (322)
T cd07920 141 PPEDLQFIIDAFKGNCVALSTHPYGC-----RVIQRCLEHC------SEEQREPLLEEILEHALELVQDQFGNYVVQHVL 209 (322)
T ss_pred CHHHHHHHHHHHHHHHHHHHcCcccc-----HHHHHHHHhC------CHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence 45566777777777666665322111 3333332221 111 34577777777777776655554544433
Q ss_pred HHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHH-HHHHHHHHhc-------CCCCchh-HH
Q 002385 178 TIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLK-TNLKEAVQSR-------GIALDDY-AE 248 (929)
Q Consensus 178 dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~-p~I~q~fnS~-------Gi~ld~Y-~e 248 (929)
.... +..-..+++.|..++.. -..++-+..+++.++..+..+.. ..+..++... -+..|.| +-
T Consensus 210 ~~~~------~~~~~~i~~~l~~~~~~--l~~~k~Gs~Vve~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~ 281 (322)
T cd07920 210 ELGD------PDDTSRIIEKLLGNIVQ--LSCHKFASNVVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNY 281 (322)
T ss_pred hcCC------HHHHHHHHHHHHHHHHH--HHcCcchHHHHHHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccH
Confidence 2211 11222333444333322 12334556677777777765543 3344433321 1234666 44
Q ss_pred HHHHHhccCC
Q 002385 249 IVACICGSDD 258 (929)
Q Consensus 249 IV~sI~q~~s 258 (929)
||..++....
T Consensus 282 Viq~~l~~~~ 291 (322)
T cd07920 282 VIQTALDVAK 291 (322)
T ss_pred HHHHHHHhCC
Confidence 5555554433
No 99
>PF14631 FancD2: Fanconi anaemia protein FancD2 nuclease; PDB: 3S4W_B.
Probab=24.26 E-value=5.1e+02 Score=35.40 Aligned_cols=150 Identities=13% Similarity=0.218 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhh-hhccCCC-cCeehhhhHHHHHHhhhcCCCCCCChhHHHH
Q 002385 28 VDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITN-DLLRRSD-MDVRLSVTSCISEITRITAPDSPYDDELMKE 105 (929)
Q Consensus 28 ~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~-~LLkHKD-kdVRlyVAcCLADILRIyAPDAPYtDdqLKD 105 (929)
..||+=+|+.|...|..+--.+.. .-.|.++.=.+. .-+.|-. ..++ -|+.|+..+|-. =-..|..
T Consensus 962 p~eLlFLLeDL~~KLe~~l~~~~~----kr~pflk~~~~~~~gf~~l~q~~~~-ev~~~v~~llp~-------l~~hLE~ 1029 (1426)
T PF14631_consen 962 PPELLFLLEDLVQKLEHVLTPSKA----KRAPFLKAKGSKNIGFSHLCQRSPQ-EVASCVVQLLPH-------LCNHLEN 1029 (1426)
T ss_dssp HHHHHHHHHHHHHHHHHHH--------------------------TTTTS-HH-HHHHHHHHHHHH-------HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcCCccc----ccCchhhhcccccccchhHhhcCHH-HHHHHHHHHHHH-------HHHHHHH
Confidence 468888888888888766432111 011222211111 1111111 1111 477888888731 1244555
Q ss_pred HHHHHHHHhcccCC-----CCCc-chHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHh---hcCCchhHHHHH
Q 002385 106 FFQLAVSAFENLSH-----ASGR-YYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVI---RSNHPHFVFAAM 176 (929)
Q Consensus 106 IFqLfV~qf~~LaD-----~sSP-~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iV---r~~hp~kV~~~M 176 (929)
++.+| ..|.. .++| .|.+.++.+.+ |-.+++++|..+|.-- ...+..-+...|
T Consensus 1030 ~~~~f----q~l~~e~~~v~d~~~~~~~e~~~~~s--------------c~~~~l~~~~~ifsw~~f~~~~~~~lL~~~L 1091 (1426)
T PF14631_consen 1030 IHNYF----QCLISENDGVVDGPDLFVQEFQYMSS--------------CYQLLLQIFHTIFSWSGFSSPENRDLLKSAL 1091 (1426)
T ss_dssp HHHHH----HH---------------HHHHHHHHH--------------HHHHHHHHHHHHHT-TTTTSSTTHHHHHHHH
T ss_pred HHHHH----HHHHhhcCCCCCCccccHHHHHHHHH--------------HHHHHHHHHHHHhccccccchhhHHHHHHHH
Confidence 55554 33332 2333 35555555533 4568999999999842 122333333333
Q ss_pred HHHHHHHhcccCCCc-HHHHHHHHHHhhccCC
Q 002385 177 ETIMTLVIDESEDVS-WDLLRILLASVRKENQ 207 (929)
Q Consensus 177 ~dIMs~VIEESE~VP-~eLLDvIL~~Ll~~~k 207 (929)
..|...+.......+ .+++.-++.+|.....
T Consensus 1092 ~~la~r~~~~~~~~~~~~l~~~~f~Yl~~~~~ 1123 (1426)
T PF14631_consen 1092 RSLASRLKSKEKDQSLEELVSQSFKYLENFAK 1123 (1426)
T ss_dssp HTT-TTS--S-SS--HHHHHHHHHHHHHGGGG
T ss_pred HHHHhhcccccccCCHHHHHHHHHHHHHHHHH
Confidence 343333443333333 5788888888876644
No 100
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=24.22 E-value=2.3e+02 Score=33.90 Aligned_cols=104 Identities=13% Similarity=0.279 Sum_probs=68.1
Q ss_pred cCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCC--
Q 002385 71 RRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLE-- 148 (929)
Q Consensus 71 kHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe-- 148 (929)
+..+.+....++-||-.+||+ |+-=|.- ..-+=.++++..+. .+...|+-+++++. |+.++.+.
