Query 000622
Match_columns 1386
No_of_seqs 201 out of 510
Neff 3.1
Searched_HMMs 46136
Date Mon Apr 1 21:01:02 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000622.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000622hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1904 Transcription coactiva 99.9 1.5E-23 3.4E-28 242.2 15.3 235 19-416 10-244 (496)
2 PF12243 CTK3: CTD kinase subu 99.9 1.3E-23 2.7E-28 210.6 9.9 130 859-991 5-136 (139)
3 cd05834 HDGF_related The PWWP 99.9 7.7E-23 1.7E-27 189.0 8.3 81 21-106 2-82 (83)
4 cd05836 N_Pac_NP60 The PWWP do 99.9 1.9E-22 4.1E-27 187.4 8.1 84 22-108 1-86 (86)
5 cd05840 SPBC215_ISWI_like The 99.8 1.5E-21 3.2E-26 184.0 8.7 85 22-106 1-92 (93)
6 cd05835 Dnmt3b_related The PWW 99.8 1.9E-21 4.1E-26 180.6 8.0 85 22-107 1-86 (87)
7 cd05838 WHSC1_related The PWWP 99.8 4.5E-21 9.8E-26 180.9 8.4 88 22-110 1-94 (95)
8 cd05162 PWWP The PWWP domain, 99.8 1.2E-20 2.5E-25 173.0 9.3 82 22-106 1-86 (87)
9 PF00855 PWWP: PWWP domain; I 99.8 6.1E-21 1.3E-25 172.2 5.1 85 22-107 1-86 (86)
10 cd05841 BS69_related The PWWP 99.8 1.4E-20 3.1E-25 175.0 7.2 78 20-107 5-83 (83)
11 smart00293 PWWP domain with co 99.7 6.6E-18 1.4E-22 148.3 6.7 58 22-79 1-63 (63)
12 cd05837 MSH6_like The PWWP dom 99.7 1.3E-17 2.9E-22 161.0 9.1 90 21-110 2-105 (110)
13 smart00582 RPR domain present 99.7 2.1E-17 4.6E-22 158.0 8.0 115 863-986 1-119 (121)
14 cd06080 MUM1_like Mutated mela 99.6 4.5E-16 9.8E-21 144.3 7.7 76 22-105 1-77 (80)
15 KOG0151 Predicted splicing reg 99.6 1.4E-15 3.1E-20 179.1 7.5 127 858-986 430-565 (877)
16 cd05839 BR140_related The PWWP 99.6 2.5E-15 5.4E-20 146.7 6.9 85 22-106 1-110 (111)
17 cd03562 CID CID (CTD-Interacti 99.1 2.1E-10 4.5E-15 109.7 7.1 108 864-980 4-114 (114)
18 KOG1924 RhoA GTPase effector D 98.9 2.5E-09 5.5E-14 128.3 9.4 89 858-968 331-427 (1102)
19 KOG1924 RhoA GTPase effector D 98.8 1.3E-08 2.8E-13 122.5 10.6 49 893-948 383-436 (1102)
20 PF04818 CTD_bind: RNA polymer 98.7 5.1E-09 1.1E-13 92.0 1.3 64 914-979 1-64 (64)
21 KOG2669 Regulator of nuclear m 98.2 3.8E-06 8.2E-11 95.3 10.0 125 861-991 6-130 (325)
22 KOG1081 Transcription factor N 96.9 0.00047 1E-08 82.0 2.5 91 20-115 134-224 (463)
23 PHA03247 large tegument protei 96.5 0.06 1.3E-06 73.7 17.0 8 916-923 2396-2403(3151)
24 KOG1830 Wiskott Aldrich syndro 96.1 0.1 2.2E-06 61.9 14.8 17 863-879 36-52 (518)
25 KOG0132 RNA polymerase II C-te 96.1 0.023 5E-07 70.7 9.9 118 861-988 4-133 (894)
26 KOG3671 Actin regulatory prote 95.7 0.11 2.3E-06 62.7 13.0 13 917-929 65-77 (569)
27 KOG4368 Predicted RNA binding 95.6 0.02 4.2E-07 69.5 6.3 111 872-986 116-230 (757)
28 KOG0132 RNA polymerase II C-te 95.6 0.78 1.7E-05 58.0 19.8 81 901-981 392-486 (894)
29 KOG3671 Actin regulatory prote 94.3 0.59 1.3E-05 56.7 13.5 16 897-912 81-96 (569)
30 KOG4849 mRNA cleavage factor I 92.7 1.7 3.8E-05 51.0 13.5 28 943-970 55-87 (498)
31 KOG1923 Rac1 GTPase effector F 90.9 0.76 1.6E-05 58.0 8.7 54 973-1029 165-220 (830)
32 smart00333 TUDOR Tudor domain. 90.1 0.41 8.8E-06 40.9 4.0 53 21-79 2-54 (57)
33 KOG1830 Wiskott Aldrich syndro 90.0 3.6 7.7E-05 49.6 12.6 11 1027-1037 224-234 (518)
34 COG5178 PRP8 U5 snRNP spliceos 88.4 0.31 6.7E-06 63.0 2.9 18 1132-1149 10-27 (2365)
35 KOG1923 Rac1 GTPase effector F 88.3 1.8 4E-05 54.8 9.2 14 1085-1100 238-251 (830)
36 smart00743 Agenet Tudor-like d 88.2 0.61 1.3E-05 40.9 3.8 51 21-77 2-55 (61)
37 KOG0119 Splicing factor 1/bran 87.9 6.9 0.00015 48.1 13.2 13 1237-1249 497-509 (554)
38 PRK15319 AIDA autotransporter- 85.5 1.1 2.4E-05 61.1 5.6 67 281-350 441-515 (2039)
39 KOG4849 mRNA cleavage factor I 85.3 9.8 0.00021 45.2 12.3 7 1256-1262 341-347 (498)
40 KOG4672 Uncharacterized conser 84.7 13 0.00029 44.9 13.2 24 1013-1036 171-207 (487)
41 KOG4672 Uncharacterized conser 81.9 36 0.00079 41.4 15.2 28 846-877 8-35 (487)
42 KOG2071 mRNA cleavage and poly 81.6 3 6.6E-05 51.8 6.8 105 860-973 5-110 (579)
43 COG5178 PRP8 U5 snRNP spliceos 79.4 1.4 3E-05 57.6 3.1 28 1130-1157 4-32 (2365)
44 cd04508 TUDOR Tudor domains ar 78.8 2.1 4.7E-05 35.5 3.1 47 25-77 1-48 (48)
45 cd03561 VHS VHS domain family; 75.7 2.9 6.3E-05 42.3 3.7 88 887-977 26-115 (133)
46 PRK09752 adhesin; Provisional 75.2 2.5 5.3E-05 56.0 3.7 10 1350-1359 1122-1131(1250)
47 cd00197 VHS_ENTH_ANTH VHS, ENT 69.2 7.2 0.00016 38.1 4.5 77 892-973 33-114 (115)
48 PF15057 DUF4537: Domain of un 68.1 9.2 0.0002 39.0 5.2 59 19-80 53-114 (124)
49 PRK09752 adhesin; Provisional 67.5 4.4 9.6E-05 53.8 3.5 11 1039-1049 825-835 (1250)
50 KOG2675 Adenylate cyclase-asso 63.8 4.6 9.9E-05 48.9 2.4 39 935-973 52-100 (480)
51 KOG0119 Splicing factor 1/bran 63.3 59 0.0013 40.6 11.2 7 1086-1092 376-382 (554)
52 KOG0307 Vesicle coat complex C 63.2 2.8E+02 0.006 37.8 17.7 21 404-424 220-240 (1049)
53 PF11717 Tudor-knot: RNA bindi 62.9 6 0.00013 35.0 2.4 52 22-76 1-54 (55)
54 KOG1080 Histone H3 (Lys4) meth 62.7 3.4 7.4E-05 54.3 1.2 94 19-112 189-296 (1005)
55 PRK15319 AIDA autotransporter- 62.2 6.5 0.00014 54.3 3.6 7 1042-1048 1583-1589(2039)
56 KOG2236 Uncharacterized conser 60.1 19 0.00041 44.2 6.5 8 1022-1029 248-255 (483)
57 PF04858 TH1: TH1 protein; In 56.1 76 0.0017 40.3 11.0 131 855-990 376-532 (584)
58 KOG0307 Vesicle coat complex C 55.6 3.8E+02 0.0082 36.6 17.1 24 967-990 619-644 (1049)
59 KOG4264 Nucleo-cytoplasmic pro 55.1 57 0.0012 40.9 9.3 20 1342-1361 657-676 (694)
60 PRK15313 autotransport protein 51.4 35 0.00076 45.1 7.3 10 1040-1049 474-483 (955)
61 KOG2893 Zn finger protein [Gen 49.3 2.9E+02 0.0062 32.2 12.9 17 1274-1291 226-242 (341)
62 PF12348 CLASP_N: CLASP N term 48.6 80 0.0017 33.7 8.4 116 860-975 92-211 (228)
63 PF08169 RBB1NT: RBB1NT (NUC16 48.5 39 0.00084 34.1 5.5 80 24-110 8-90 (96)
64 TIGR01628 PABP-1234 polyadenyl 46.6 72 0.0016 39.1 8.6 7 1041-1047 314-320 (562)
65 PF00790 VHS: VHS domain; Int 43.5 23 0.0005 36.2 3.3 110 863-976 5-120 (140)
66 PLN00104 MYST -like histone ac 37.6 28 0.00061 42.7 3.3 58 20-77 52-113 (450)
67 PF01213 CAP_N: Adenylate cycl 36.7 11 0.00025 43.9 0.0 11 858-868 43-53 (312)
68 PF12868 DUF3824: Domain of un 34.7 63 0.0014 34.2 4.9 20 1246-1265 101-120 (137)
69 smart00288 VHS Domain present 34.0 1.2E+02 0.0025 31.3 6.6 87 886-976 25-113 (133)
70 KOG2675 Adenylate cyclase-asso 33.2 31 0.00066 42.3 2.7 9 861-869 50-58 (480)
71 KOG0260 RNA polymerase II, lar 32.0 7.3E+02 0.016 34.8 14.3 20 963-982 1174-1193(1605)
72 cd03567 VHS_GGA VHS domain fam 30.8 75 0.0016 33.3 4.7 78 893-975 35-117 (139)
73 PF06793 UPF0262: Uncharacteri 30.6 45 0.00097 36.1 3.1 44 863-906 84-134 (158)
74 PRK02853 hypothetical protein; 29.5 70 0.0015 34.8 4.3 44 863-906 87-137 (161)
75 KOG2391 Vacuolar sorting prote 28.9 91 0.002 37.5 5.4 16 1020-1037 56-71 (365)
76 cd06224 REM Guanine nucleotide 28.8 1E+02 0.0022 29.8 4.9 31 958-988 63-96 (122)
77 KOG4590 Signal transduction pr 28.0 53 0.0012 40.1 3.5 15 1003-1017 38-53 (409)
78 PF06003 SMN: Survival motor n 27.5 55 0.0012 37.5 3.3 58 19-81 66-124 (264)
79 cd04370 BAH BAH, or Bromo Adja 27.2 68 0.0015 30.6 3.4 42 20-63 2-47 (123)
80 KOG1925 Rac1 GTPase effector F 26.8 80 0.0017 39.5 4.6 6 1144-1149 249-254 (817)
81 PF07793 DUF1631: Protein of u 25.8 2.6E+02 0.0057 35.8 9.1 138 857-997 450-600 (729)
82 KOG0260 RNA polymerase II, lar 25.1 1.3E+03 0.028 32.7 14.7 14 409-422 474-490 (1605)
83 cd03565 VHS_Tom1 VHS domain fa 23.4 1.2E+02 0.0025 31.8 4.6 81 892-975 34-116 (141)
84 KOG1922 Rho GTPase effector BN 23.0 1.1E+02 0.0024 39.7 5.2 46 1124-1169 315-371 (833)
85 PF00618 RasGEF_N: RasGEF N-te 22.7 4E+02 0.0086 25.5 7.7 20 959-978 70-89 (104)
86 PF03154 Atrophin-1: Atrophin- 22.7 2.2E+03 0.047 29.8 19.4 6 1053-1058 126-131 (982)
87 cd03568 VHS_STAM VHS domain fa 21.5 1.3E+02 0.0028 31.7 4.5 78 892-976 33-112 (144)
88 COG1157 FliI Flagellar biosynt 21.5 66 0.0014 39.6 2.7 41 915-955 253-304 (441)
89 PF10447 EXOSC1: Exosome compo 20.8 55 0.0012 31.9 1.5 14 19-32 66-79 (82)
90 cd03569 VHS_Hrs_Vps27p VHS dom 20.3 86 0.0019 32.8 2.9 108 863-976 4-116 (142)
No 1
>KOG1904 consensus Transcription coactivator [Transcription]
Probab=99.90 E-value=1.5e-23 Score=242.19 Aligned_cols=235 Identities=34% Similarity=0.465 Sum_probs=166.5
Q ss_pred cCCCccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHH
Q 000622 19 RRQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFV 98 (1386)
Q Consensus 19 ~~~Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~ 98 (1386)
...|++||||||||||||.|||+|.++..+..++..++|.||||||+++|||.+++|+||..++.. +..-.+...+.|+
T Consensus 10 ~~~~~~GDLV~AKlkgyp~WParI~~~~~~~~kp~pkky~V~FfGT~e~Afl~p~dlqpy~~~k~~-~g~~~k~~~k~F~ 88 (496)
T KOG1904|consen 10 AGNFKCGDLVFAKLKGYPPWPARIRNGPDGAVKPPPKKYTVFFFGTKETAFLKPKDLQPYMLNKEK-LGKPNKRVWKGFI 88 (496)
T ss_pred cCCCCCCceeeecccCCCCCcccccCcccccccCCCceeEEEEeccCcccccchhhccchhhhhhh-cccchhhhhHHHH
Confidence 368999999999999999999999999999889999999999999999999999999999998764 3311111348999
Q ss_pred HHHHHHHHHHHHHhhhcccCcCCCcccccccCCCCCCccccccccccchhhcccccCCCCCCCCCCCCCCCCCCCccccc
Q 000622 99 RAVQEIIDSYEKLKKQDQVDSNSGDELTVANGGNSVNSISHLKDRTEASEATLDSQMKPSNSTAGDGLNLPTEDSPAGRQ 178 (1386)
Q Consensus 99 eAVeEAee~~E~lK~qeQa~~~~a~e~~~a~~~~~~~s~~~~~~~t~~~~~~~~~~m~~~~~~~~~~~~~~~e~~~a~~~ 178 (1386)
+|+++|++++ +... .++.+.+. +. +..+.-+..