T Consensus 167 ~~~~~~~~~~~~rcLQ~ll~~--~eyR~~~-v~adg~~~l~~~l~----s~~~~~QlQYqsif-------ciWlLtFn~~ 232 (442)
T KOG2759|consen 167 SSTNNDYIQFAARCLQTLLRV--DEYRYAF-VIADGVSLLIRILA----STKCGFQLQYQSIF-------CIWLLTFNPH 232 (442)
T ss_pred ccCCCchHHHHHHHHHHHhcC--cchhhee-eecCcchhhHHHHh----ccCcchhHHHHHHH-------HHHHhhcCHH
Confidence 336667777888899999998 3322221 11111233444432 33445665555554 77888886
Q ss_pred -chHH-HHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccC
Q 002385 149 -CDKL-VVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESE 188 (929)
Q Consensus 149 -~ddL-I~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE 188 (929)
|+.+ -..+|+.+.++++...-++|...+..|+..+|+-.+
T Consensus 233 ~ae~~~~~~li~~L~~Ivk~~~KEKV~Rivlai~~Nll~k~~ 274 (442)
T KOG2759|consen 233 AAEKLKRFDLIQDLSDIVKESTKEKVTRIVLAIFRNLLDKGP 274 (442)
T ss_pred HHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCc
Confidence 4332 126788888899998899999999999999999874
No 101
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=24.14 E-value=35 Score=26.52 Aligned_cols=22 Identities=18% Similarity=0.350 Sum_probs=20.0
Q ss_pred hccCCCcCeehhhhHHHHHHhh
Q 002385 69 LLRRSDMDVRLSVTSCISEITR 90 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILR 90 (929)
||+|.|.+|+-.++.||..|.|
T Consensus 20 ll~~~~~~v~~~a~~al~nl~~ 41 (41)
T PF00514_consen 20 LLKSPDPEVQEEAAWALGNLAA 41 (41)
T ss_dssp HTTSSSHHHHHHHHHHHHHHHT
T ss_pred HHcCCCHHHHHHHHHHHHHHhC
Confidence 7789999999999999999865
No 102
>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.59 E-value=1.5e+02 Score=37.67 Aligned_cols=29 Identities=28% Similarity=0.306 Sum_probs=25.2
Q ss_pred hccCCCcCeehhhhHHHHHHhhh---cCCCCC
Q 002385 69 LLRRSDMDVRLSVTSCISEITRI---TAPDSP 97 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILRI---yAPDAP 97 (929)
=|+|...=||-.+-|||..|++. .-||||
T Consensus 142 cleHrhsYVRrNAilaifsIyk~~~~L~pDap 173 (948)
T KOG1058|consen 142 CLEHRHSYVRRNAILAIFSIYKNFEHLIPDAP 173 (948)
T ss_pred HHhCcchhhhhhhheeehhHHhhhhhhcCChH
Confidence 47999999999999999999998 347776
No 103
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=23.57 E-value=1.8e+02 Score=37.05 Aligned_cols=42 Identities=10% Similarity=0.164 Sum_probs=25.7
Q ss_pred CCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHH
Q 002385 189 DVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKT 230 (929)
Q Consensus 189 ~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p 230 (929)
.++..+|+.|+.+|..=.+...-.+....+.+|..+...+.+
T Consensus 486 ~~~~~~ld~L~~~L~~Laq~~p~~~a~~~r~~L~~~~~~~~~ 527 (840)
T PF04147_consen 486 PPPFEVLDSLIPHLYDLAQKYPEEAAECFREVLKEMQKRFRK 527 (840)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 677788888877765444444444455555666666655555
No 104
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=23.02 E-value=1.9e+02 Score=29.22 Aligned_cols=69 Identities=9% Similarity=0.207 Sum_probs=47.4
Q ss_pred hhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHH
Q 002385 164 IRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLK 233 (929)
Q Consensus 164 Vr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~ 233 (929)
.++..+..=...+.+|.-. |...+.-|.+.+..|...|...+....--|..|.+.++.+|+..+...|+
T Consensus 9 Tse~l~~~dw~~il~icD~-I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~eva 77 (144)
T cd03568 9 TDEKLTSENWGLILDVCDK-VKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVA 77 (144)
T ss_pred cCccCCCcCHHHHHHHHHH-HhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHh
Confidence 3444444444555555444 44447788999999999988766666666777888889999988765554
No 105
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=22.84 E-value=7.4e+02 Score=24.43 Aligned_cols=133 Identities=15% Similarity=0.166 Sum_probs=63.2
Q ss_pred hhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHH
Q 002385 81 VTSCISEITRITAPDSPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHF 160 (929)
Q Consensus 81 VAcCLADILRIyAPDAPYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktF 160 (929)
+.-.+.+|.+++..+ ++..+.|..+|+..-.... ...++|.+-++.|...-. ++ ...||..+.+.|
T Consensus 16 ~~~~~~~l~~~~~~~----~~~~~~l~~~i~~~~~~~~-~~~~~ya~L~~~l~~~~~--------~f-~~~ll~~~~~~f 81 (200)
T smart00543 16 FESIIKELLKLNNSD----KNLRKYILELIFEKAVEEP-NFIPAYARLCALLNAKNP--------DF-GSLLLERLQEEF 81 (200)
T ss_pred HHHHHHHHHHHHccC----HHHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHHHH--------HH-HHHHHHHHHHHH
Confidence 334455555555432 4566666666666543322 234555555555554321 11 245666666665
Q ss_pred HHHhhcC---CchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCC----CChhhHHHHHHHHhhchHHHH
Q 002385 161 LKVIRSN---HPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQD----VSPTSWKLGEKVFTKCAAKLK 229 (929)
Q Consensus 161 F~iVr~~---hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks----~~PaAy~LA~~VI~~CadKL~ 229 (929)
....... +-..+... ...|..+. -...|+..++--+|..|+..... ...-...++..++..|+..|.