T Consensus 89 ~av~eI~~a~-----~np~-~~~~~~~~---------~~------------------------~~~~~~~~~-------- 121 (496)
T KOG1904|consen 89 EAVEEIREAF-----NNPK-SESDGIFF---------SA------------------------TATGRLLGP-------- 121 (496)
T ss_pred HHHHHHHHHh-----cCCC-ccccCccc---------cc------------------------ccccccccc--------
Confidence 9999999988 1100 11100000 00 000000000
Q ss_pred ccCCCCCCCCCCCCCcCcccccCCCccccccccccCCCccccccccCCccccccCcccchhhhhccccccccccCCCCCC
Q 000622 179 LDALPAKEPLPEQPSENLVAKATPVLTTYSSRKRSGGSRLQSTQRMAPSTRRSRSSTMVESCRLQNLMMPYNNEGKNAEG 258 (1386)
Q Consensus 179 ~~~~~~~~~~~~~p~en~~~~~~~~~~t~Ss~kr~~~~~~~~~~~r~~s~rrsrSs~~~~s~r~q~~~~p~~d~gk~~g~ 258 (1386)
+++ . +.+. ..+|.|++-
T Consensus 122 -----------------------~~~--------------------~-----------~~~~-------~~~~~~~~~-- 138 (496)
T KOG1904|consen 122 -----------------------ENL--------------------F-----------VASS-------VLNDTGNSE-- 138 (496)
T ss_pred -----------------------ccc--------------------c-----------cccc-------ccccccccc--
Confidence 010 0 0000 011233111
Q ss_pred CcccccccCceeccccccCCCCCCCCCccCccccccCCccCCCCCceeeeecCccccCCCCccCCCCCcccccchhhccc
Q 000622 259 ISAKSILDGSLIRNKRTRKSPDGSECNDLDSSALMSNGSIEDNSSEIVTVESDAFSLNEGSTVDSGCKVEDSETVLECLD 338 (1386)
Q Consensus 259 ~s~~~~~d~~~~~~k~~~~S~~~s~~ddv~Ss~~~~ngs~edn~sei~t~~sd~~slNegs~vds~~~~E~Se~~~~~~e 338 (1386)
...|..+.+.++|.+.++++. -+++..+|+..+.|.+...=+...
T Consensus 139 ----------------------------------~~~~~~~~~~s~~as~e~~~~-~~~~~~~~~~~~~d~~~~~d~~~~ 183 (496)
T KOG1904|consen 139 ----------------------------------GEPGADENNASEIATPESDNN-RPEGNGEDSSSKVDYSDSTDHFEL 183 (496)
T ss_pred ----------------------------------ccccccccccccccccccccc-CCccCccccccccccccccccccc
Confidence 223334444555666655554 677889999999998777666778
Q ss_pred cccccccccccceeeeeeecccCCCCcccccCCCCCccccCccccccccccccccCCcccCCCCCCCCCccCCCCCcc
Q 000622 339 GDEMLSKRLDFQIKAVVVKKKRKPNRKRVCNDAVDPPARINTATEVDVSTRNTCHSSENTGGNLDERDFKEDGDEHLP 416 (1386)
Q Consensus 339 ~e~~l~~~~d~~~k~vv~kkKRKPnrkr~tnd~~~p~~~~~~~~~l~~~~~~~~~~s~N~~~ns~e~~~k~DGDEHLP 416 (1386)
|..+|++++.++|.+.+.++|||..|||.|.+ +... ++.++|-..-+.++.++++|++|+|
T Consensus 184 ~~~el~~~~~~~~~~~~~r~~~kg~rkr~ts~-------------~~~~----~~~~~a~~~k~t~~~~~~~~s~krP 244 (496)
T KOG1904|consen 184 GGDELNKGKRKPIDTMVKRKKRKGTRKRKTSD-------------AEPK----VQRSQASHEKLTERPCESNGSEKRP 244 (496)
T ss_pred cchhhccccccccccccccccCcccccccccc-------------cccc----ccccccchhhccCCCcccccccccc
Confidence 89999999999999999999999999999888 1223 4477777888999999999999999
No 2
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=99.89 E-value=1.3e-23 Score=210.63 Aligned_cols=130 Identities=25% Similarity=0.422 Sum_probs=124.0
Q ss_pred HhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCC--CCCch
Q 000622 859 AALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGD--VSGII 936 (1386)
Q Consensus 859 ~ard~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~--~~~~Y 936 (1386)
-+|.+|.+||++|+++++||.+||+|||+| ++..++++++|+|.|+++ ++.+|+++||+||+|+++|+.. .+..|
T Consensus 5 E~r~~F~~~L~~L~aS~qSi~kaa~fAlk~--~~~~edL~~cIle~le~~-~lN~R~nI~~fID~l~e~~~~~~~~~~~Y 81 (139)
T PF12243_consen 5 EVRMQFTQLLRRLNASQQSIQKAAQFALKN--RDMEEDLWSCILEQLEKE-NLNTRINIFYFIDSLCESSQKSKKYNYPY 81 (139)
T ss_pred HHHHHHHHHHHHcchhHHHHHHHHHHHHHc--cccHHHHHHHHHHHHhcc-chhhHHHHHHHHHHHHHHHHhcccccchh
Confidence 367889999999999999999999999999 669999999999999997 9999999999999999999954 49999
Q ss_pred HHHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCchhHHhHhhhccc
Q 000622 937 PSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMRELD 991 (1386)
Q Consensus 937 ~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilpe~~lr~~~~ei~ 991 (1386)
...||..||+|+.+++|+|+.+++|+++|.|||+.|.+|++|.+.++++.++.|.
T Consensus 82 v~~l~~dL~~Iv~~V~P~~~~g~~N~~~~~kvL~~~~~k~~l~~~~~~~~~~~l~ 136 (139)
T PF12243_consen 82 VSMLQRDLPRIVDAVAPPDNSGAANLKSVRKVLKNWSKKKILDPEEYEEIEASLK 136 (139)
T ss_pred HHHHHHHHHHHHHHhCCCCCccchHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999998876
No 3
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.88 E-value=7.7e-23 Score=188.98 Aligned_cols=81 Identities=51% Similarity=0.835 Sum_probs=71.3
Q ss_pred CCccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHHH
Q 000622 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1386)
Q Consensus 21 ~Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~eA 100 (1386)
+|++||||||||+|||||||+|+++... +...++|+|+|||+++||||..++|+||++++. ++..+ .|.+.|++|
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~--~~~~~~~~V~FfGt~~~a~v~~~~l~pf~~~~~-~~~~~--~k~k~F~~A 76 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDW--KPPGKKYPVYFFGTHETAFLKPEDLFPYTENKK-KFGKP--KKRKGFNEA 76 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEeccccc--CCCCCEEEEEEeCCCCEeEECHHHceecccchh-hhccc--cchHHHHHH
Confidence 6999999999999999999999997764 455689999999999999999999999999865 35533 368899999
Q ss_pred HHHHHH
Q 000622 101 VQEIID 106 (1386)
Q Consensus 101 VeEAee 106 (1386)
|+||++
T Consensus 77 v~eie~ 82 (83)
T cd05834 77 VWEIEK 82 (83)
T ss_pred HHHHhh
Confidence 999986
No 4
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.87 E-value=1.9e-22 Score=187.37 Aligned_cols=84 Identities=36% Similarity=0.674 Sum_probs=70.6
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCCC--CCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYS--ADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVR 99 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K--~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~e 99 (1386)
|++||||||||+|||||||+|+++.....+ ...+.|+|+|||+++|+||..++|+||++++. .|. +..|.+.|++
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~~~~wv~~~~l~pF~~~~~-~~~--~~~k~~~F~~ 77 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSENHAWIKEENIKPYHEHKE-EMI--KLNKGARFQQ 77 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhhhcccccCCCCeEEEEEeCCCCEEEECHHhCeechhhHH-HHh--cccchHHHHH
Confidence 789999999999999999999996543222 22478999999999999999999999999876 354 2347889999
Q ss_pred HHHHHHHHH
Q 000622 100 AVQEIIDSY 108 (1386)
Q Consensus 100 AVeEAee~~ 108 (1386)
||+||++++
T Consensus 78 Av~~ie~~~ 86 (86)
T cd05836 78 AVDAIEEYI 86 (86)
T ss_pred HHHHHHHhC
Confidence 999999873
No 5
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.85 E-value=1.5e-21 Score=183.98 Aligned_cols=85 Identities=34% Similarity=0.543 Sum_probs=75.6
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC-------CCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCc
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-------SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRG 94 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~-------K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~ 94 (1386)
|++||||||||+|||||||+|++++..+. +...+.|+|+|||+++|+||..++|+||+++.+..|+.+.++|.
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg~~~~~Wv~~~~l~pl~~~~~~~~l~~~~~k~ 80 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFPDGDYYWVPNKDLKPLTEEKIAKFLKKPKRKD 80 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeCCCcEEEEChhhcccCCHHHHHHHhhcCCCCC
Confidence 78999999999999999999999765432 23467899999999999999999999999999988887777889
Q ss_pred HHHHHHHHHHHH
Q 000622 95 ADFVRAVQEIID 106 (1386)
Q Consensus 95 K~F~eAVeEAee 106 (1386)
+.|.+||+.|.+
T Consensus 81 k~l~~ay~~A~~ 92 (93)
T cd05840 81 KELIKAYKAAKD 92 (93)
T ss_pred HHHHHHHHHhcC
Confidence 999999999874
No 6
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.84 E-value=1.9e-21 Score=180.60 Aligned_cols=85 Identities=25% Similarity=0.388 Sum_probs=71.6
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC-CCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHHH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~-K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~eA 100 (1386)
|.+||||||||+|||||||+|+++..... ....++++|+|||+++|+||.+++|+||.++.+. |....+.|++.|++|
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~~a~v~~~~l~pf~e~~~~-f~~~~~~k~~~f~~A 79 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGTFSEVSVDKLSPFSEFFKA-FSRYNRKKKGLYKKA 79 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhcccccCCCCeEEEEEeCCCCEeEECHHHCcChhHhHHH-HhhhhhhhhHHHHHH
Confidence 78999999999999999999999755432 3456789999999999999999999999998763 433334468899999
Q ss_pred HHHHHHH
Q 000622 101 VQEIIDS 107 (1386)
Q Consensus 101 VeEAee~ 107 (1386)
|+||++.
T Consensus 80 i~eA~e~ 86 (87)
T cd05835 80 IYEALEV 86 (87)
T ss_pred HHHHHHc
Confidence 9999874
No 7
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.84 E-value=4.5e-21 Score=180.91 Aligned_cols=88 Identities=24% Similarity=0.374 Sum_probs=71.7
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC-----CCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhh-cCCCcH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-----SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTK-RQGRGA 95 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~-----K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnK-rkgK~K 95 (1386)
+.+||||||||+|||||||+|+++...+. +...+.|+|+|||+++|+||..++|+||+++... +..+ ++.+.+
T Consensus 1 ~~~GdlVWaK~~g~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ffgs~~y~Wv~~~~l~pf~e~~~~-~~~~~~~~~~~ 79 (95)
T cd05838 1 PLYGDIVWAKLGNFRWWPAIICDPREVPPNIQVLRHCIGEFCVMFFGTHDYYWVHRGRVFPYQEGDKG-FKEQTKSYLAK 79 (95)
T ss_pred CCcCCEEEEECCCCCCCCeEEcChhhcChhHhhccCCCCeEEEEEeCCCCEEEeccccccchhhhhhh-hhhhhhhhhHH
Confidence 46899999999999999999999765432 2345789999999999999999999999988653 2212 123678
Q ss_pred HHHHHHHHHHHHHHH
Q 000622 96 DFVRAVQEIIDSYEK 110 (1386)
Q Consensus 96 ~F~eAVeEAee~~E~ 110 (1386)
.|++||+||.++++.
T Consensus 80 ~f~~AleEA~~~~~~ 94 (95)
T cd05838 80 RFRKALEEASLAFKG 94 (95)
T ss_pred HHHHHHHHHHHHhhc
Confidence 999999999998764
No 8
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=99.83 E-value=1.2e-20 Score=173.01 Aligned_cols=82 Identities=39% Similarity=0.679 Sum_probs=70.9
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC----CCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY----SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADF 97 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~----K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F 97 (1386)
|++||||||||+|||||||+|+++..... +...+.|+|+|||+++|+||..++|+||.++.+. . .++.|.+.|
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~l~pf~~~~~~-~--~~~~k~~~f 77 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGDKTFAWVGAERLKPFTEHKES-E--AKQSKRKGF 77 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchhhhccCCCCEEEEEEeCCCcEEEeCccceeeccchHHh-h--ccCCccHHH
Confidence 78999999999999999999999776542 3445789999999999999999999999998875 2 234578999
Q ss_pred HHHHHHHHH
Q 000622 98 VRAVQEIID 106 (1386)
Q Consensus 98 ~eAVeEAee 106 (1386)
++||+||++
T Consensus 78 ~~A~~eA~~ 86 (87)
T cd05162 78 KKAYDEALE 86 (87)
T ss_pred HHHHHHHHh
Confidence 999999986
No 9
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=99.82 E-value=6.1e-21 Score=172.15 Aligned_cols=85 Identities=35% Similarity=0.677 Sum_probs=70.1
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC-CCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHHH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-SADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~-K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~eA 100 (1386)
|++||||||||+|||||||+|+++..... +...+.|+|+|||+++|+||..++|++|.+... .+..+.+.|.+.|++|
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~i~~f~~~~~-~~~~~~~~k~~~~~~A 79 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSKKKRKDGHVLVRFFGDNDYAWVKPSNIKPFSEFKE-KLKKKKKKKRKSFRKA 79 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTSCSSSSTEEEEEETTTTEEEEEEGGGEEECCHHHH-HHHHHHHHHSHHHHHH
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccccCCCCCEEEEEecCCCCEEEECHHHhhChhhhHH-HHHHhhccchHHHHHH
Confidence 78999999999999999999999764432 345678999999999999999999999996554 4554433467899999
Q ss_pred HHHHHHH
Q 000622 101 VQEIIDS 107 (1386)
Q Consensus 101 VeEAee~ 107 (1386)
|+||+++
T Consensus 80 i~eA~~~ 86 (86)
T PF00855_consen 80 IEEAEEA 86 (86)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 9999974
No 10
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.82 E-value=1.4e-20 Score=174.95 Aligned_cols=78 Identities=33% Similarity=0.495 Sum_probs=67.6
Q ss_pred CCCccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEec-CCCeeeecCCCccccchHHHHhhhhhcCCCcHHHH
Q 000622 20 RQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFG-TQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFV 98 (1386)
Q Consensus 20 ~~Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFG-ThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~ 98 (1386)
..+++||||||||+|||+|||+|+... .++|+|+||| ||++|||+.++|++|+++.. ++..++ |++.|+
T Consensus 5 pc~~p~dLVwAK~kGyp~WPAkV~~~~-------~~~~~V~FFG~t~~~a~v~~~~i~~~~~~~~-~~~~~~--k~~~f~ 74 (83)
T cd05841 5 PCRPPHELVWAKLKGFPYWPAKVMRVE-------DNQVDVRFFGGQHDRAWIPSNNIQPISTEIP-QQLVKK--RSRGFN 74 (83)
T ss_pred ccCCCCCEEEEeCCCCCCCCEEEeecC-------CCeEEEEEcCCCCCeEEEehHHeeehhhhhh-hhcccc--ccHHHH
Confidence 468999999999999999999999864 3899999999 99999999999999998865 344333 678999
Q ss_pred HHHHHHHHH
Q 000622 99 RAVQEIIDS 107 (1386)
Q Consensus 99 eAVeEAee~ 107 (1386)
+||+||+.+
T Consensus 75 ~A~~Eie~~ 83 (83)
T cd05841 75 KAMDELELH 83 (83)
T ss_pred HHHHHHHhC
Confidence 999999863
No 11
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=99.72 E-value=6.6e-18 Score=148.34 Aligned_cols=58 Identities=38% Similarity=0.592 Sum_probs=51.7
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC-----CCCCCeEEEEEecCCCeeeecCCCccccc
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY-----SADWKKVLVFFFGTQQIAFCNPADVEAFT 79 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~-----K~~~nkylV~FFGThEyAWV~pkdLkPFs 79 (1386)
|++||||||||+|||||||+|+++...+. +...+.|+|+|||+++||||..++|+||+
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~awv~~~~l~p~~ 63 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDTAWISSSKLFPLT 63 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCEEEECccceeeCC
Confidence 78999999999999999999999776542 34467899999999999999999999985
No 12
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=99.72 E-value=1.3e-17 Score=161.01 Aligned_cols=90 Identities=28% Similarity=0.431 Sum_probs=65.5
Q ss_pred CCccCCEEEEecCCCCCCCeeeeCCCCCC-------CCCCCCeEEEEEecC-CCeeeecCCCccccchHHHHh--hhhh-
Q 000622 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWG-------YSADWKKVLVFFFGT-QQIAFCNPADVEAFTEEKKQS--LLTK- 89 (1386)
Q Consensus 21 ~Fk~GDLVWAKMKGYPwWPArI~dPe~~~-------~K~~~nkylV~FFGT-hEyAWV~pkdLkPFsE~kkes--flnK- 89 (1386)
.|++||||||||+|||||||+|++....+ .+...+.|+|+|||+ ++||||..++|.||++.+... ...+
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~aWv~~~~l~pf~~~~~~~~~~~~~~ 81 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPERAWISEKSLKPFKGSKQFESEKGEKF 81 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCEEEecHHHccccCCchhhhhhhhhhh
Confidence 69999999999999999999999744332 134467899999997 599999999999999887532 1111
Q ss_pred --cCCC-cHHHHHHHHHHHHHHHH
Q 000622 90 --RQGR-GADFVRAVQEIIDSYEK 110 (1386)
Q Consensus 90 --rkgK-~K~F~eAVeEAee~~E~ 110 (1386)
.+.+ ++.+..|+.+|+...+.