T Consensus 82 ~~~~e~~~~~~~~~~~~~-i~fl~eL~-~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~ 155 (200)
T smart00543 82 EKGLESEEESDKQRRLGL-VRFLGELY-NFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLE 155 (200)
T ss_pred HHHHHHHHHHhhhhHHhH-HHHHHHHH-HcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHc
Confidence 5421111 11111111 11111111 12345555555555555543222 223566677778888888877
No 106
>cd07961 Anticodon_Ia_Ile_ABEc Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases. This domain is found in isoleucyl tRNA synthetases (IleRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. This family includes bacterial, archaeal, and eukaryotic cytoplasmic members. IleRS catalyzes the transfer of isoleucine to the 3'-end of its tRNA.
Probab=22.79 E-value=1.1e+02 Score=30.98 Aligned_cols=27 Identities=19% Similarity=0.384 Sum_probs=23.1
Q ss_pred hhhhHHHHHHhhhcCCCCCCChhHHHH
Q 002385 79 LSVTSCISEITRITAPDSPYDDELMKE 105 (929)
Q Consensus 79 lyVAcCLADILRIyAPDAPYtDdqLKD 105 (929)
..+..||..++++.||=+||..++|-.
T Consensus 112 ~~l~~~l~~ll~ll~P~~P~~aEElw~ 138 (183)
T cd07961 112 ATLYEVLLTLSRLMAPFTPFITEEIYQ 138 (183)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence 366789999999999999999987654
No 107
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=22.74 E-value=1.3e+02 Score=29.76 Aligned_cols=41 Identities=15% Similarity=0.180 Sum_probs=28.6
Q ss_pred ccccccCCeEEEeeC---CCCceEEEEEEEecCCCCeEEEEcCCCc
Q 002385 708 LNEQLVGSRIKVWWP---MDETFYKGVVDNYDPIKKKHRILYADGD 750 (929)
Q Consensus 708 ~ge~lVG~RVkV~WP---~D~~wY~G~V~syd~~tkkH~V~YDDGD 750 (929)
.=...+|+.|+|++- ....+|.|.+..++. ....+.+.++.
T Consensus 81 ~~~~~iG~~v~v~~~~~~~~~~~~~G~L~~~~~--~~i~l~~~~~~ 124 (141)
T PF02576_consen 81 DFERFIGRKVKVKLKQPVNGRKEFEGKLLEVDE--DEITLEVEGKG 124 (141)
T ss_dssp HHHHH-SEEEEEE-SS-SSS-SEEEEEEEEEET--TEEEEEEE-SS
T ss_pred HHHHhcCCeEEEEEeccCCCcEEEEEEEEEEeC--CEEEEEECCcc
Confidence 345679999999983 345799999999997 56667777663
No 108
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=21.96 E-value=2.5e+02 Score=27.64 Aligned_cols=69 Identities=16% Similarity=0.249 Sum_probs=46.4
Q ss_pred HhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHH
Q 002385 163 VIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNL 232 (929)
Q Consensus 163 iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I 232 (929)
++++..+..=...+..|. .+|.....-+.+++..|-..|...+....-.|-.|...++.+|...+...|
T Consensus 13 ATs~~~~~~Dw~~~l~ic-D~i~~~~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev 81 (140)
T PF00790_consen 13 ATSESLPSPDWSLILEIC-DLINSSPDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREV 81 (140)
T ss_dssp HT-TTSSS--HHHHHHHH-HHHHTSTTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred HhCcCCCCCCHHHHHHHH-HHHHcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 444444444334444443 355565788899999999999887766666677788888899988876664
No 109
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.91 E-value=2e+03 Score=29.07 Aligned_cols=196 Identities=12% Similarity=0.148 Sum_probs=103.7
Q ss_pred HHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccCCCcCeehhhhHH-HHHHhhhcCCCCCCChhHHHHHHHHH
Q 002385 32 INLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRRSDMDVRLSVTSC-ISEITRITAPDSPYDDELMKEFFQLA 110 (929)
Q Consensus 32 LKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkHKDkdVRlyVAcC-LADILRIyAPDAPYtDdqLKDIFqLf 110 (929)
+-.|+.++.-|..+++-|. ....|.|+....+..-|-+|.- -.|-=|| |++=+=.+.|+. .-+|-.+|.++
T Consensus 616 ~GiL~Ti~Til~s~e~~p~--vl~~le~~~l~vi~~iL~~~i~---dfyeE~~ei~~~~t~~~~~I---sp~mW~ll~li 687 (1010)
T KOG1991|consen 616 SGILRTISTILLSLENHPE--VLKQLEPIVLPVIGFILKNDIT---DFYEELLEIVSSLTFLSKEI---SPIMWGLLELI 687 (1010)
T ss_pred HHHHHHHHHHHHHHhccHH--HHHHHHHHHHHHHHHHHHHhhH---HHHHHHHHHHhhhhhhhccc---CHHHHHHHHHH
Confidence 3467788888888888653 2455556655555554444432 1233333 454444444442 24788888888
Q ss_pred HHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCC
Q 002385 111 VSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDV 190 (929)
Q Consensus 111 V~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~V 190 (929)
...|. +...-||..+.-.|.++-.+-.--+|-.-+--.++.+|.+..+..- +....=......||..||--+...
T Consensus 688 ~e~~~---~~~~dyf~d~~~~l~N~vt~g~~~~~s~~~y~~il~~i~~~~l~~e--~~~D~d~~~a~kLle~iiL~~kg~ 762 (1010)
T KOG1991|consen 688 LEVFQ---DDGIDYFTDMMPALHNYVTYGTPSLLSNPDYLQILLEIIKKVLTSE--NGEDSDCESACKLLEVIILNCKGL 762 (1010)
T ss_pred HHHHh---hhhHHHHHHHHHHHhhheeeCchhhhccchHHHHHHHHHHHHHcCC--CCchHHHHHHHHHHHHHHHHhcCc
Confidence 88886 3446688888888888766644433333333345555555555321 222222222334455555555553
Q ss_pred cHHH----HHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCCC
Q 002385 191 SWDL----LRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGIA 242 (929)
Q Consensus 191 P~eL----LDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi~ 242 (929)
..+. +.+.+..+... ......+.++-.|+-+|-.-=-.-.-++|...|..