T Consensus 82 ~~~K~~~~~~~~~a~~~~~~~~~~ 105 (110)
T cd05837 82 KVRKPNIKKARQKADIAIMQAEKA 105 (110)
T ss_pred hccCCcchhHHHHHHHHHHHHHHH
Confidence 1112 44666666666654333
No 13
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=99.70 E-value=2.1e-17 Score=157.96 Aligned_cols=115 Identities=30% Similarity=0.489 Sum_probs=98.2
Q ss_pred HHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHHH-
Q 000622 863 SFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAIL- 941 (1386)
Q Consensus 863 ~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~iq- 941 (1386)
+|+++|++|+.+|++|..+|.+|+++++ -+.++|++|.+++.+.+ ..+||.+|||+|||+|+|.+..+..|...+.
T Consensus 1 ~f~~~L~~L~~s~~~I~~lt~~~~~~~~--~a~~Iv~~i~~~~~~~~-~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~ 77 (121)
T smart00582 1 AFEQKLESLNNSQESIQTLTKWAIEHAS--HAKEIVELWEKYIKKAP-PPRKLPLLYLLDSIVQNSKRKYGSEFGDELGP 77 (121)
T ss_pred ChHHHHHhccccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhCC-ccceehhHHhHHHHHHHHhhccHHHHHHHHHH
Confidence 4999999999999999999999999999 66899999999998755 4799999999999999999776665655544
Q ss_pred ---HHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCchhHHhHh
Q 000622 942 ---TVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHH 986 (1386)
Q Consensus 942 ---a~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilpe~~lr~~ 986 (1386)
.+++.+...+ ..+.|++++|||.+|.+|+|||+.+|+.-
T Consensus 78 ~~~~~~~~~~~~~------~~~~~~ki~kll~iW~~~~iF~~~~i~~L 119 (121)
T smart00582 78 VFQDALRDVLGAA------NDETKKKIRRLLNIWEERGIFPPSVLRPL 119 (121)
T ss_pred HHHHHHHHHHHhC------CHHHHHHHHHHHHHHhcCCCCCHHHHHHh
Confidence 4455555433 27899999999999999999999999764
No 14
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.63 E-value=4.5e-16 Score=144.27 Aligned_cols=76 Identities=25% Similarity=0.348 Sum_probs=60.9
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCC-CeeeecCCCccccchHHHHhhhhhcCCCcHHHHHH
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQ-QIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGTh-EyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~eA 100 (1386)
|++||||||||+|||||||+|.++.. ..++|+|+|||++ +++|+..++|+||.++..... | ..+.+..+++
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~-----~~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~e--k-~~~~~k~ke~ 72 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISR-----KKQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTE--K-QKLTNKAKES 72 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecC-----CCCEEEEEEeCCCCceeccchhhcccccccHHHHH--H-HHHHHHHHHH
Confidence 78999999999999999999998643 2679999999999 999999999999998877421 1 1123456666
Q ss_pred HHHHH
Q 000622 101 VQEII 105 (1386)
Q Consensus 101 VeEAe 105 (1386)
|++|.
T Consensus 73 ~~~ai 77 (80)
T cd06080 73 YEQAI 77 (80)
T ss_pred HHHHh
Confidence 66654
No 15
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.58 E-value=1.4e-15 Score=179.08 Aligned_cols=127 Identities=23% Similarity=0.399 Sum_probs=116.7
Q ss_pred HHhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhh-cccccccceeeeeehhhhhhhccC--CCCC
Q 000622 858 HAALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLE-SESSLYRRVDLFFLVDSIMQCSRG--DVSG 934 (1386)
Q Consensus 858 ~~ard~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le-~Ess~~rRVdlffLvDSI~Q~s~g--~~~~ 934 (1386)
...||.||.||+.||-.|.+|+.||.|||+.|+ .|+||+|+|.+.|. +|+.++++|.+||||.+|+++|.. ..+.
T Consensus 430 d~qRdklE~liR~LTpEk~sIg~aM~FalenA~--aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv~nas 507 (877)
T KOG0151|consen 430 DLQRDKLEDLIRGLTPEKSSIGDAMVFALENAD--AAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARVANAS 507 (877)
T ss_pred hHHHHHHHHHHHhcCcccchHHHHHHHHHhhhh--hHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhhhHHH
Confidence 457899999999999999999999999999999 99999999999999 778999999999999999999995 3478
Q ss_pred chHHHHHHHHHHHhhccC-----CCCc-hhHHHHHHHHHHHHHHHhcccCchhHHhHh
Q 000622 935 IIPSAILTVLPRLLSAAA-----PPGN-VAQENRRQCLKVLRLWLERRILPESIIRHH 986 (1386)
Q Consensus 935 ~Y~~~iqa~LPrll~aaa-----PpG~-~a~enRrqclKVL~lW~eR~ilpe~~lr~~ 986 (1386)
+|+..+++-|++||.+.. ..|. .|..-.+.|+|||+.|.+|.|||+.+|-+-
T Consensus 508 ~YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~ifpe~~l~~l 565 (877)
T KOG0151|consen 508 AYRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWAIFPEDFLIGL 565 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 999999999999998775 7777 577889999999999999999999988653
No 16
>cd05839 BR140_related The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, BR140 is disrupted by chromosomal translocations, similar to translocations of WHSC1 in lymphoid multiple myeloma. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.57 E-value=2.5e-15 Score=146.65 Aligned_cols=85 Identities=21% Similarity=0.354 Sum_probs=63.2
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCC--------------------CCCCCeEEEEEecC-CCeeeecCCCccccch
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGY--------------------SADWKKVLVFFFGT-QQIAFCNPADVEAFTE 80 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~--------------------K~~~nkylV~FFGT-hEyAWV~pkdLkPFsE 80 (1386)
+.+||||||||+|||||||+|+++..... ....+.|+|.||++ .+|+||+.++|+||.+
T Consensus 1 ~~pg~lVwaK~~g~P~wPa~iidp~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~lV~FFd~~~s~~Wv~~~~l~pl~~ 80 (111)
T cd05839 1 LEPLTLVWAKCRGYPSYPALIIDPKMPRDGVFHNGVPPDVLTLGEARAQNADERLYLVLFFDNKRTWQWLPGDKLEPLGV 80 (111)
T ss_pred CCCcCEeeeeecCCCCCCeEeeCCCCCCcccccCCCCchhhhHHHHHhccCCCcEEEEEEecCCCcceecCHHHCccccc
Confidence 47899999999999999999999753110 12355799999997 7999999999999998
Q ss_pred HHHH---hhh-hhcCCCcHHHHHHHHHHHH
Q 000622 81 EKKQ---SLL-TKRQGRGADFVRAVQEIID 106 (1386)
Q Consensus 81 ~kke---sfl-nKrkgK~K~F~eAVeEAee 106 (1386)
.... ++. .++..+.+.++.||+.|.+
T Consensus 81 ~~~~D~~kl~~~rk~~~rk~~~~Ay~~Al~ 110 (111)
T cd05839 81 DETLDKLKLKEGRKPSIRKAVQKAYDDALS 110 (111)
T ss_pred chhhhhhhhhhccCHHHHHHHHHHHHHHhc
Confidence 6552 111 1222345677777777764
No 17
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=99.08 E-value=2.1e-10 Score=109.73 Aligned_cols=108 Identities=26% Similarity=0.441 Sum_probs=88.3
Q ss_pred HHHHhhhhhh---hhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHH
Q 000622 864 FEAVLGSLTR---TKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAI 940 (1386)
Q Consensus 864 Fe~mL~tLtr---tKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~i 940 (1386)
|...|+.|+- ++++|...|..|++..+ -|.++|++|.++|.+ ....+|+-+|||+|||+|++... |...+
T Consensus 4 ~~~~l~~L~~~~~S~~~I~~lt~~a~~~~~--~a~~iv~~i~~~i~~-~~~~~KL~~LYL~dsIvkn~~~~----~~~~~ 76 (114)
T cd03562 4 YNALLEKLTFNKNSQPSIQTLTKLAIENRK--HAKEIVEIIEKHIKK-CPPEQKLPLLYLLDSIVKNVGRK----YKEFF 76 (114)
T ss_pred HHHHHHHHHcCcccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHHHcccc----hHHHH
Confidence 5555555554 99999999999999998 889999999999976 55599999999999999998755 66677
Q ss_pred HHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCch
Q 000622 941 LTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPE 980 (1386)
Q Consensus 941 qa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilpe 980 (1386)
+..++.++.-+.- .....-|+...|||.+|.+|++|+.
T Consensus 77 ~~~~~~~f~~~~~--~~~~~~r~kl~rl~~iW~~~~~f~~ 114 (114)
T cd03562 77 SEFLVPLFLDAYE--KVDEKTRKKLERLLNIWEERFVFGS 114 (114)
T ss_pred HHHHHHHHHHHHH--hCCHHHHHHHHHHHHHccCCCCCCC
Confidence 7776665544432 3467788999999999999999973
No 18
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=98.92 E-value=2.5e-09 Score=128.34 Aligned_cols=89 Identities=17% Similarity=0.080 Sum_probs=55.4
Q ss_pred HHhhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhcc--------
Q 000622 858 HAALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSR-------- 929 (1386)
Q Consensus 858 ~~ard~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~-------- 929 (1386)
..+|+-...+|..||..+..|-....-.+|--+ ++=.+.|..||++=. +=.|...-|-+
T Consensus 331 E~mr~gL~~~l~~l~~i~n~~ldvqlkvfdE~~----e~Dl~el~~rledir---------~emDd~~~~f~lL~n~vkd 397 (1102)
T KOG1924|consen 331 EFMRDGLHKYLPDLTEINNDILDVQLKVFDEHK----EDDLEELSGRLEDIR---------AEMDDANEVFELLANTVKD 397 (1102)
T ss_pred HHHHHhHHHHHHHhhhhccHHHHHHHHHHhhhh----hhhHHHHHhHHHhhh---------hhhccHHHHHHHHHHhhhh
Confidence 457778888899998887777766666555433 344567777777422 22344333333
Q ss_pred CCCCCchHHHHHHHHHHHhhccCCCCchhHHHHHHHHHH
Q 000622 930 GDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKV 968 (1386)
Q Consensus 930 g~~~~~Y~~~iqa~LPrll~aaaPpG~~a~enRrqclKV 968 (1386)
.++-..+.+|+|++|= . +-.-+-|+|--|.
T Consensus 398 T~aE~yfLSILQhlll--i-------rnDy~~rpqYykL 427 (1102)
T KOG1924|consen 398 TGAEPYFLSILQHLLL--I-------RNDYYIRPQYYKL 427 (1102)
T ss_pred ccccchHHHHHHHHHH--H-------hhhhhhhHHHHHH
Confidence 3556788999998763 1 2344556776664
No 19
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=98.82 E-value=1.3e-08 Score=122.52 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=27.3
Q ss_pred chHHHHHHHHHHhhcccccccceeeeeehhhhhhhcc---C--CCCCchHHHHHHHHHHHh
Q 000622 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSR---G--DVSGIIPSAILTVLPRLL 948 (1386)
Q Consensus 893 ia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~---g--~~~~~Y~~~iqa~LPrll 948 (1386)
-+.+|+++|...++.- +-.-.|| ||+|.-- . -....|-.+|..++-.|+
T Consensus 383 d~~~~f~lL~n~vkdT-----~aE~yfL--SILQhlllirnDy~~rpqYykLIEecISqIv 436 (1102)
T KOG1924|consen 383 DANEVFELLANTVKDT-----GAEPYFL--SILQHLLLIRNDYYIRPQYYKLIEECISQIV 436 (1102)
T ss_pred cHHHHHHHHHHhhhhc-----cccchHH--HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Confidence 4557777777776631 1111233 6777544 1 124467777777776554
No 20
>PF04818 CTD_bind: RNA polymerase II-binding domain.; InterPro: IPR006903 This entry represents a conserved region found in a number of uncharacterised eukaryotic proteins.; PDB: 2L0I_A 2KM4_A 3D9I_B 3D9N_B 3D9O_A 3D9P_B 3D9K_A 3D9M_A 3D9J_A 3D9L_A ....
Probab=98.69 E-value=5.1e-09 Score=91.99 Aligned_cols=64 Identities=27% Similarity=0.471 Sum_probs=57.6
Q ss_pred ceeeeeehhhhhhhccCCCCCchHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCc
Q 000622 914 RVDLFFLVDSIMQCSRGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILP 979 (1386)
Q Consensus 914 RVdlffLvDSI~Q~s~g~~~~~Y~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilp 979 (1386)
|+.+|||+|+|+|+|+.+....|...++.+||.++..+...| ..+.|+++.|||++|.+|+||+
T Consensus 1 KL~~lYl~ndI~q~sk~k~~~~f~~~F~~~l~~~~~~~~~~~--~~~~~~kv~rll~iW~~r~if~ 64 (64)
T PF04818_consen 1 KLALLYLANDILQNSKRKNPDEFAPAFSPVLPDAFAHAYKNV--DPEVRKKVQRLLNIWEERNIFS 64 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHTTHCHHHHHHCCHHHHHHHHCCCS---HHHHHHHHHHHHHHHHCTSS-
T ss_pred CcceeehHHHHHHHhhhcChHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHhhCCCCCC
Confidence 678999999999999988666999999999999998887777 8999999999999999999996
No 21
>KOG2669 consensus Regulator of nuclear mRNA [RNA processing and modification]
Probab=98.24 E-value=3.8e-06 Score=95.26 Aligned_cols=125 Identities=18% Similarity=0.267 Sum_probs=101.1
Q ss_pred hHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHH
Q 000622 861 LSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAI 940 (1386)
Q Consensus 861 rd~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~i 940 (1386)
.++|+..|.+|.-|.|||.-.....|-.-+ =+..||++-.+-|.+.+.-+|++ ||||.-+|+|+| .+++.-|...+
T Consensus 6 ee~l~~kL~~L~~TQeSIqtlS~Wli~hkk--~a~~IV~~Wl~~~~~~~~~~Kl~-llYLaNDVvQns-krk~~ef~~ef 81 (325)
T KOG2669|consen 6 EEALEKKLAELSNTQESIQTLSLWLIHHKK--HARLIVDVWLKELKKSSVNHKLT-LLYLANDVVQNS-KRKGPEFVDEF 81 (325)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHHHhh--hhhHHHHHHHHHHhccCCCceee-ehhhhHHHHHHh-hhcCchhHHHH
Confidence 368999999999999999999999998777 55889999999999966666666 999999999999 88898888888
Q ss_pred HHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCchhHHhHhhhccc
Q 000622 941 LTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMRELD 991 (1386)
Q Consensus 941 qa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilpe~~lr~~~~ei~ 991 (1386)
..++.--++.++-.+... ......+|+++|.+|+||+..++-.-..-|.
T Consensus 82 ~~v~~~a~~~i~~~~~~~--~k~~l~Rl~nIw~eR~Vf~~~~~~~l~~~l~ 130 (325)
T KOG2669|consen 82 WPVVLKAFAHIVEETDVK--CKKKLGRLINIWEERNVFSPESLVDLEESLG 130 (325)
T ss_pred HHHHHHHHHHHHHhcchh--hhHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Confidence 877775554443332211 1445568999999999999999887666665
No 22
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=96.90 E-value=0.00047 Score=81.96 Aligned_cols=91 Identities=27% Similarity=0.428 Sum_probs=65.1
Q ss_pred CCCccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHH
Q 000622 20 RQWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVR 99 (1386)
Q Consensus 20 ~~Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~e 99 (1386)
..+..||+||-|+..|+||||+|+....+.. ..+..+|+|||. |+|+....+++| +.....++..-.++...+.+
T Consensus 134 ~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~~--~~~~~~~~f~~~--~~~~~~~~~~~~-~g~~~~~l~~~~~~~s~~~~ 208 (463)
T KOG1081|consen 134 KKREVGDLVWSKVGEYPWWPCMVCHDPLLPK--GMKHDHVNFFGC--YAWTHEKRVFPY-EGQSSKLIPHSKKPASTMSE 208 (463)
T ss_pred ccccceeEEeEEcCcccccccceecCcccch--hhccccceeccc--hhhHHHhhhhhc-cchHHHhhhhccccchhhhh
Confidence 4899999999999999999999999766541 111127999999 999999999999 33333344333334556777
Q ss_pred HHHHHHHHHHHHhhhc
Q 000622 100 AVQEIIDSYEKLKKQD 115 (1386)
Q Consensus 100 AVeEAee~~E~lK~qe 115 (1386)
++...+..+..++.|.
T Consensus 209 ~~~~~~~r~~~~~~q~ 224 (463)
T KOG1081|consen 209 KIKEAKARFGKLKAQW 224 (463)
T ss_pred hhhcccchhhhcccch
Confidence 7777766555555444
No 23
>PHA03247 large tegument protein UL36; Provisional
Probab=96.46 E-value=0.06 Score=73.68 Aligned_cols=8 Identities=38% Similarity=0.426 Sum_probs=4.5
Q ss_pred eeeeehhh
Q 000622 916 DLFFLVDS 923 (1386)
Q Consensus 916 dlffLvDS 923 (1386)
-.|+|||.
T Consensus 2396 PCLvlvD~ 2403 (3151)
T PHA03247 2396 PCLVLVDI 2403 (3151)
T ss_pred CeEEEEcC
Confidence 35666664
No 24
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=96.14 E-value=0.1 Score=61.87 Aligned_cols=17 Identities=29% Similarity=0.278 Sum_probs=11.3
Q ss_pred HHHHHhhhhhhhhhhHH
Q 000622 863 SFEAVLGSLTRTKESIG 879 (1386)
Q Consensus 863 ~Fe~mL~tLtrtKeSI~ 879 (1386)
...-.|..|+.--|.|+
T Consensus 36 niIRQLsSLSKhAEdIF 52 (518)
T KOG1830|consen 36 NIIRQLSSLSKHAEDIF 52 (518)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45557888877667663
No 25
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=96.10 E-value=0.023 Score=70.70 Aligned_cols=118 Identities=23% Similarity=0.384 Sum_probs=83.5
Q ss_pred hHHHHHHhhhhhh-----hhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhcc---CCC
Q 000622 861 LSSFEAVLGSLTR-----TKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSR---GDV 932 (1386)
Q Consensus 861 rd~Fe~mL~tLtr-----tKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~---g~~ 932 (1386)
..+|-+-|..|-- +|.-|...|-.||+.-| +-..||-.+ +++-+----.-||--||+||||.-.|+ |+.
T Consensus 4 v~~Fn~eL~SL~DsK~~IS~sKi~~ITkaAikaIk--~ykhVVqsV-eKfi~kCkpe~Kl~gLYVIDSIVRqsrhq~~~~ 80 (894)
T KOG0132|consen 4 VKEFNGELDSLEDSKPGISGSKILKITKAAIKAIK--LYKHVVQSV-EKFIKKCKPEYKLPGLYVIDSIVRQSRHQFGKE 80 (894)
T ss_pred HHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHHH--HHHHHHHHH-HHHHHhCCcccccCeeEEehHHHHHHHHhhccc
Confidence 3456666666543 44567888888888777 666666544 444433455568999999999999888 323
Q ss_pred ----CCchHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcccCchhHHhHhhh
Q 000622 933 ----SGIIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERRILPESIIRHHMR 988 (1386)
Q Consensus 933 ----~~~Y~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ilpe~~lr~~~~ 988 (1386)
+..+...|-+.+--|+ .-+.|..-..++||.||.+-+||.+.+|+.-.+
T Consensus 81 kd~F~prf~~n~~~tf~~L~-------~c~~edks~iIrvlNlwqkn~VfK~e~IqpLlD 133 (894)
T KOG0132|consen 81 KDVFGPRFSKNFTGTFQNLY-------ECPQEDKSDIIRVLNLWQKNNVFKSEIIQPLLD 133 (894)
T ss_pred ccccCCccchhHHHHHHHHH-------hcCHHHHHHHHHhhhhhhcccchhHHHHHHHHH
Confidence 4455555555555555 336788888899999999999999999998655
No 26
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=95.75 E-value=0.11 Score=62.70 Aligned_cols=13 Identities=31% Similarity=0.151 Sum_probs=10.7
Q ss_pred eeeehhhhhhhcc
Q 000622 917 LFFLVDSIMQCSR 929 (1386)
Q Consensus 917 lffLvDSI~Q~s~ 929 (1386)
.+-||++.+|.|.
T Consensus 65 al~lVkD~~~rsy 77 (569)
T KOG3671|consen 65 ALCLVKDNAQRSY 77 (569)
T ss_pred eEEEeecccccee
Confidence 3588999999888
No 27
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=95.58 E-value=0.02 Score=69.45 Aligned_cols=111 Identities=18% Similarity=0.322 Sum_probs=73.0
Q ss_pred hhhhhhHHHHHHHHHHhhcc-CchHHHHHHHHHHhhccc-ccccceeeeeehhhhhhhccCCCCCchHHHH-HHHHHHHh
Q 000622 872 TRTKESIGRATRIAIDCAKF-GVSSKVVEIVARHLESES-SLYRRVDLFFLVDSIMQCSRGDVSGIIPSAI-LTVLPRLL 948 (1386)
Q Consensus 872 trtKeSI~rATr~AidcAk~-Gia~~vveiL~~~Le~Es-s~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~i-qa~LPrll 948 (1386)
|-||+-|..|--.-+..||- -.++-+...|+.|+..|. .|..|+-|+|||.++++.|.-+..---..++ ..|+|..-
T Consensus 116 ~c~kd~is~~k~w~f~~~~s~~~~e~~~~~l~n~~~~~~~~~~lrlh~~ylind~~~hcqrk~~~~~~~~l~~~v~~~yc 195 (757)
T KOG4368|consen 116 TCTKDAISAGKNWMFSNAKSPPHCELMAGHLRNRITADGAHFELRLHLIYLINDVLHHCQRKQARELLAALQKVVVPIYC 195 (757)
T ss_pred HHhHHHHHHhhhhhhhcCCCchHHHHHHHHHHhhhcccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 55788888887777777774 334444566777888776 8999999999999999888744432222222 23333211
Q ss_pred hccCCCCchhHHHHHH-HHHHHHHHHhcccCchhHHhHh
Q 000622 949 SAAAPPGNVAQENRRQ-CLKVLRLWLERRILPESIIRHH 986 (1386)
Q Consensus 949 ~aaaPpG~~a~enRrq-clKVL~lW~eR~ilpe~~lr~~ 986 (1386)
..+ ..-.|...| .-|+|.+|++|..|-++||+.-
T Consensus 196 ~~~----~~~~e~~~~~~~~ll~~we~~~yf~ds~~~ql 230 (757)
T KOG4368|consen 196 TSF----LAVEEDKQQKIARLLQLWEKNGYFDDSIIQQL 230 (757)
T ss_pred hhh----hhhHhHHHHHHHHHHHHHhhcCchhHHHHHHh
Confidence 110 113344444 3499999999999999998753
No 28
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=95.58 E-value=0.78 Score=57.98 Aligned_cols=81 Identities=20% Similarity=0.200 Sum_probs=47.8
Q ss_pred HHHHhhcccccccceeee--eehhhhhhhccC-CCCCchHHHHHHHHHHHhhccCCC--------Cc---hhHHHHHHHH
Q 000622 901 VARHLESESSLYRRVDLF--FLVDSIMQCSRG-DVSGIIPSAILTVLPRLLSAAAPP--------GN---VAQENRRQCL 966 (1386)
Q Consensus 901 L~~~Le~Ess~~rRVdlf--fLvDSI~Q~s~g-~~~~~Y~~~iqa~LPrll~aaaPp--------G~---~a~enRrqcl 966 (1386)
|-+|-..|-...||+-.+ +=.|.|.-||+. -.|.+=+.+.|-.|.-+|+....- =. ---++|+.+-
T Consensus 392 ~~er~~re~ereRr~kglP~I~pd~isV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~ 471 (894)
T KOG0132|consen 392 LGERRDREHERERRKKGLPTIPPDHISVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAE 471 (894)
T ss_pred hcCcccCccccccccccCCCCCCcceeEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHH
Confidence 334444455666666554 335777778873 335555666677777766655411 11 1456788888
Q ss_pred HHHHHHHhcccCchh
Q 000622 967 KVLRLWLERRILPES 981 (1386)
Q Consensus 967 KVL~lW~eR~ilpe~ 981 (1386)
|||+--.+-++..-.
T Consensus 472 kalqkl~n~kv~~k~ 486 (894)
T KOG0132|consen 472 KALQKLSNVKVADKT 486 (894)
T ss_pred HHHHHHhccccccee
Confidence 988876665555443
No 29
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=94.26 E-value=0.59 Score=56.74 Aligned_cols=16 Identities=38% Similarity=0.600 Sum_probs=7.9
Q ss_pred HHHHHHHHhhcccccc
Q 000622 897 VVEIVARHLESESSLY 912 (1386)
Q Consensus 897 vveiL~~~Le~Ess~~ 912 (1386)
+|||+-+||-=|..||
T Consensus 81 l~di~~~rliWdqELY 96 (569)
T KOG3671|consen 81 LVDIVNNRLIWDQELY 96 (569)
T ss_pred EeeecCceeeehHHhh
Confidence 4555555554444333
No 30
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=92.72 E-value=1.7 Score=51.03 Aligned_cols=28 Identities=29% Similarity=0.458 Sum_probs=20.0
Q ss_pred HHHHHhhccCCCCc-----hhHHHHHHHHHHHH
Q 000622 943 VLPRLLSAAAPPGN-----VAQENRRQCLKVLR 970 (1386)
Q Consensus 943 ~LPrll~aaaPpG~-----~a~enRrqclKVL~ 970 (1386)
++|-|.+.-||.|. +..|.||-|+-|=.
T Consensus 55 ~~P~~~~~~~~~~~~~~~~~s~~Grk~~~YvGN 87 (498)
T KOG4849|consen 55 VSPTITTVTAPTAIGAKPATSSEGRKYCCYVGN 87 (498)
T ss_pred cCCCcccccccccccCCccccccCceEEEEecc
Confidence 77877777777776 35678888876644
No 31
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=90.86 E-value=0.76 Score=58.04 Aligned_cols=54 Identities=24% Similarity=0.156 Sum_probs=26.7
Q ss_pred HhcccCchhHHhHhhhcccccccCC--ccccccCCCcccccccCCccccccCceecccC
Q 000622 973 LERRILPESIIRHHMRELDTVTCSS--SAVAYSRRSSRTERALDDPVRDMEGMLVDEYG 1029 (1386)
Q Consensus 973 ~eR~ilpe~~lr~~~~ei~~~~~~~--~~~~~~rr~sr~era~~dpiRemegmlVDeyg 1029 (1386)
+||..=++..|.| ++.+++-..-. .+....+-.++ --.-+|++.|.+-++||-+
T Consensus 165 le~v~~~~~~ish-er~~~v~~~~~s~~A~l~~~s~sl--~~er~~~~~~~~~~~dels 220 (830)
T KOG1923|consen 165 LEFVETPADQISH-ERLQAVEMAQASAPAPLPGASSSL--NKEREPQSYQRKALLDELS 220 (830)
T ss_pred HHhhcchhhhhhH-HHHHHHHHHHhcCcccCchhhhhh--hhhhhHHHHHHHHhcchhH
Confidence 4555556666666 55444333221 11111111111 1123678888888888875
No 32
>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=90.07 E-value=0.41 Score=40.95 Aligned_cols=53 Identities=23% Similarity=0.290 Sum_probs=45.6
Q ss_pred CCccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccccc
Q 000622 21 QWKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFT 79 (1386)
Q Consensus 21 ~Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFs 79 (1386)
.|++|++|.|+...=-|..|+|..... .+.|.|+|....+..||...+|+++.