T Consensus 763 ~dq~iplf~~~a~~~l~~~--~e~s~~~~~~leVvinalyynP~ltL~iLe~~~~~ 816 (1010)
T KOG1991|consen 763 LDQYIPLFLELALSRLTRE--VETSELRVMLLEVVINALYYNPKLTLGILENQGFL 816 (1010)
T ss_pred HhhHhHHHHHHHHHHHhcc--ccchHHHHHHHHHHHHHHHcCcHHHHHHHHHcCCc
Confidence 3333 34444444433 23445666777776666543222233444444444
No 110
>PRK14637 hypothetical protein; Provisional
Probab=21.91 E-value=1.4e+02 Score=30.67 Aligned_cols=32 Identities=25% Similarity=0.459 Sum_probs=26.3
Q ss_pred cccccccCCeEEEeeCCCCceEEEEEEEecCC
Q 002385 707 ALNEQLVGSRIKVWWPMDETFYKGVVDNYDPI 738 (929)
Q Consensus 707 ~~ge~lVG~RVkV~WP~D~~wY~G~V~syd~~ 738 (929)
..=...+|+.|+|.+...+.|+.|++..++..
T Consensus 91 ~~f~r~~G~~V~V~l~~~~~~~~G~L~~~~d~ 122 (151)
T PRK14637 91 AEFSIFVGETVKVWFECTGQWQVGTIAEADET 122 (151)
T ss_pred HHHHHhCCCEEEEEECCCCcEEEEEEEEEeCC
Confidence 33466799999998866778889999999874
No 111
>KOG2022 consensus Nuclear transport receptor LGL2 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.68 E-value=6.8e+02 Score=32.74 Aligned_cols=90 Identities=11% Similarity=0.178 Sum_probs=55.9
Q ss_pred cCCchHHHHHHHHHHHHH-hhcCCchhHHHHHHHHH--HHHhcccC-CCcHHHHHHHHHHhhccCCCCChhhHHHHHHHH
Q 002385 146 DLECDKLVVEMFQHFLKV-IRSNHPHFVFAAMETIM--TLVIDESE-DVSWDLLRILLASVRKENQDVSPTSWKLGEKVF 221 (929)
Q Consensus 146 DLe~ddLI~eLFktFF~i-Vr~~hp~kV~~~M~dIM--s~VIEESE-~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI 221 (929)
+..-.+-|..+|++.+++ ++.-.|+-+.++|..|- ..-+.|-. .|+ ..|..|+..+- +...+-.|-.--..+|
T Consensus 499 ~~t~~~~i~rl~~~~asik~S~~n~ql~~Tss~~igs~s~~l~e~P~~ln-~sl~~L~~~Lh--~sk~s~q~i~tl~tlC 575 (982)
T KOG2022|consen 499 GETESTWIPRLFETSASIKLSAPNPQLLSTSSDLIGSLSNWLGEHPMYLN-PSLPLLFQGLH--NSKESEQAISTLKTLC 575 (982)
T ss_pred CcchhHHHHHHHHhccccccccCChhHHHHHHHHHHHHHHHHhcCCcccC-chHHHHHHHhc--CchHHHHHHHHHHHHH
Confidence 334678899999999986 33234444555554432 22233322 343 34677777763 2233333334467899
Q ss_pred hhchHHHHHHHHHHHHh
Q 002385 222 TKCAAKLKTNLKEAVQS 238 (929)
Q Consensus 222 ~~CadKL~p~I~q~fnS 238 (929)
+.|...|.||+.+|++-
T Consensus 576 ~~C~~~L~py~d~~~a~ 592 (982)
T KOG2022|consen 576 ETCPESLDPYADQFSAV 592 (982)
T ss_pred HhhhhhCchHHHHHHHH
Confidence 99999999999988774
No 112
>PF14868 DUF4487: Domain of unknown function (DUF4487)
Probab=21.68 E-value=6.2e+02 Score=31.30 Aligned_cols=123 Identities=15% Similarity=0.174 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHH---hcccCCCCCcchHHHHHHH-HHhhhhceeeeeccCCchHHHHHHHHHHHHHhhc-----C-Cchh
Q 002385 102 LMKEFFQLAVSA---FENLSHASGRYYMKALSIL-DTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRS-----N-HPHF 171 (929)
Q Consensus 102 qLKDIFqLfV~q---f~~LaD~sSP~F~qy~yLL-EtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~-----~-hp~k 171 (929)
-..+|+...+.+ +.++.--+..-+.+-...| -.|+.+.+..-++|.....-|.+++..|...++. + +-..