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~------~~~~~V~f~D~G~~~~v~~~~l~~l~ 54 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDG------EQLYEVFFIDYGNEEVVPPSDLRPLP 54 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECC------CCEEEEEEECCCccEEEeHHHeecCC
Confidence 589999999999656788999998642 27899999999999999999998865
No 33
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=90.00 E-value=3.6 Score=49.61 Aligned_cols=11 Identities=36% Similarity=0.450 Sum_probs=7.6
Q ss_pred ccCCCCceeeC
Q 000622 1027 EYGSNSSFQLP 1037 (1386)
Q Consensus 1027 eygsn~~f~lp 1037 (1386)
-||-|.-|+++
T Consensus 224 ~~g~~~v~~~~ 234 (518)
T KOG1830|consen 224 GNGPNSVFSTR 234 (518)
T ss_pred ccCCcccccCC
Confidence 47777777765
No 34
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=88.38 E-value=0.31 Score=63.00 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=9.3
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 000622 1132 QDVPPSSPPLPSSPPPVL 1149 (1386)
Q Consensus 1132 ~~pPP~ppp~p~~PPPPP 1149 (1386)
|||||||+..|++-||||
T Consensus 10 pppppppg~epps~pppP 27 (2365)
T COG5178 10 PPPPPPPGFEPPSQPPPP 27 (2365)
T ss_pred cccccCCCCCCCCCCCCc
Confidence 444555566665544444
No 35
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=88.29 E-value=1.8 Score=54.85 Aligned_cols=14 Identities=36% Similarity=0.449 Sum_probs=7.8
Q ss_pred cccccccCceecccCC
Q 000622 1085 HILEEVDGELEMEDVA 1100 (1386)
Q Consensus 1085 ~iledVdGelEMEDVs 1100 (1386)
..||---| ||+-.+
T Consensus 238 ~~l~~ki~--emq~~s 251 (830)
T KOG1923|consen 238 RLLETKIG--EMQLAS 251 (830)
T ss_pred HhccCCcc--cccccc
Confidence 35666666 455553
No 36
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=88.19 E-value=0.61 Score=40.87 Aligned_cols=51 Identities=22% Similarity=0.172 Sum_probs=38.0
Q ss_pred CCccCCEEEEec-CCCCCCCeeeeCCCCCCCCCCCCeEEEEEec--CCCeeeecCCCccc
Q 000622 21 QWKVGDLVLAKV-KGFPAWPATVSEPEKWGYSADWKKVLVFFFG--TQQIAFCNPADVEA 77 (1386)
Q Consensus 21 ~Fk~GDLVWAKM-KGYPwWPArI~dPe~~~~K~~~nkylV~FFG--ThEyAWV~pkdLkP 77 (1386)
.|+.||+|-|+. ..--||+|+|..... .++|.|+|.+ ..+.--+...+|.|
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~------~~~~~V~~~~~~~~~~e~v~~~~LRp 55 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG------DGKYLVRYLTESEPLKETVDWSDLRP 55 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC------CCEEEEEECCCCcccEEEEeHHHccc
Confidence 699999999998 346899999997432 4689999998 55554445555554
No 37
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=87.87 E-value=6.9 Score=48.08 Aligned_cols=13 Identities=31% Similarity=0.616 Sum_probs=7.3
Q ss_pred CCCCCCCCCCCCC
Q 000622 1237 TDGPRFHNKPYPP 1249 (1386)
Q Consensus 1237 ~~~~~~~n~gy~~ 1249 (1386)
++|.++|..+|..
T Consensus 497 ~Pg~p~~~~~~~~ 509 (554)
T KOG0119|consen 497 PPGAPFHGGNYNA 509 (554)
T ss_pred CCCCCCCCCCCCC
Confidence 4555666656554
No 38
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=85.53 E-value=1.1 Score=61.07 Aligned_cols=67 Identities=25% Similarity=0.475 Sum_probs=41.8
Q ss_pred CCCCCccCcc---ccccCCccC-CCC--Cc--eeeeecCccccCCCCccCCCCCcccccchhhccccccccccccccc
Q 000622 281 GSECNDLDSS---ALMSNGSIE-DNS--SE--IVTVESDAFSLNEGSTVDSGCKVEDSETVLECLDGDEMLSKRLDFQ 350 (1386)
Q Consensus 281 ~s~~ddv~Ss---~~~~ngs~e-dn~--se--i~t~~sd~~slNegs~vds~~~~E~Se~~~~~~e~e~~l~~~~d~~ 350 (1386)
.+.|.=++=| .|..+|.++ ++. +. ..|++ |++.+-.|+.++-+...-.|...|-+- ++-|-++|++.
T Consensus 441 ~s~WtltgdS~vt~Lt~~G~~~~~~~~~~~~~~~~~~-~~l~~qd~s~~~~~~~~~~~~p~i~~~--~~~l~g~l~~~ 515 (2039)
T PRK15319 441 TSQWNMTDPSTVGNLTNDGDITLGNASGSTGTLLTVD-NTLTLQDGSQINATLDTANSSPIIKAA--NVTLDGTLNLS 515 (2039)
T ss_pred CCeEEEeCCceeehhccCCcEEEecCCCCcceEEecc-ceeeecCCCEEEEeecccCCCCeEEec--cccccceeeec
Confidence 3555433322 456777776 222 22 55666 899999999888887766666654433 56777766654
No 39
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=85.28 E-value=9.8 Score=45.18 Aligned_cols=7 Identities=14% Similarity=-0.017 Sum_probs=2.9
Q ss_pred CCCCCCC
Q 000622 1256 QSNHFSY 1262 (1386)
Q Consensus 1256 P~nqf~y 1262 (1386)
|-|.-+|
T Consensus 341 Pyn~~~~ 347 (498)
T KOG4849|consen 341 PYNGLPP 347 (498)
T ss_pred CCCCCCc
Confidence 3344444
No 40
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=84.74 E-value=13 Score=44.91 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=16.6
Q ss_pred cCCccccccC-------------ceecccCCCCceee
Q 000622 1013 LDDPVRDMEG-------------MLVDEYGSNSSFQL 1036 (1386)
Q Consensus 1013 ~~dpiRemeg-------------mlVDeygsn~~f~l 1036 (1386)
+++|.|=|.| -||--||---.|-|
T Consensus 171 ~~~pPplp~g~~p~~s~~gPP~~qv~~~~g~k~~~~l 207 (487)
T KOG4672|consen 171 EADPPPLPMGNAPPVSLPGPPNPQLLAPAGIKRKVEL 207 (487)
T ss_pred ccCCCCCCCCCCCCCCCCCCCcccccccccccccccC
Confidence 3688888877 35667777766655
No 41
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=81.92 E-value=36 Score=41.44 Aligned_cols=28 Identities=25% Similarity=0.260 Sum_probs=15.9
Q ss_pred CCcCCCCcchhhHHhhHHHHHHhhhhhhhhhh
Q 000622 846 KSVGKWSSCSEAHAALSSFEAVLGSLTRTKES 877 (1386)
Q Consensus 846 ~~~g~lsg~~ea~~ard~Fe~mL~tLtrtKeS 877 (1386)
..+|+.-..|+++- =++-.+.|.|.|..
T Consensus 8 tk~gk~mnPTDqaR----Ke~RKkElKrNKK~ 35 (487)
T KOG4672|consen 8 TKGGKYMNPTDQAR----KEARKKELKRNKKD 35 (487)
T ss_pred ccCCcccCccHHHH----HHHHHHHhhhhHHH
Confidence 34556555555432 35556777777764
No 42
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=81.65 E-value=3 Score=51.80 Aligned_cols=105 Identities=20% Similarity=0.298 Sum_probs=76.4
Q ss_pred hhHHHHHHhhhhh-hhhhhHHHHHHHHHHhhccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHH
Q 000622 860 ALSSFEAVLGSLT-RTKESIGRATRIAIDCAKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPS 938 (1386)
Q Consensus 860 ard~Fe~mL~tLt-rtKeSI~rATr~AidcAk~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~ 938 (1386)
|...|+..|+.|| +.|.-|---|-+|=++-. .|..+|+.|-.+|++ -.=.-+++.|||+|||+-+- |.-|..
T Consensus 5 ~~~dy~s~ledltfnskp~i~~lt~la~En~~--~a~~iv~~iE~hi~k-cpp~~kL~~~y~~dsi~knv----g~py~~ 77 (579)
T KOG2071|consen 5 ACRDYQSSLEDLTFNSKPIINTLTILAEENLP--FAKSIVSAIEAHIAK-CPPSQKLPVMYLLDSIVKNV----GSPYTT 77 (579)
T ss_pred hHHHHHHHHHHHhcCCcchhHHhhHhhhhccc--ccHHHHHHHHHHHhh-CCcccccchhhhhHHHHhhc----CCcchh
Confidence 4456888999997 789999999999999887 888999999999998 44456899999999998653 334665
Q ss_pred HHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHH
Q 000622 939 AILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWL 973 (1386)
Q Consensus 939 ~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~ 973 (1386)
.+--=|=.++.-++- -++.--|.+-.+.+..|.
T Consensus 78 ~fs~~l~a~f~~~~~--~vd~r~r~~l~~~~~tw~ 110 (579)
T KOG2071|consen 78 AFSRNLVATFICAFT--KVDERTRTSLFKLRATWD 110 (579)
T ss_pred hhhhhHHHHHHHHHh--hccccccchhHhhHHhhc
Confidence 544222222221110 124445778889999998
No 43
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=79.45 E-value=1.4 Score=57.60 Aligned_cols=28 Identities=46% Similarity=0.944 Sum_probs=17.0
Q ss_pred CCCCCCCCCCCCCCCCCCC-CCCCCCCCC
Q 000622 1130 LPQDVPPSSPPLPSSPPPV-LPPPPSIPH 1157 (1386)
Q Consensus 1130 ~P~~pPP~ppp~p~~PPPP-PpPPP~p~~ 1157 (1386)
+||.-||||||+|+.-||. |||||+|+-
T Consensus 4 lppg~ppppppppg~epps~pppPppPg~ 32 (2365)
T COG5178 4 LPPGNPPPPPPPPGFEPPSQPPPPPPPGV 32 (2365)
T ss_pred CCCCCCcccccCCCCCCCCCCCCccCCCc
Confidence 3455677777777776664 555555543
No 44
>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=78.78 E-value=2.1 Score=35.46 Aligned_cols=47 Identities=28% Similarity=0.266 Sum_probs=39.0
Q ss_pred CCEEEEecCC-CCCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccc
Q 000622 25 GDLVLAKVKG-FPAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEA 77 (1386)
Q Consensus 25 GDLVWAKMKG-YPwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkP 77 (1386)
|++|.|+... --|.+|+|..... .+.+.|+|..-.+...|+.++|.+
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~------~~~~~V~f~DyG~~~~v~~~~l~~ 48 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS------DGKVEVFFVDYGNTEVVPLSDLRP 48 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC------CCcEEEEEEcCCCcEEEeHHHcCC
Confidence 7899999987 7788999998542 478999999989888888877753
No 45
>cd03561 VHS VHS domain family; 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 has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=75.74 E-value=2.9 Score=42.29 Aligned_cols=88 Identities=10% Similarity=0.126 Sum_probs=60.2
Q ss_pred HhhccC--chHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHHHHHHHHHhhccCCCCchhHHHHHH
Q 000622 887 DCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRRQ 964 (1386)
Q Consensus 887 dcAk~G--ia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~iqa~LPrll~aaaPpG~~a~enRrq 964 (1386)
|..+.+ -+.+++..|.+||.. .+-+..+=-|.|+|++..+|--.-+..|.+ ...|=.|+.-+...+.+..+-|+.
T Consensus 26 d~I~~~~~~~k~a~raL~krl~~-~n~~vql~AL~lLd~~vkNcg~~f~~~i~s--~~fl~~l~~l~~~~~~~~~~Vk~k 102 (133)
T cd03561 26 DLINLKPNGPKEAARAIRKKIKY-GNPHVQLLALTLLELLVKNCGKPFHLQVAD--KEFLLELVKIAKNSPKYDPKVREK 102 (133)
T ss_pred HHHhCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHhCChHHHHHHhh--HHHHHHHHHHhCCCCCCCHHHHHH
Confidence 444443 678899999999996 456666666899999999975322222222 233333333333335678999999
Q ss_pred HHHHHHHHHhccc
Q 000622 965 CLKVLRLWLERRI 977 (1386)
Q Consensus 965 clKVL~lW~eR~i 977 (1386)
|+.+|.-|.+.+-
T Consensus 103 il~ll~~W~~~f~ 115 (133)
T cd03561 103 ALELILAWSESFG 115 (133)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999998654
No 46
>PRK09752 adhesin; Provisional
Probab=75.20 E-value=2.5 Score=56.04 Aligned_cols=10 Identities=30% Similarity=0.581 Sum_probs=5.9
Q ss_pred CCCCCCCCCC
Q 000622 1350 NRGWAYPPRP 1359 (1386)
Q Consensus 1350 ~~~w~~ppr~ 1359 (1386)
+++|.--|+.
T Consensus 1122 g~gw~LEPQA 1131 (1250)
T PRK09752 1122 GRGVVIEPQA 1131 (1250)
T ss_pred CCCEEEeeeE
Confidence 4566666654
No 47
>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=69.22 E-value=7.2 Score=38.10 Aligned_cols=77 Identities=12% Similarity=0.235 Sum_probs=50.5
Q ss_pred CchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHHH--HHHHHHhhc--cCCCCc-hhHHHHHHHH
Q 000622 892 GVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAIL--TVLPRLLSA--AAPPGN-VAQENRRQCL 966 (1386)
Q Consensus 892 Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~iq--a~LPrll~a--aaPpG~-~a~enRrqcl 966 (1386)
..+.++|+.|..||.. .+-+..+=-|.|+|+++++|.. .|...|. .+|=.|+.- .-..|. ....-|++++
T Consensus 33 ~~~~~~~~~l~kRl~~-~~~~~~lkaL~lLe~lvkN~g~----~f~~~i~~~~~~~~l~~~~~~~~~~~~~~~~Vr~k~~ 107 (115)
T cd00197 33 VGPKEAVDAIKKRINN-KNPHVVLKALTLLEYCVKNCGE----RFHQEVASNDFAVELLKFDKSKLLGDDVSTNVREKAI 107 (115)
T ss_pred ccHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHHHHHccH----HHHHHHHHhHHHHHHHHhhccccccCCCChHHHHHHH
Confidence 4577899999999986 4666666678999999999863 2222222 122222221 112333 4677899999
Q ss_pred HHHHHHH
Q 000622 967 KVLRLWL 973 (1386)
Q Consensus 967 KVL~lW~ 973 (1386)
.++.+|.
T Consensus 108 ~l~~~w~ 114 (115)
T cd00197 108 ELVQLWA 114 (115)
T ss_pred HHHHHHh
Confidence 9999996
No 48
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=68.15 E-value=9.2 Score=39.03 Aligned_cols=59 Identities=29% Similarity=0.325 Sum_probs=44.5
Q ss_pred cCCCccCCEEEEecC--CCCCCCeeeeC-CCCCCCCCCCCeEEEEEecCCCeeeecCCCccccch
Q 000622 19 RRQWKVGDLVLAKVK--GFPAWPATVSE-PEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTE 80 (1386)
Q Consensus 19 ~~~Fk~GDLVWAKMK--GYPwWPArI~d-Pe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFsE 80 (1386)
+..+++||-|+|+-. ++.|=||+|.. ++.. ....+.|.|.||... .++|+...+.-...
T Consensus 53 ~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~--~~~~~~~~V~f~ng~-~~~vp~~~~~~I~~ 114 (124)
T PF15057_consen 53 RHSLQVGDKVLAPWEPDDCRYGPGTVIAGPERR--ASEDKEYTVRFYNGK-TAKVPRGEVIWISP 114 (124)
T ss_pred cCcCCCCCEEEEecCcCCCEEeCEEEEECcccc--ccCCceEEEEEECCC-CCccchhhEEECCH
Confidence 568999999999964 77788999997 3221 345678999999654 77777777776654
No 49
>PRK09752 adhesin; Provisional
Probab=67.53 E-value=4.4 Score=53.83 Aligned_cols=11 Identities=27% Similarity=0.447 Sum_probs=6.0
Q ss_pred ccccCcccCCC
Q 000622 1039 FCMPRMLKDDD 1049 (1386)
Q Consensus 1039 ~~~~~~~ede~ 1049 (1386)
|.+-.+|.||+
T Consensus 825 l~lnT~Lg~D~ 835 (1250)
T PRK09752 825 LLLDSELNGDD 835 (1250)
T ss_pred EEEEeeecCCC
Confidence 34456666654
No 50
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=63.80 E-value=4.6 Score=48.91 Aligned_cols=39 Identities=21% Similarity=0.087 Sum_probs=19.0
Q ss_pred chHHHHHHHHHHHhhccCCCCc----------hhHHHHHHHHHHHHHHH
Q 000622 935 IIPSAILTVLPRLLSAAAPPGN----------VAQENRRQCLKVLRLWL 973 (1386)
Q Consensus 935 ~Y~~~iqa~LPrll~aaaPpG~----------~a~enRrqclKVL~lW~ 973 (1386)
+|-.+|...|.++|....-=|. +++.--|+.|-|-..|.