T Consensus 377 ~~~~i~~~~~~~~~~~~~~~~~s~g~l~~~~~~LsalL~~c~~~~~~~d~~~~~~i~~ii~~lw~~~~~~~v~~~~~l~~ 456 (559)
T PF14868_consen 377 IVQEIFTLCFAFCQKWLSPSSCSLGELGQLNFALSALLQVCNSSGSTIDMKDQTFIVEIISQLWSFLSSKQVSSQPYLQQ 456 (559)
T ss_pred HHHHHHHHHHHHHHHhcccCCcCcchHhHHHHHHHHHHHHhcccccccCHHHHHHHHHHHHHHHHHhchhhhccchHHHH
Confidence 345555555554 4443333444555555555 5556667666666665666677777666665532 2 2245
Q ss_pred HHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHHHHHHHHhcCC
Q 002385 172 VFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTNLKEAVQSRGI 241 (929)
Q Consensus 172 V~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~I~q~fnS~Gi 241 (929)
+...+..|+..+|... .++++.-++.. +..-+...+.+.+++++.+|+.++|-
T Consensus 457 ~~~~lL~l~~~~~~~l---~~~~i~qv~~~--------------l~~l~~~~pp~~~kl~~~~FLs~lg~ 509 (559)
T PF14868_consen 457 TLSLLLSLLSFFIQLL---DPQLIEQVLTE--------------LTSLFKSEPPDHVKLALLDFLSSLGK 509 (559)
T ss_pred HHHHHHHHHHHHHHhc---ChHHHHHHHHH--------------HHHHHhhCCCccchHHHHHHHHHhcc
Confidence 6677777777776653 22323222222 22223466677799999999998764
No 113
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=21.50 E-value=67 Score=34.73 Aligned_cols=44 Identities=25% Similarity=0.463 Sum_probs=34.7
Q ss_pred cCCeEEEeeCCCCceEEEEEEEecCCCCeEEEEcC-CCcceeeec
Q 002385 713 VGSRIKVWWPMDETFYKGVVDNYDPIKKKHRILYA-DGDEEILNL 756 (929)
Q Consensus 713 VG~RVkV~WP~D~~wY~G~V~syd~~tkkH~V~YD-DGD~E~L~L 756 (929)
||-.++--|-.+.++|.|+|.+.+-......|+|= =|-.++++|
T Consensus 70 Vgdkc~A~Y~e~g~~ypatidsi~~~~~tcvv~ylgygnr~Ev~l 114 (218)
T KOG4327|consen 70 VGDKCSAIYSEDGCIYPATIDSIDFKRETCVVVYLGYGNREEVNL 114 (218)
T ss_pred ecceeeeeeecCcccccceecccccccCceEEEEEeecchhhhhH
Confidence 89999999999999999999999977777777764 334444444
No 114
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=21.29 E-value=1.9e+02 Score=28.93 Aligned_cols=39 Identities=15% Similarity=0.376 Sum_probs=29.0
Q ss_pred cCCeEEEeeCCCCceEEEEEEEecC-CCCeEEEEcCCCcc
Q 002385 713 VGSRIKVWWPMDETFYKGVVDNYDP-IKKKHRILYADGDE 751 (929)
Q Consensus 713 VG~RVkV~WP~D~~wY~G~V~syd~-~tkkH~V~YDDGD~ 751 (929)
.|.+|-=.||.=-+||.|+|.+--. ..+...+.++|.+.
T Consensus 74 ~g~~VLAlYP~TT~FY~A~V~~~p~~~~~~y~l~Fedd~~ 113 (130)
T PF07039_consen 74 KGTKVLALYPDTTCFYPATVVSPPKKKSGEYKLKFEDDED 113 (130)
T ss_dssp TT-EEEEE-TTSSEEEEEEEEEE-SSTTS-EEEEECTTTS
T ss_pred CCCEEEEECCCCceEEEEEEEeCCCCCCCcEEEEEeCCCC
Confidence 7999999999999999999999833 34678888875444
No 115
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=21.20 E-value=2.1e+02 Score=25.15 Aligned_cols=59 Identities=12% Similarity=0.104 Sum_probs=40.6
Q ss_pred HHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHhcccCCchhhHHhhHHHHHhhhhhhhccC
Q 002385 10 LEEQLKDAGNLLLNPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLPTMKGLITNDLLRR 72 (929)
Q Consensus 10 le~~l~~~G~kLisppiS~dELLKRLkkL~~eLs~vDQ~pvdS~~~SL~pl~k~LVs~~LLkH 72 (929)
..+.|..+|.+.--.|.+.+| +.+|-.+-.....-..+..+++.. .+..-|+++.||-.
T Consensus 3 a~~~l~~Fa~rAfRRp~~~~e-~~~~~~~~~~~~~~g~~~~~a~~~---~l~aiL~SP~FLY~ 61 (64)
T PF07637_consen 3 AREILRRFARRAFRRPLTDEE-VDRYLALYDSARAQGEDFEEALKE---ALQAILCSPSFLYR 61 (64)
T ss_pred HHHHHHHHHHHHhCCCCCHHH-HHHHHHHHHHHHHcCCCHHHHHHH---HHHHHHcCcchhcc
Confidence 456778889988889999999 777777766655544544444443 45556888888743
No 116
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=21.19 E-value=6.7e+02 Score=23.65 Aligned_cols=82 Identities=16% Similarity=0.134 Sum_probs=51.6
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccC-C--CcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHHHHHH
Q 002385 155 EMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESE-D--VSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAKLKTN 231 (929)
Q Consensus 155 eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE-~--VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadKL~p~ 231 (929)
+.|+..+.-+++..+. |+..=...|..+|.... . --..++++++.+|..++.=..-.|.+.-..++......+=+.
T Consensus 3 ~~~~~al~~L~dp~~P-vRa~gL~~L~~Li~~~~~~~~~~~~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~vl~~ 81 (92)
T PF10363_consen 3 ETLQEALSDLNDPLPP-VRAHGLVLLRKLIESKSEPVIDIPKILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDEVLPI 81 (92)
T ss_pred HHHHHHHHHccCCCcc-hHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHHHHHH
Confidence 5677777777766555 67777777888888776 2 223566777776665554445555555556666666655555
Q ss_pred HHHHHH
Q 002385 232 LKEAVQ 237 (929)
Q Consensus 232 I~q~fn 237 (929)
+++.+.