T Consensus 52 Ayd~~i~~~l~~~~~lS~kIggdv~~~~~~v~~~F~s~R~~L~~A~q~q 100 (480)
T KOG2675|consen 52 AYDDLISEPLAEYLKLSKKIGGDVADVAEMVKSAFASQRAFLWVASQKQ 100 (480)
T ss_pred HHHHHHHhHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4555555556555544443332 24444455554444444
No 51
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=63.26 E-value=59 Score=40.57 Aligned_cols=7 Identities=29% Similarity=0.553 Sum_probs=3.3
Q ss_pred ccccccC
Q 000622 1086 ILEEVDG 1092 (1386)
Q Consensus 1086 iledVdG 1092 (1386)
.|-+.+|
T Consensus 376 ~~p~~s~ 382 (554)
T KOG0119|consen 376 LLPGSSG 382 (554)
T ss_pred CCCcccc
Confidence 4445444
No 52
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.15 E-value=2.8e+02 Score=37.77 Aligned_cols=21 Identities=19% Similarity=0.401 Sum_probs=17.0
Q ss_pred CCCCccCCCCCccccchhhhc
Q 000622 404 ERDFKEDGDEHLPLVKRARVR 424 (1386)
Q Consensus 404 e~~~k~DGDEHLPLVKRARVR 424 (1386)
+++--.-+|.|+|-++-+-.|
T Consensus 220 Tql~~As~dd~~PviqlWDlR 240 (1049)
T KOG0307|consen 220 TQLLVASGDDSAPVIQLWDLR 240 (1049)
T ss_pred eeeeeecCCCCCceeEeeccc
Confidence 455556789999999999888
No 53
>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=62.89 E-value=6 Score=34.97 Aligned_cols=52 Identities=17% Similarity=0.242 Sum_probs=38.8
Q ss_pred CccCCEEEEecCCCCCCCeeeeCCCCCCCCCCCCeEEEEEecCCC--eeeecCCCcc
Q 000622 22 WKVGDLVLAKVKGFPAWPATVSEPEKWGYSADWKKVLVFFFGTQQ--IAFCNPADVE 76 (1386)
Q Consensus 22 Fk~GDLVWAKMKGYPwWPArI~dPe~~~~K~~~nkylV~FFGThE--yAWV~pkdLk 76 (1386)
|++|+.|+++.+.--+-+|+|+.... +.....|.|.|.|-+. =-||+.++|.
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r~---~~~~~~YyVHY~g~nkR~DeWV~~~~i~ 54 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIRE---KNGEPEYYVHYQGWNKRLDEWVPESRIR 54 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEEE---CTTCEEEEEEETTSTGCC-EEEETTTEE
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEEe---cCCCEEEEEEcCCCCCCceeeecHHHcc
Confidence 68999999999667778999998543 2334689999999654 4799888774
No 54
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=62.67 E-value=3.4 Score=54.29 Aligned_cols=94 Identities=24% Similarity=0.348 Sum_probs=63.7
Q ss_pred cCCCccCCEEEEec-CCCCCCCeeeeCCCCCCCC---C--CCCeEEEEEecC------CCeeeecCCCccccchHHHH--
Q 000622 19 RRQWKVGDLVLAKV-KGFPAWPATVSEPEKWGYS---A--DWKKVLVFFFGT------QQIAFCNPADVEAFTEEKKQ-- 84 (1386)
Q Consensus 19 ~~~Fk~GDLVWAKM-KGYPwWPArI~dPe~~~~K---~--~~nkylV~FFGT------hEyAWV~pkdLkPFsE~kke-- 84 (1386)
...|+.||+||+|. ++.+.|+|.+..+...+.. . ..-..+|.||+. ..|+|+....+.+|......
T Consensus 189 ~~~~~~e~~~~~~~~~~~~~~~a~~~d~~~~~~~~v~as~~~~~~~~~~~~~s~~~~~~~~~~~r~~m~~~~~~~~~~~~ 268 (1005)
T KOG1080|consen 189 PEEFTVGDLVWAKSGRNEPPWPAIVIDPIRQAPRGVLASCLPVAACVMFFGNSGVPTERDYAWVRRGMERPFSRPVRPFQ 268 (1005)
T ss_pred CcccccchhhhcccccCCcccccceeehhhcchhhhhccCcchhhhheeeeccCCccccchhhhhhccccccchhhhhcc
Confidence 45899999999998 7999999999996654321 1 123456777772 47999999999999865442
Q ss_pred hhhhhcCCCcHHHHHHHHHHHHHHHHHh
Q 000622 85 SLLTKRQGRGADFVRAVQEIIDSYEKLK 112 (1386)
Q Consensus 85 sflnKrkgK~K~F~eAVeEAee~~E~lK 112 (1386)
.+..-..-+...|.++++++.+...-.+
T Consensus 269 ~~~~~~~~~~~~~e~~~~~~~~~e~~~~ 296 (1005)
T KOG1080|consen 269 DQTELKREKARSFEQALEEAGLAEQGNW 296 (1005)
T ss_pred ccccccccCccchhHHHHHhhccccccc
Confidence 1111112245678888888876544433
No 55
>PRK15319 AIDA autotransporter-like protein ShdA; Provisional
Probab=62.19 E-value=6.5 Score=54.26 Aligned_cols=7 Identities=43% Similarity=0.610 Sum_probs=3.4
Q ss_pred cCcccCC
Q 000622 1042 PRMLKDD 1048 (1386)
Q Consensus 1042 ~~~~ede 1048 (1386)
--+|.||
T Consensus 1583 nT~LgdD 1589 (2039)
T PRK15319 1583 NTVLGDD 1589 (2039)
T ss_pred EEEECCC
Confidence 4455554
No 56
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.09 E-value=19 Score=44.18 Aligned_cols=8 Identities=25% Similarity=0.841 Sum_probs=3.4
Q ss_pred CceecccC
Q 000622 1022 GMLVDEYG 1029 (1386)
Q Consensus 1022 gmlVDeyg 1029 (1386)
|||.|-||
T Consensus 248 G~I~EiFG 255 (483)
T KOG2236|consen 248 GQIFEIFG 255 (483)
T ss_pred hhhhhhhc
Confidence 44444444
No 57
>PF04858 TH1: TH1 protein; InterPro: IPR006942 TH1 is a highly conserved but uncharacterised metazoan protein. No homologue has been identified in Caenorhabditis elegans []. TH1 binds specifically to A-Raf kinase [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=56.11 E-value=76 Score=40.31 Aligned_cols=131 Identities=20% Similarity=0.280 Sum_probs=85.6
Q ss_pred hhhHHhhHHHHH---HhhhhhhhhhhHHHHHHHHHHhhcc-CchHHHHHHHHHHhhccccccccee----eeeehhhhhh
Q 000622 855 SEAHAALSSFEA---VLGSLTRTKESIGRATRIAIDCAKF-GVSSKVVEIVARHLESESSLYRRVD----LFFLVDSIMQ 926 (1386)
Q Consensus 855 ~ea~~ard~Fe~---mL~tLtrtKeSI~rATr~AidcAk~-Gia~~vveiL~~~Le~Ess~~rRVd----lffLvDSI~Q 926 (1386)
+|...++.+.|. ++..-++....-.+..+..+.|.++ =||--|+-.|...|.+++-+....+ +|.|+|-|+.
T Consensus 376 del~~t~~ale~a~~ic~~~~~g~~~~~~el~~L~~~i~~PvVa~GVL~wi~~~l~~~~~~~~~~~~~p~~L~LLdeIa~ 455 (584)
T PF04858_consen 376 DELKSTKQALEKAHAICCNAARGSSELQAELPKLYSCIRYPVVAMGVLRWIESFLTDPSYFSSITELTPVHLALLDEIAT 455 (584)
T ss_pred HHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhCCChhhHHHHHHHHHHhcCcchhhhccccCchHHHHhhHHHh
Confidence 455554444444 3343333223344566677788888 4555588999999988764433223 4678888887
Q ss_pred hccCCCCCchHHHHHHHHHHHhhccCCCCc--hhHHHHHHHH----------------HHHHHHHhcccCchhHHhHhhh
Q 000622 927 CSRGDVSGIIPSAILTVLPRLLSAAAPPGN--VAQENRRQCL----------------KVLRLWLERRILPESIIRHHMR 988 (1386)
Q Consensus 927 ~s~g~~~~~Y~~~iqa~LPrll~aaaPpG~--~a~enRrqcl----------------KVL~lW~eR~ilpe~~lr~~~~ 988 (1386)
+. ..-++.|-.+|=++|++....-. .+-|.||.+| +.++-|..|.-+-.++||||+.
T Consensus 456 ~H-----p~lr~~vl~lL~~~le~~~~~l~~l~~le~kr~ilD~~V~L~s~G~VlPVl~~i~~~~~~~~iD~SLiRyFv~ 530 (584)
T PF04858_consen 456 RH-----PLLRPSVLDLLVRLLESEGDELDILVQLELKRTILDRMVHLLSRGYVLPVLEYIRKCWARGDIDPSLIRYFVT 530 (584)
T ss_pred cC-----HhhHHHHHHHHHHHHHccCCcccHHHHHHHHHHHHHHHHHHHhCCeeehHHHHHHHHHhccCCcHHHHHHHHH
Confidence 64 45566788888899986654333 3678888887 3344466667788999999998
Q ss_pred cc
Q 000622 989 EL 990 (1386)
Q Consensus 989 ei 990 (1386)
++
T Consensus 531 eV 532 (584)
T PF04858_consen 531 EV 532 (584)
T ss_pred HH
Confidence 74
No 58
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.60 E-value=3.8e+02 Score=36.59 Aligned_cols=24 Identities=21% Similarity=0.434 Sum_probs=13.9
Q ss_pred HHHHHHHhcccCc--hhHHhHhhhcc
Q 000622 967 KVLRLWLERRILP--ESIIRHHMREL 990 (1386)
Q Consensus 967 KVL~lW~eR~ilp--e~~lr~~~~ei 990 (1386)
|+..+|+.-.=+. -..+..++.++
T Consensus 619 k~v~~w~~~~~~~~~~~~y~~~~e~l 644 (1049)
T KOG0307|consen 619 KLVEIWLKALDLELAPTSYQDLAEDL 644 (1049)
T ss_pred hhHHHHHHhcccccchHHHHHHHHHH
Confidence 7888888765543 33444444433
No 59
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=55.15 E-value=57 Score=40.89 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 000622 1342 LREPPRYSNRGWAYPPRPMN 1361 (1386)
Q Consensus 1342 p~e~~r~~~~~w~~ppr~~n 1361 (1386)
...|.-.+.++-.-|||..-
T Consensus 657 y~~P~qqQ~t~~p~Ppr~tk 676 (694)
T KOG4264|consen 657 YFDPQQQQGTRQPLPPRSTK 676 (694)
T ss_pred eeChHHhcccCCCCCCCCCc
Confidence 44455566666666666543
No 60
>PRK15313 autotransport protein MisL; Provisional
Probab=51.45 E-value=35 Score=45.12 Aligned_cols=10 Identities=40% Similarity=0.700 Sum_probs=5.4
Q ss_pred cccCcccCCC
Q 000622 1040 CMPRMLKDDD 1049 (1386)
Q Consensus 1040 ~~~~~~ede~ 1049 (1386)
.+-.+|.||+
T Consensus 474 ~lnT~LgdD~ 483 (955)
T PRK15313 474 VFNTVLNDDD 483 (955)
T ss_pred EEEeEeCCCC
Confidence 3455666553
No 61
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=49.27 E-value=2.9e+02 Score=32.24 Aligned_cols=17 Identities=18% Similarity=0.409 Sum_probs=7.8
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 000622 1274 EAPHPSNSHRFHPHPNFD 1291 (1386)
Q Consensus 1274 ~~p~psyp~R~h~~~n~~ 1291 (1386)
++--|+|-+ -||.+.+.
T Consensus 226 vp~~pp~~~-~~~~~~~q 242 (341)
T KOG2893|consen 226 VPRTPPYEN-EHEHQDYQ 242 (341)
T ss_pred CCCCCCcCC-cccccccc
Confidence 333355544 45544443
No 62
>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=48.61 E-value=80 Score=33.68 Aligned_cols=116 Identities=21% Similarity=0.203 Sum_probs=58.2
Q ss_pred hhHHHHHHhhhhhhhhhhHHHHHHHHHHhhccCch--HHH-HHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCch
Q 000622 860 ALSSFEAVLGSLTRTKESIGRATRIAIDCAKFGVS--SKV-VEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGII 936 (1386)
Q Consensus 860 ard~Fe~mL~tLtrtKeSI~rATr~AidcAk~Gia--~~v-veiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y 936 (1386)
+..-+..+|+.+..+|..|.+++..||+..=..+. .++ +.+|..-+..-+..-|..-+-||.--|..+......-.+
T Consensus 92 ~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~ 171 (228)
T PF12348_consen 92 ADILLPPLLKKLGDSKKFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQK 171 (228)
T ss_dssp HHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--
T ss_pred HHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcc
Confidence 33445667888899999999999999875444333 666 777777776655656665555555555554411111122
Q ss_pred HHHHHHHHHHHhhccCCCCchhHHHHHHHHHHH-HHHHhc
Q 000622 937 PSAILTVLPRLLSAAAPPGNVAQENRRQCLKVL-RLWLER 975 (1386)
Q Consensus 937 ~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL-~lW~eR 975 (1386)
...+..+++-|.....=+....|+.-|+|+..| ++|-+|
T Consensus 172 ~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~~ 211 (228)
T PF12348_consen 172 SAFLKQLVKALVKLLSDADPEVREAARECLWALYSHFPER 211 (228)
T ss_dssp HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-HH
T ss_pred cchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCHh
Confidence 222333333322222222235777777777665 555444
No 63
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=48.54 E-value=39 Score=34.06 Aligned_cols=80 Identities=19% Similarity=0.195 Sum_probs=44.5
Q ss_pred cCCEEEEec--CCCCCCCeeeeCCCCCC-CCCCCCeEEEEEecCCCeeeecCCCccccchHHHHhhhhhcCCCcHHHHHH
Q 000622 24 VGDLVLAKV--KGFPAWPATVSEPEKWG-YSADWKKVLVFFFGTQQIAFCNPADVEAFTEEKKQSLLTKRQGRGADFVRA 100 (1386)
Q Consensus 24 ~GDLVWAKM--KGYPwWPArI~dPe~~~-~K~~~nkylV~FFGThEyAWV~pkdLkPFsE~kkesflnKrkgK~K~F~eA 100 (1386)
+|-+|-... +.-.|.||.|+.|.-.. ....+..|+|+=|-+..|.-|..+++..|...... | ....++.|
T Consensus 8 lGkVV~V~~~~~k~~W~PALVVsPsc~ddv~VkKD~~lVRSFkD~KfysV~rkd~~e~~~~~~~----k---~e~s~k~a 80 (96)
T PF08169_consen 8 LGKVVCVESTKKKTSWFPALVVSPSCNDDVTVKKDQCLVRSFKDGKFYSVARKDVREFDIDSLP----K---SESSLKPA 80 (96)
T ss_dssp TTSEEEEE-SS-SS-EEEEEEE--SS-SS----TT-EEEEESSS--EEEE-TTTEE---STTS-----H---HHHHH-HH
T ss_pred cCcEEEEEcCCCCCceeeEEEEcCCccceeeeccceEEEEEeccCceEEEEhhhhhhcccccCC----c---ccchhhHH
Confidence 677777755 34468899999975322 12335679999999999999999999998844210 1 11246778
Q ss_pred HHHHHHHHHH
Q 000622 101 VQEIIDSYEK 110 (1386)
Q Consensus 101 VeEAee~~E~ 110 (1386)
++.|..+++.