T Consensus 82 L~~~y~ 87 (92)
T PF10363_consen 82 LLDEYA 87 (92)
T ss_pred HHHHHh
Confidence 555544
No 117
>KOG4338 consensus Predicted lipoprotein [Lipid transport and metabolism]
Probab=21.17 E-value=5.5e+02 Score=35.42 Aligned_cols=154 Identities=9% Similarity=0.143 Sum_probs=91.3
Q ss_pred CCCChhHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHhhhhceeeeeccCCchHHHHHHHHHHHHHhhcCCchhHHHH
Q 002385 96 SPYDDELMKEFFQLAVSAFENLSHASGRYYMKALSILDTVAKVRSCLLMLDLECDKLVVEMFQHFLKVIRSNHPHFVFAA 175 (929)
Q Consensus 96 APYtDdqLKDIFqLfV~qf~~LaD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~ddLI~eLFktFF~iVr~~hp~kV~~~ 175 (929)
+|++...+.-..++|....+.+..+..+....+.+.|-.+-.+ +--+..+=+.++|++..++.....|+.++.+
T Consensus 335 pq~~e~~~~~kl~~l~s~a~~i~~~e~~~~~e~~~tla~~Vkl------~~e~s~dqLk~i~r~~ve~~~~~~~~~ir~i 408 (1680)
T KOG4338|consen 335 PQLTESTSEQKLDLLESIAEQIEETENNEPVETRHTLARLVKL------LREPSHDQLKKIYRLLVETCYVKAPEKIREL 408 (1680)
T ss_pred cccccchHHHHHHHHHHHHHHHhhhccccchhHHHHHHHHHHH------hccCCHHHHHHHHHHHHhhhhccchHHHHHH
Confidence 6777766666677777777777666666654555555544322 1223567788999888888888888888877
Q ss_pred HHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhch------HHHHHHHHHHHHhcCCCCchhHHH
Q 002385 176 METIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCA------AKLKTNLKEAVQSRGIALDDYAEI 249 (929)
Q Consensus 176 M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~Ca------dKL~p~I~q~fnS~Gi~ld~Y~eI 249 (929)
|..++. ++. ---.|+.|...+... +...| .+|.. |..|. ..++-.|.|++.+ ..+.++|.++
T Consensus 409 ~d~~l~-~~g-----Tk~ti~~~~~~v~~~-k~itP---~~as~-ik~lv~~pfps~~ia~~liQ~~es-f~~i~~d~~~ 476 (1680)
T KOG4338|consen 409 IDVALA-LAG-----TKNTIQHITHHVLNQ-KSITP---LEASR-IKLLVEMPFPSLTIAEALIQLLES-FHPISEDAEV 476 (1680)
T ss_pred HHHHHH-Hhh-----hhHHHHHHHHHHhhh-hhcch---hHhhh-hhhhhcCCCchHHHHHHHHHHHHh-hcccCcccHH
Confidence 766554 333 222334444333321 11222 12222 22222 3355556666665 3667778888
Q ss_pred HHHHhccCCCCCCCCCCC
Q 002385 250 VACICGSDDENPQHGHLI 267 (929)
Q Consensus 250 V~sI~q~~s~~l~~~~~~ 267 (929)
|-.-|=.+..++.++++.
T Consensus 477 lrQaa~l~a~t~V~~v~~ 494 (1680)
T KOG4338|consen 477 LRQAAWLAAGTAVRGVFC 494 (1680)
T ss_pred HHHHHHHhhchHhhhhhh
Confidence 877777777777776664
No 118
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=21.11 E-value=4.6e+02 Score=30.76 Aligned_cols=102 Identities=15% Similarity=0.240 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccCCCCChhhHHHHHHHHhhchHH-----
Q 002385 153 VVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKENQDVSPTSWKLGEKVFTKCAAK----- 227 (929)
Q Consensus 153 I~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~ks~~PaAy~LA~~VI~~CadK----- 227 (929)
+.-..+.|.++|..--|.+++..+..|+..|+..-..--..+.=-+|.+|-..--..+|+-|.+=..++.-|+.-
T Consensus 63 le~vlnsi~sLi~~~~~e~~e~~v~a~~ekva~q~n~~~~~l~L~vLsnLfn~~d~~~~aR~~Vy~~lv~la~~~~~~~~ 142 (378)
T KOG2753|consen 63 LECVLNSIVSLIKNAPPEKVEEMVKAICEKVAKQPNDKTASLRLQVLSNLFNGVDKPTPARYQVYMSLVTLAASCKLIEY 142 (378)
T ss_pred HHHHHHHHHHHHHhCCHHHhHHHHHHHHHHHhcCccCCCcccHHHHHHHHHhccCCCchHHHHHHHHHHHHHhhcceeee
Confidence 555666666666655589999999999999998766543333333334443333345567777666555555432
Q ss_pred HHH---HHHHHHHhcCCCCchhHHHHHHHh
Q 002385 228 LKT---NLKEAVQSRGIALDDYAEIVACIC 254 (929)
Q Consensus 228 L~p---~I~q~fnS~Gi~ld~Y~eIV~sI~ 254 (929)
|.| +|..+|+..+++..+-++++..|.
T Consensus 143 i~~~lk~~~~~lkew~~~vedqrel~r~v~ 172 (378)
T KOG2753|consen 143 IVPNLKQLDDWLKEWNISVEDQRELLRAVH 172 (378)
T ss_pred ecccHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence 222 477889999999877666665553
No 119
>cd07958 Anticodon_Ia_Leu_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes bacterial and eukaryotic mitochondrial members, as well as LeuRS from the archaeal Halobacteria. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=20.72 E-value=1.9e+02 Score=26.15 Aligned_cols=29 Identities=17% Similarity=0.164 Sum_probs=24.1
Q ss_pred eehhhhHHHHHHhhhcCCCCCCChhHHHH
Q 002385 77 VRLSVTSCISEITRITAPDSPYDDELMKE 105 (929)
Q Consensus 77 VRlyVAcCLADILRIyAPDAPYtDdqLKD 105 (929)
+...+.-||..++++.+|=.|+..++|-+
T Consensus 87 ~~~~~~~~l~~~~~lL~P~~P~~aeei~~ 115 (117)
T cd07958 87 HAAVLREALETLVLLLAPFAPHIAEELWE 115 (117)
T ss_pred hHHHHHHHHHHHHHHHcccchHHHHHHHh
Confidence 56677788999999999999999887644
No 120
>PF14675 FANCI_S1: FANCI solenoid 1; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=20.62 E-value=3.2e+02 Score=29.75 Aligned_cols=146 Identities=16% Similarity=0.195 Sum_probs=66.9
Q ss_pred HHHHhhhcCCCCC-CChhHHHHHHHHHHHHhcccCCCCCcc---hHHHHHHHHHhhhhceeeeecc-CCchHHHHHHHHH
Q 002385 85 ISEITRITAPDSP-YDDELMKEFFQLAVSAFENLSHASGRY---YMKALSILDTVAKVRSCLLMLD-LECDKLVVEMFQH 159 (929)
Q Consensus 85 LADILRIyAPDAP-YtDdqLKDIFqLfV~qf~~LaD~sSP~---F~qy~yLLEtLAeVKS~VLMlD-Le~ddLI~eLFkt 159 (929)
..||+-+...|.| |+..+|-+|-.+|++.|+.=....... |++.+.+ |+.-..+..+-. +...+.-..+.+.