T Consensus 81 l~~A~~Fl~~ 90 (96)
T PF08169_consen 81 LDKASTFLKT 90 (96)
T ss_dssp HHHHHHHHHS
T ss_pred HHHHHHHHhc
Confidence 8888877653
No 64
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=46.57 E-value=72 Score=39.05 Aligned_cols=7 Identities=14% Similarity=0.411 Sum_probs=3.4
Q ss_pred ccCcccC
Q 000622 1041 MPRMLKD 1047 (1386)
Q Consensus 1041 ~~~~~ed 1047 (1386)
..+++.|
T Consensus 314 ~~~i~~d 320 (562)
T TIGR01628 314 SAKVMLD 320 (562)
T ss_pred EEEEEEC
Confidence 3445554
No 65
>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=43.48 E-value=23 Score=36.24 Aligned_cols=110 Identities=13% Similarity=0.180 Sum_probs=60.7
Q ss_pred HHHHHhhhhhhh---hhhHHHHHHHHHHhhccC--chHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchH
Q 000622 863 SFEAVLGSLTRT---KESIGRATRIAIDCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIP 937 (1386)
Q Consensus 863 ~Fe~mL~tLtrt---KeSI~rATr~AidcAk~G--ia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~ 937 (1386)
.|+.+|+..|-. -+.......+ .|+.+.+ .+.+++..|..||.. .+-+.-+=-|.|+|.++++|...-+..+.
T Consensus 5 ~~~~li~kATs~~~~~~Dw~~~l~i-cD~i~~~~~~~kea~~~l~krl~~-~~~~vq~~aL~lld~lvkNcg~~f~~ev~ 82 (140)
T PF00790_consen 5 SITELIEKATSESLPSPDWSLILEI-CDLINSSPDGAKEAARALRKRLKH-GNPNVQLLALTLLDALVKNCGPRFHREVA 82 (140)
T ss_dssp HHHHHHHHHT-TTSSS--HHHHHHH-HHHHHTSTTHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHSHHHHHHHHT
T ss_pred hHHHHHHHHhCcCCCCCCHHHHHHH-HHHHHcCCccHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHh
Confidence 355555555433 3344433333 3555553 668899999999997 44444444589999999998421111000
Q ss_pred -HHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcc
Q 000622 938 -SAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERR 976 (1386)
Q Consensus 938 -~~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ 976 (1386)
.-+-..|-+|+... .......-|++++++|..|.+.+
T Consensus 83 ~~~fl~~l~~l~~~~--~~~~~~~Vk~k~l~ll~~W~~~f 120 (140)
T PF00790_consen 83 SKEFLDELVKLIKSK--KTDPETPVKEKILELLQEWAEAF 120 (140)
T ss_dssp SHHHHHHHHHHHHHT--TTHHHSHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHccC--CCCchhHHHHHHHHHHHHHHHHH
Confidence 01222222322211 11111127999999999999876
No 66
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=37.61 E-value=28 Score=42.73 Aligned_cols=58 Identities=14% Similarity=0.155 Sum_probs=45.9
Q ss_pred CCCccCCEEEEecCCCCCC-CeeeeCCCCCC-CCCCCCeEEEEEecCCCe--eeecCCCccc
Q 000622 20 RQWKVGDLVLAKVKGFPAW-PATVSEPEKWG-YSADWKKVLVFFFGTQQI--AFCNPADVEA 77 (1386)
Q Consensus 20 ~~Fk~GDLVWAKMKGYPwW-PArI~dPe~~~-~K~~~nkylV~FFGThEy--AWV~pkdLkP 77 (1386)
..|.+|+-|.|+..+-+-| .|.|+...... .......|.|.|-|.+.+ -||...+|..
T Consensus 52 ~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrRlDEWV~~~rLdl 113 (450)
T PLN00104 52 LPLEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 113 (450)
T ss_pred ceeccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCccHhhccCHhhccc
Confidence 4699999999999988888 99999854321 122334799999999988 9999999853
No 67
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=36.75 E-value=11 Score=43.90 Aligned_cols=11 Identities=9% Similarity=0.537 Sum_probs=6.4
Q ss_pred HHhhHHHHHHh
Q 000622 858 HAALSSFEAVL 868 (1386)
Q Consensus 858 ~~ard~Fe~mL 868 (1386)
...+.+|+.+|
T Consensus 43 p~sV~afD~~i 53 (312)
T PF01213_consen 43 PPSVEAFDELI 53 (312)
T ss_dssp HHHHHHHHHHH
T ss_pred CchHHHHHHHH
Confidence 34556676664
No 68
>PF12868 DUF3824: Domain of unknwon function (DUF3824); InterPro: IPR024436 This repeating domain is proline-rich but its function is unknown.
Probab=34.67 E-value=63 Score=34.21 Aligned_cols=20 Identities=30% Similarity=0.762 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 000622 1246 PYPPRPPHAPQSNHFSYVQA 1265 (1386)
Q Consensus 1246 gy~~pPPppPP~nqf~y~~~ 1265 (1386)
.|+++|...+|+.++.|.++
T Consensus 101 dYPppP~~~~p~~~~~yp~~ 120 (137)
T PF12868_consen 101 DYPPPPGAVPPPQPYPYPPP 120 (137)
T ss_pred cCCCCCCCCCCCCCCCCCCC
Confidence 44444444456677777554
No 69
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=34.00 E-value=1.2e+02 Score=31.26 Aligned_cols=87 Identities=13% Similarity=0.157 Sum_probs=51.5
Q ss_pred HHhhccC--chHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHHHHHHHHHhhccCCCCchhHHHHH
Q 000622 886 IDCAKFG--VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRR 963 (1386)
Q Consensus 886 idcAk~G--ia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~iqa~LPrll~aaaPpG~~a~enRr 963 (1386)
.|..+.+ .+.+++..|++||.. .+-+.=+=-|-|+|.+.++|.-.-+..+.+ ..+|-+|...+..... ..+-|+
T Consensus 25 cD~i~~~~~~~k~a~r~l~krl~~-~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s--~~fl~~L~~l~~~~~~-~~~Vk~ 100 (133)
T smart00288 25 CDLINSTPDGPKDAVRLLKKRLNN-KNPHVALLALTLLDACVKNCGSKFHLEVAS--KEFLNELVKLIKPKYP-LPLVKK 100 (133)
T ss_pred HHHHhCCCccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHHHHHHHh--HHHHHHHHHHHcCCCC-cHHHHH
Confidence 3444443 467899999999995 333333333778999999984222222211 1222333322223322 234899
Q ss_pred HHHHHHHHHHhcc
Q 000622 964 QCLKVLRLWLERR 976 (1386)
Q Consensus 964 qclKVL~lW~eR~ 976 (1386)
++|.+|.-|.+..
T Consensus 101 kil~li~~W~~~f 113 (133)
T smart00288 101 RILELIQEWADAF 113 (133)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998854
No 70
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=33.24 E-value=31 Score=42.31 Aligned_cols=9 Identities=0% Similarity=0.600 Sum_probs=5.0
Q ss_pred hHHHHHHhh
Q 000622 861 LSSFEAVLG 869 (1386)
Q Consensus 861 rd~Fe~mL~ 869 (1386)
..+|+++|.
T Consensus 50 i~Ayd~~i~ 58 (480)
T KOG2675|consen 50 IRAYDDLIS 58 (480)
T ss_pred HHHHHHHHH
Confidence 346666654
No 71
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=32.02 E-value=7.3e+02 Score=34.77 Aligned_cols=20 Identities=30% Similarity=0.333 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhcccCchhH
Q 000622 963 RQCLKVLRLWLERRILPESI 982 (1386)
Q Consensus 963 rqclKVL~lW~eR~ilpe~~ 982 (1386)
|+.--.|||=|+|.-|-+-.
T Consensus 1174 ~ispwlLrlelDr~~m~dk~ 1193 (1605)
T KOG0260|consen 1174 RISPWLLRLELDRASMTDKK 1193 (1605)
T ss_pred hcChHHHHhhhhhhhccccc
Confidence 44556788888887766543
No 72
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=30.83 E-value=75 Score=33.32 Aligned_cols=78 Identities=13% Similarity=0.245 Sum_probs=48.4
Q ss_pred chHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchHHHHH--HHHHHHhhccCCC---CchhHHHHHHHHH
Q 000622 893 VSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIPSAIL--TVLPRLLSAAAPP---GNVAQENRRQCLK 967 (1386)
Q Consensus 893 ia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~~~iq--a~LPrll~aaaPp---G~~a~enRrqclK 967 (1386)
-+.+++..|.+||.. .+-+.=+=-|.|+|++.++|-- .+...|- .+|-.|+.-+.+. +.+..+-|.++|.
T Consensus 35 ~~k~a~rai~krl~~-~n~~v~l~AL~LLe~~vkNCG~----~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~kil~ 109 (139)
T cd03567 35 GPQLAVRLLAHKIQS-PQEKEALQALTVLEACMKNCGE----RFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTKIIE 109 (139)
T ss_pred cHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHcCH----HHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHHHHHH
Confidence 456788999999984 2322222235678999999852 2222221 2333233222232 3478999999999
Q ss_pred HHHHHHhc
Q 000622 968 VLRLWLER 975 (1386)
Q Consensus 968 VL~lW~eR 975 (1386)
+|+.|.+-
T Consensus 110 li~~W~~~ 117 (139)
T cd03567 110 LLYSWTLE 117 (139)
T ss_pred HHHHHHHH
Confidence 99999974
No 73
>PF06793 UPF0262: Uncharacterised protein family (UPF0262); InterPro: IPR008321 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=30.58 E-value=45 Score=36.13 Aligned_cols=44 Identities=30% Similarity=0.340 Sum_probs=35.8
Q ss_pred HHHHHhhhhhhhhhhHHHHHH-------HHHHhhccCchHHHHHHHHHHhh
Q 000622 863 SFEAVLGSLTRTKESIGRATR-------IAIDCAKFGVSSKVVEIVARHLE 906 (1386)
Q Consensus 863 ~Fe~mL~tLtrtKeSI~rATr-------~AidcAk~Gia~~vveiL~~~Le 906 (1386)
.|..+++.--+-=||-..|.| .|||++++||-+|--++|.+||+
T Consensus 84 PfRrvikDYf~ICeSYy~Air~a~p~qIEaIDMgRRGlHNEGa~lL~eRL~ 134 (158)
T PF06793_consen 84 PFRRVIKDYFMICESYYEAIRTATPSQIEAIDMGRRGLHNEGAELLQERLE 134 (158)
T ss_pred cHHHHHHHHHHHHHHHHHHHhhCCHhhhhhhhhhhhccchHHHHHHHHHhc
Confidence 466666666666677777765 58999999999999999999998
No 74
>PRK02853 hypothetical protein; Provisional
Probab=29.49 E-value=70 Score=34.77 Aligned_cols=44 Identities=30% Similarity=0.332 Sum_probs=35.2
Q ss_pred HHHHHhhhhhhhhhhHHHHHH-------HHHHhhccCchHHHHHHHHHHhh
Q 000622 863 SFEAVLGSLTRTKESIGRATR-------IAIDCAKFGVSSKVVEIVARHLE 906 (1386)
Q Consensus 863 ~Fe~mL~tLtrtKeSI~rATr-------~AidcAk~Gia~~vveiL~~~Le 906 (1386)
.|...++.--.-=||-+.|.+ .|||++.+||-+|--++|.|||+
T Consensus 87 PfRrvvKDYf~ICeSYy~Air~a~p~qIEaIDMgRRGiHNEgs~lL~eRL~ 137 (161)
T PRK02853 87 PFRRVVKDYFMICESYYQAIRTATPSQIEAIDMGRRGLHNEGSELLQERLE 137 (161)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHhHhhhhhhhccccchHHHHHHHHHHc
Confidence 366666665556666666665 58999999999999999999999
No 75
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.94 E-value=91 Score=37.47 Aligned_cols=16 Identities=19% Similarity=0.353 Sum_probs=10.4
Q ss_pred ccCceecccCCCCceeeC
Q 000622 1020 MEGMLVDEYGSNSSFQLP 1037 (1386)
Q Consensus 1020 megmlVDeygsn~~f~lp 1037 (1386)
-.++-|=+|| .+..+|
T Consensus 56 ~GTIp~~~~G--~tYnIP 71 (365)
T KOG2391|consen 56 DGTIPVPYQG--VTYNIP 71 (365)
T ss_pred cCcccccccC--Ccccce
Confidence 3466677788 556666
No 76
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=28.80 E-value=1e+02 Score=29.84 Aligned_cols=31 Identities=23% Similarity=0.390 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHhcccC---chhHHhHhhh
Q 000622 958 AQENRRQCLKVLRLWLERRIL---PESIIRHHMR 988 (1386)
Q Consensus 958 a~enRrqclKVL~lW~eR~il---pe~~lr~~~~ 988 (1386)
....|++|++||+.|++-.-- .+..+.+.+.
T Consensus 63 ~~~~~~~v~~~l~~Wv~~~~~df~~d~~l~~~l~ 96 (122)
T cd06224 63 SKPIRLRVLNVLRTWVENYPYDFFDDEELLELLE 96 (122)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHH
Confidence 445688899999999986543 4444444443
No 77
>KOG4590 consensus Signal transduction protein Enabled, contains WH1 domain [Signal transduction mechanisms]
Probab=28.03 E-value=53 Score=40.06 Aligned_cols=15 Identities=20% Similarity=0.301 Sum_probs=6.3
Q ss_pred cCCCcc-cccccCCcc
Q 000622 1003 SRRSSR-TERALDDPV 1017 (1386)
Q Consensus 1003 ~rr~sr-~era~~dpi 1017 (1386)
+|+... ....|+=.|
T Consensus 38 g~k~qdd~~vVlnC~I 53 (409)
T KOG4590|consen 38 GRKSQDDQQVVLNCLI 53 (409)
T ss_pred eeecccCccccccccc
Confidence 444444 444444433
No 78
>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=27.49 E-value=55 Score=37.50 Aligned_cols=58 Identities=24% Similarity=0.373 Sum_probs=40.3
Q ss_pred cCCCccCCEEEEecCCC-CCCCeeeeCCCCCCCCCCCCeEEEEEecCCCeeeecCCCccccchH
Q 000622 19 RRQWKVGDLVLAKVKGF-PAWPATVSEPEKWGYSADWKKVLVFFFGTQQIAFCNPADVEAFTEE 81 (1386)
Q Consensus 19 ~~~Fk~GDLVWAKMKGY-PwWPArI~dPe~~~~K~~~nkylV~FFGThEyAWV~pkdLkPFsE~ 81 (1386)
...|++||.+.|+-.+= -+-||+|..... ..+.+.|.|.|-.+.-.|...+|++....