T Consensus 26 ~~dii~~L~~El~~lp~~~Lv~l~~~~v~~i~~g~~~~~~~ldLlP~~Ls~---L~~~~~i~~~~~~~sG~eyK~~iI~~ 102 (223)
T PF14675_consen 26 ASDIIGRLMLELHSLPGEHLVELAELCVDSIRSGDNKNGKWLDLLPKCLSA---LSASESINYNGGELSGEEYKKQIINS 102 (223)
T ss_dssp HHHHHHHHHHHGGG--HHHHHHHHHHHHHHHHS---S-STTTTHHHHHHHH---HHT-S--SSSS----HHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHH---HhcCcccccccccccchHHHHHHHHH
Confidence 3444444445544 345799999999999998533333333 4444444 444343333222 1233333333333
Q ss_pred HHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhccC-CCCChhhHHHHHHHHhhch-HHHHHHHHHHHH
Q 002385 160 FLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKEN-QDVSPTSWKLGEKVFTKCA-AKLKTNLKEAVQ 237 (929)
Q Consensus 160 FF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~~-ks~~PaAy~LA~~VI~~Ca-dKL~p~I~q~fn 237 (929)
++ +..+|......|..++..|--..+.+. .++.-++..|..=+ ++-.|..|+|-. ++.+.. ..+=--|+.||+
T Consensus 103 lc---~~~W~~~~l~~l~~mfrd~~Ls~~e~~-~vv~Kv~~~l~~l~l~elPpLvyQLL~-Lsskg~k~~vL~gl~~~F~ 177 (223)
T PF14675_consen 103 LC---SSRWPPQILIQLASMFRDVPLSKEELE-FVVEKVLSMLKKLDLQELPPLVYQLLL-LSSKGSKKLVLEGLIKYFN 177 (223)
T ss_dssp HH---HS---TTTHHHHHHHGGGS---HHHHH-HHHHHHHHHHTTS-GGGHHHHHHHHHH-HHTTTTHHHHHHHHHHHHH
T ss_pred HH---hCcCcHHHHHHHHHHHhcCCCCHHHHH-HHHHHHHHHHhcCChhhccHHHHHHHH-HhhcccHHHHHHHHHHHHH
Confidence 33 456777776666665554332222221 34455555554433 334667787763 444433 334445777777
Q ss_pred h
Q 002385 238 S 238 (929)
Q Consensus 238 S 238 (929)
.
T Consensus 178 ~ 178 (223)
T PF14675_consen 178 R 178 (223)
T ss_dssp H
T ss_pred H
Confidence 5
No 121
>PF12825 DUF3818: Domain of unknown function in PX-proteins (DUF3818); InterPro: IPR024554 The function of this domain is not known, but it is almost always found C-terminal to a PX-domain (IPR001683 from INTERPRO).
Probab=20.57 E-value=9.3e+02 Score=27.93 Aligned_cols=80 Identities=15% Similarity=0.247 Sum_probs=46.8
Q ss_pred HHHhhhcCCCCCCChhHHHHHHHHHH---HHhccc------CCCCCcchHHHHHHHHHhhhhceeeeeccCCch----HH
Q 002385 86 SEITRITAPDSPYDDELMKEFFQLAV---SAFENL------SHASGRYYMKALSILDTVAKVRSCLLMLDLECD----KL 152 (929)
Q Consensus 86 ADILRIyAPDAPYtDdqLKDIFqLfV---~qf~~L------aD~sSP~F~qy~yLLEtLAeVKS~VLMlDLe~d----dL 152 (929)
+=|||=..+.+..+.+++..|+.--. ...... .+.+.-+|....-+|..+...|==-+|..|=|+ +|
T Consensus 160 ~~IL~~~~~~p~L~~~~~~~v~~sy~~~~~~~~~~~~~~~~~~~~a~lf~~lk~yl~l~~r~RDk~~~~~l~~e~~~~ql 239 (341)
T PF12825_consen 160 VAILRSSDIEPKLSPEQLQRVLESYKAWKNAVESVPDDDGEENEDAWLFSDLKEYLKLYLRKRDKEQMIQLWCEPELTQL 239 (341)
T ss_pred HHHHhCCCCCCCCCHHHHHHHHHHHHHHHHhhhccccCCCccchhhHHHHHHHHHHHHHHHHhhHHHHHHHHcChhHHHH
Confidence 44788887777788888888776443 333222 223344666666666666666544444444344 55
Q ss_pred HHHHHHHHHHHhh
Q 002385 153 VVEMFQHFLKVIR 165 (929)
Q Consensus 153 I~eLFktFF~iVr 165 (929)
|.++|..||..+.
T Consensus 240 lkd~v~ifYepl~ 252 (341)
T PF12825_consen 240 LKDLVTIFYEPLV 252 (341)
T ss_pred HHHHHHHHHHHHH
Confidence 6666666666433
No 122
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.45 E-value=3e+02 Score=35.96 Aligned_cols=55 Identities=20% Similarity=0.269 Sum_probs=33.6
Q ss_pred CCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHHHHHH--hcccCCCCCcchHHHHHHHHHhhh
Q 002385 73 SDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQLAVSA--FENLSHASGRYYMKALSILDTVAK 137 (929)
Q Consensus 73 KDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqLfV~q--f~~LaD~sSP~F~qy~yLLEtLAe 137 (929)
+|--.|++.+.| ++|+= .+|| +++++.|+-+ |+.+.++.+-.-.|..++|-.++.