T Consensus 66 ~~~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~-----~~~~~~V~f~gYgn~e~v~l~dL~~~~~~ 124 (264)
T PF06003_consen 66 NKKWKVGDKCMAVYSEDGQYYPATIESIDE-----EDGTCVVVFTGYGNEEEVNLSDLKPSEGD 124 (264)
T ss_dssp TT---TT-EEEEE-TTTSSEEEEEEEEEET-----TTTEEEEEETTTTEEEEEEGGGEEETT--
T ss_pred ccCCCCCCEEEEEECCCCCEEEEEEEEEcC-----CCCEEEEEEcccCCeEeeehhhhcccccc
Confidence 46999999999985322 244999998542 24578899999999999999999998865
No 79
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=27.16 E-value=68 Score=30.60 Aligned_cols=42 Identities=26% Similarity=0.265 Sum_probs=31.4
Q ss_pred CCCccCCEEEEecCC----CCCCCeeeeCCCCCCCCCCCCeEEEEEec
Q 000622 20 RQWKVGDLVLAKVKG----FPAWPATVSEPEKWGYSADWKKVLVFFFG 63 (1386)
Q Consensus 20 ~~Fk~GDLVWAKMKG----YPwWPArI~dPe~~~~K~~~nkylV~FFG 63 (1386)
..|++||.|+.+-.. -+.|-|+|...-.. +.....+.|+||-
T Consensus 2 ~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~--~~~~~~~~v~wf~ 47 (123)
T cd04370 2 ITYEVGDSVYVEPDDSIKSDPPYIARIEELWED--TNGSKQVKVRWFY 47 (123)
T ss_pred CEEecCCEEEEecCCcCCCCCCEEEEEeeeeEC--CCCCEEEEEEEEE
Confidence 468999999999877 58999999984321 1234577888886
No 80
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=26.80 E-value=80 Score=39.55 Aligned_cols=6 Identities=50% Similarity=0.982 Sum_probs=2.3
Q ss_pred CCCCCC
Q 000622 1144 SPPPVL 1149 (1386)
Q Consensus 1144 ~PPPPP 1149 (1386)
.|||||
T Consensus 249 vPPPPP 254 (817)
T KOG1925|consen 249 VPPPPP 254 (817)
T ss_pred CCCCCC
Confidence 333333
No 81
>PF07793 DUF1631: Protein of unknown function (DUF1631); InterPro: IPR012434 The members of this family are sequences derived from a group of hypothetical proteins expressed by certain bacterial species. The region concerned is approximately 440 amino acid residues in length.
Probab=25.80 E-value=2.6e+02 Score=35.76 Aligned_cols=138 Identities=21% Similarity=0.213 Sum_probs=88.5
Q ss_pred hHHhhHHHHHHhhhhhhhhhhHHHHHHHHHH-hhccCchHH-HHHHHHHHhhcccccccceeeeee---hhhhhhhc--c
Q 000622 857 AHAALSSFEAVLGSLTRTKESIGRATRIAID-CAKFGVSSK-VVEIVARHLESESSLYRRVDLFFL---VDSIMQCS--R 929 (1386)
Q Consensus 857 a~~ard~Fe~mL~tLtrtKeSI~rATr~Aid-cAk~Gia~~-vveiL~~~Le~Ess~~rRVdlffL---vDSI~Q~s--~ 929 (1386)
...+.+.|+.+++...+.-+...+-++.|.. -.|.-.|.+ |.+.|.++|.. ..++.-|--|.- .|-+++.+ +
T Consensus 450 f~~~l~el~~~~~~~~~~~~~~~~r~~~~~~g~er~~~Ar~~v~~~l~~~l~~-~~~P~~v~~fL~~~W~~vL~~~~lr~ 528 (729)
T PF07793_consen 450 FEELLQELEAFLEQERRRAQRNERRAIEAEEGRERLEQARQQVAQELNERLAG-RQLPEVVRDFLDGGWADVLVLALLRE 528 (729)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 4556777888888776665555555554444 333345554 44566666664 456666554432 23333322 2
Q ss_pred CCCCCchHHHHHHHHHHHhhccCCCCchhHHHHH------HHHHHHHHHHhcccCchhHHhHhhhcccccccCC
Q 000622 930 GDVSGIIPSAILTVLPRLLSAAAPPGNVAQENRR------QCLKVLRLWLERRILPESIIRHHMRELDTVTCSS 997 (1386)
Q Consensus 930 g~~~~~Y~~~iqa~LPrll~aaaPpG~~a~enRr------qclKVL~lW~eR~ilpe~~lr~~~~ei~~~~~~~ 997 (1386)
|..+..+...+ +++.+|+-+.-|... +.+..+ +.++.|+.||+.--+++.-.+.++++|+......
T Consensus 529 G~~s~~w~~~~-~~~~~Liws~~~~~~-~~~r~~l~~~lp~Ll~~L~~gL~~i~~~~~~~~~~~~~L~~~~~~~ 600 (729)
T PF07793_consen 529 GEDSEDWQEAL-ALVDDLIWSVQPKDD-AEERARLVQLLPQLLQRLREGLASIGYDPEERRAFLDELEDAHAAA 600 (729)
T ss_pred CCCcHHHHHHH-HHHHHHHHHhCcCCC-cchHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 66677777766 478888888877763 333333 4679999999999999999999999998655443
No 82
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=25.11 E-value=1.3e+03 Score=32.68 Aligned_cols=14 Identities=43% Similarity=0.717 Sum_probs=8.2
Q ss_pred cCCCC---Cccccchhh
Q 000622 409 EDGDE---HLPLVKRAR 422 (1386)
Q Consensus 409 ~DGDE---HLPLVKRAR 422 (1386)
=|||| |+|----||
T Consensus 474 FDGDemnlhvPQS~etk 490 (1605)
T KOG0260|consen 474 FDGDEMNLHVPQSLETK 490 (1605)
T ss_pred CCCceeecccCcchhHH
Confidence 48998 666443333
No 83
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=23.36 E-value=1.2e+02 Score=31.76 Aligned_cols=81 Identities=12% Similarity=0.201 Sum_probs=49.4
Q ss_pred CchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCC--chHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHH
Q 000622 892 GVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSG--IIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVL 969 (1386)
Q Consensus 892 Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~--~Y~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL 969 (1386)
.-+.++|..|.+||..-.+-+-=+=-|-|+|.++++|-..-+. +=+..++.+|=+|+ .+.++...+=+++||.++
T Consensus 34 ~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~eiask~Fl~e~L~~~i---~~~~~~~~~Vk~kil~li 110 (141)
T cd03565 34 DGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLVAKKDFIKDVLVKLI---NPKNNPPTIVQEKVLALI 110 (141)
T ss_pred CcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHhhhHHHHHHH---cccCCCcHHHHHHHHHHH
Confidence 3467889999999963122221111378899999998522111 11122333344444 344455677899999999
Q ss_pred HHHHhc
Q 000622 970 RLWLER 975 (1386)
Q Consensus 970 ~lW~eR 975 (1386)
+-|.+-
T Consensus 111 ~~W~~~ 116 (141)
T cd03565 111 QAWADA 116 (141)
T ss_pred HHHHHH
Confidence 999964
No 84
>KOG1922 consensus Rho GTPase effector BNI1 and related formins [Signal transduction mechanisms; Cytoskeleton]
Probab=23.01 E-value=1.1e+02 Score=39.67 Aligned_cols=46 Identities=28% Similarity=0.414 Sum_probs=0.0
Q ss_pred CCCCCCCCCC--------CCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 000622 1124 LSFVPPLPQD--------VPPSSPPL---PSSPPPVLPPPPSIPHSCAFSDSYSNGA 1169 (1386)
Q Consensus 1124 ~~~~PP~P~~--------pPP~ppp~---p~~PPPPPpPPP~p~~~~~~sDp~~~~~ 1169 (1386)
.++.|+++.+ ++|++++. .+.|+||||||+.+....+.+-+..+..
T Consensus 315 ~~~~p~~~~~~l~~~~~~s~~~~~~~~~~~~~p~pppppp~~~~~~~~~~~~~~~~~ 371 (833)
T KOG1922|consen 315 SPPPPPILTPKLPALISPTPPPPPPPPNNSGGPPPPPPPPGLALPSPPPPLPPLPAL 371 (833)
T ss_pred cCCCCCCCCcccccccCCCCCCCCCCCccCCCCCCCCCCCCccccCCCCCCCCCccc
No 85
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=22.71 E-value=4e+02 Score=25.48 Aligned_cols=20 Identities=30% Similarity=0.497 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHhcccC
Q 000622 959 QENRRQCLKVLRLWLERRIL 978 (1386)
Q Consensus 959 ~enRrqclKVL~lW~eR~il 978 (1386)
...|.++++||+.|++..-.
T Consensus 70 ~~i~~rv~~~l~~Wi~~~~~ 89 (104)
T PF00618_consen 70 EPIRLRVLNVLKYWIENYPD 89 (104)
T ss_dssp HHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHChH
Confidence 34778899999999986543
No 86
>PF03154 Atrophin-1: Atrophin-1 family; InterPro: IPR002951 Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA (OMIM:125370) is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins [, ]. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteristic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity [].. This entry includes Atrophin-1 and related proteins.
Probab=22.70 E-value=2.2e+03 Score=29.79 Aligned_cols=6 Identities=67% Similarity=0.844 Sum_probs=2.6
Q ss_pred CCCCCC
Q 000622 1053 DSDGGS 1058 (1386)
Q Consensus 1053 ~~~~~~ 1058 (1386)
++|+++
T Consensus 126 s~d~rs 131 (982)
T PF03154_consen 126 SSDGRS 131 (982)
T ss_pred cccccc
Confidence 344444
No 87
>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=21.52 E-value=1.3e+02 Score=31.66 Aligned_cols=78 Identities=10% Similarity=0.173 Sum_probs=49.4
Q ss_pred CchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCC--chHHHHHHHHHHHhhccCCCCchhHHHHHHHHHHH
Q 000622 892 GVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSG--IIPSAILTVLPRLLSAAAPPGNVAQENRRQCLKVL 969 (1386)
Q Consensus 892 Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~--~Y~~~iqa~LPrll~aaaPpG~~a~enRrqclKVL 969 (1386)
--+.++|..|.+||.. .+-+.=+=-|-|+|.+.++|--.-+. +=+..+ ..|=+|+. .. +..+-|+.+|.+|
T Consensus 33 ~~~k~a~ral~KRl~~-~n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl-~eL~kl~~---~~--~~~~Vk~kil~li 105 (144)
T cd03568 33 NGAKDCLKAIMKRLNH-KDPNVQLRALTLLDACAENCGKRFHQEVASRDFT-QELKKLIN---DR--VHPTVKEKLREVV 105 (144)
T ss_pred ccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHH-HHHHHHhc---cc--CCHHHHHHHHHHH
Confidence 3466789999999985 34333333578899999998621110 001112 22333332 22 6789999999999
Q ss_pred HHHHhcc
Q 000622 970 RLWLERR 976 (1386)
Q Consensus 970 ~lW~eR~ 976 (1386)
+.|.+-+
T Consensus 106 ~~W~~~f 112 (144)
T cd03568 106 KQWADEF 112 (144)
T ss_pred HHHHHHh
Confidence 9998654
No 88
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=21.50 E-value=66 Score=39.55 Aligned_cols=41 Identities=24% Similarity=0.463 Sum_probs=33.2
Q ss_pred eeeeeehhhhhhhcc---------C--CCCCchHHHHHHHHHHHhhccCCCC
Q 000622 915 VDLFFLVDSIMQCSR---------G--DVSGIIPSAILTVLPRLLSAAAPPG 955 (1386)
Q Consensus 915 VdlffLvDSI~Q~s~---------g--~~~~~Y~~~iqa~LPrll~aaaPpG 955 (1386)
-+.+||+||+|-+++ | ....-|++-|=+.|||||+-+=+-+
T Consensus 253 ~~VLL~mDSlTRfA~AqREI~LA~GEpP~~kGYppSVF~~LP~LlERaG~~~ 304 (441)
T COG1157 253 KRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAGNGD 304 (441)
T ss_pred CeEEEEeecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHhHHHHhhcCCCC
Confidence 467999999999998 2 2244799999999999999886543
No 89
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=20.75 E-value=55 Score=31.88 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=10.4
Q ss_pred cCCCccCCEEEEec
Q 000622 19 RRQWKVGDLVLAKV 32 (1386)
Q Consensus 19 ~~~Fk~GDLVWAKM 32 (1386)
...|++||+|.||+
T Consensus 66 ~~~FrpGDIVrA~V 79 (82)
T PF10447_consen 66 YDCFRPGDIVRARV 79 (82)
T ss_dssp GGT--SSSEEEEEE
T ss_pred HhccCCCCEEEEEE
Confidence 45899999999997
No 90
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=20.30 E-value=86 Score=32.76 Aligned_cols=108 Identities=14% Similarity=0.201 Sum_probs=63.0
Q ss_pred HHHHHhhhhhhh---hhhHHHHHHHHHHh--hccCchHHHHHHHHHHhhcccccccceeeeeehhhhhhhccCCCCCchH
Q 000622 863 SFEAVLGSLTRT---KESIGRATRIAIDC--AKFGVSSKVVEIVARHLESESSLYRRVDLFFLVDSIMQCSRGDVSGIIP 937 (1386)
Q Consensus 863 ~Fe~mL~tLtrt---KeSI~rATr~Aidc--Ak~Gia~~vveiL~~~Le~Ess~~rRVdlffLvDSI~Q~s~g~~~~~Y~ 937 (1386)
.|+.+++..|-. .+...-...++ |. ++..-+.+++..|.+||.. .+-+-=+=-|-|+|++.++|--.-+..|.
T Consensus 4 ~~~~~I~kATs~~l~~~dw~~ileic-D~In~~~~~~k~a~ral~krl~~-~n~~vql~AL~LLe~~vkNCG~~fh~eva 81 (142)
T cd03569 4 EFDELIEKATSELLGEPDLASILEIC-DMIRSKDVQPKYAMRALKKRLLS-KNPNVQLYALLLLESCVKNCGTHFHDEVA 81 (142)
T ss_pred hHHHHHHHHcCcccCccCHHHHHHHH-HHHhCCCCCHHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHCCHHHHHHHh
Confidence 466666666542 22222222222 22 2235678899999999986 33333333377899999998422233332
Q ss_pred HHHHHHHHHHhhccCCCCchhHHHHHHHHHHHHHHHhcc
Q 000622 938 SAILTVLPRLLSAAAPPGNVAQENRRQCLKVLRLWLERR 976 (1386)
Q Consensus 938 ~~iqa~LPrll~aaaPpG~~a~enRrqclKVL~lW~eR~ 976 (1386)
+ +.+|-+|..-+.+ .+..+-|++||.++.-|.+..
T Consensus 82 s--~~fl~~l~~l~~~--~~~~~Vk~kil~li~~W~~~f 116 (142)
T cd03569 82 S--REFMDELKDLIKT--TKNEEVRQKILELIQAWALAF 116 (142)
T ss_pred h--HHHHHHHHHHHcc--cCCHHHHHHHHHHHHHHHHHh
Confidence 2 2333333322212 668889999999999999654
Done!