T Consensus 435 kdGAL~~vgsl~--~~L~K---~s~~-----~~~mE~flv~hVfP~f~s~~g~Lrarac~vl~~~~~ 491 (1010)
T KOG1991|consen 435 KDGALRMVGSLA--SILLK---KSPY-----KSQMEYFLVNHVFPEFQSPYGYLRARACWVLSQFSS 491 (1010)
T ss_pred hhhHHHHHHHHH--HHHcc---CCch-----HHHHHHHHHHHhhHhhcCchhHHHHHHHHHHHHHHh
Confidence 344445555555 66653 3444 6677777776 777776666556666777666664
No 123
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=20.23 E-value=1.9e+03 Score=28.11 Aligned_cols=86 Identities=22% Similarity=0.185 Sum_probs=58.1
Q ss_pred HHHHHHHHhhhhceeeeeccCC-chHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHhcccCCCcHHHHHHHHHHhhcc
Q 002385 127 KALSILDTVAKVRSCLLMLDLE-CDKLVVEMFQHFLKVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRILLASVRKE 205 (929)
Q Consensus 127 qy~yLLEtLAeVKS~VLMlDLe-~ddLI~eLFktFF~iVr~~hp~kV~~~M~dIMs~VIEESE~VP~eLLDvIL~~Ll~~ 205 (929)
+-+.+|.++-. -.|-|.+ ..+|+...|.|++..+-. --++|+.-...|+..|.+-...|...|...|+..|.+.
T Consensus 66 Ril~fl~~f~~----Y~~~~dpeg~~~V~~~~~h~lRg~es-kdk~VR~r~lqila~~~d~v~eIDe~l~N~L~ekl~~R 140 (885)
T COG5218 66 RILSFLKRFFE----YDMPDDPEGEELVAGTFYHLLRGTES-KDKKVRKRSLQILALLSDVVREIDEVLANGLLEKLSER 140 (885)
T ss_pred HHHHHHHHHHH----hcCCCChhhhHHHHHHHHHHHhcccC-cchhHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Confidence 34455555443 3566666 589999999988875432 34678888889998888877777777777777777655
Q ss_pred CCCCChhhHHHH
Q 002385 206 NQDVSPTSWKLG 217 (929)
Q Consensus 206 ~ks~~PaAy~LA 217 (929)
--+..|+-+.=|
T Consensus 141 ~~DRE~~VR~eA 152 (885)
T COG5218 141 LFDREKAVRREA 152 (885)
T ss_pred HhcchHHHHHHH
Confidence 444445544444
No 124
>KOG2344 consensus Exocyst component protein and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.21 E-value=1.6e+02 Score=36.36 Aligned_cols=34 Identities=12% Similarity=0.060 Sum_probs=28.8
Q ss_pred HhhchHHHHHHHHHHHHhcCCCCchhHHHHHHHhccCC
Q 002385 221 FTKCAAKLKTNLKEAVQSRGIALDDYAEIVACICGSDD 258 (929)
Q Consensus 221 I~~CadKL~p~I~q~fnS~Gi~ld~Y~eIV~sI~q~~s 258 (929)
..-....|.+|+++|++.+. +|.++|..|++..+
T Consensus 382 ~gG~VHpLTryvmnyl~~L~----dy~~tL~~il~~~~ 415 (623)
T KOG2344|consen 382 PGGGVHPLTRYVMNYLNFLA----DYKDTLEQLLMEDP 415 (623)
T ss_pred CCCCcChhHHHHHHHHHHHH----HHHHHHHHHHhccc
Confidence 45566789999999999752 99999999999876
No 125
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=20.15 E-value=4.5e+02 Score=32.82 Aligned_cols=74 Identities=12% Similarity=0.121 Sum_probs=34.3
Q ss_pred HHHHHHHhhhh-ceeeeeccCCchH---HHHHHHHHHHHHhhcC-CchhHHHHHHHHHHHHhc-ccCCCcHHHHHHHHHH
Q 002385 128 ALSILDTVAKV-RSCLLMLDLECDK---LVVEMFQHFLKVIRSN-HPHFVFAAMETIMTLVID-ESEDVSWDLLRILLAS 201 (929)
Q Consensus 128 y~yLLEtLAeV-KS~VLMlDLe~dd---LI~eLFktFF~iVr~~-hp~kV~~~M~dIMs~VIE-ESE~VP~eLLDvIL~~ 201 (929)
.|+|+..+.+- +.+|+..|....+ |...|..-|-..+.-. .+..... +..||..... ..=.|+.++++.|+.+
T Consensus 399 LF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~Et-R~aIL~kka~~r~l~l~~eVi~yLa~r 477 (617)
T PRK14086 399 FFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELET-RIAILRKKAVQEQLNAPPEVLEFIASR 477 (617)
T ss_pred HHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHH-HHHHHHHHHHhcCCCCCHHHHHHHHHh
Confidence 45666666553 5666777775322 2233443333322111 2233332 2333333333 2334667777766665
Q ss_pred h
Q 002385 202 V 202 (929)
Q Consensus 202 L 202 (929)
+
T Consensus 478 ~ 478 (617)
T PRK14086 478 I 478 (617)
T ss_pred c
Confidence 5
No 126
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=20.09 E-value=1.9e+02 Score=25.60 Aligned_cols=61 Identities=15% Similarity=0.136 Sum_probs=34.9
Q ss_pred hccCCCcCeehhhhHHHHHHhhhcCCCCCCChhHHHHHHHH-HHHH-hcccCCCCCcchHHHHHHHHHhh
Q 002385 69 LLRRSDMDVRLSVTSCISEITRITAPDSPYDDELMKEFFQL-AVSA-FENLSHASGRYYMKALSILDTVA 136 (929)
Q Consensus 69 LLkHKDkdVRlyVAcCLADILRIyAPDAPYtDdqLKDIFqL-fV~q-f~~LaD~sSP~F~qy~yLLEtLA 136 (929)
+|.+.|..|+..++-||..|.+-.. .....+... ++.. +..|.+.+.........+|.+|+
T Consensus 57 ~l~~~~~~v~~~a~~~L~~l~~~~~-------~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l~ 119 (120)
T cd00020 57 LLKSEDEEVVKAALWALRNLAAGPE-------DNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNLA 119 (120)
T ss_pred HHhCCCHHHHHHHHHHHHHHccCcH-------HHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence 5667899999999999999976431 111112211 2332 22334444445555666766664
Done!