Query 013205
Match_columns 447
No_of_seqs 305 out of 485
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 01:28:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013205.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013205hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10269 Tmemb_185A: Transmemb 100.0 6.7E-46 1.4E-50 360.5 8.6 232 28-291 1-238 (238)
2 KOG3879 Predicted membrane pro 100.0 1.5E-34 3.1E-39 274.2 9.4 188 80-336 9-201 (267)
3 KOG3879 Predicted membrane pro 99.8 1.5E-20 3.1E-25 179.2 6.7 129 8-159 55-195 (267)
4 PF10269 Tmemb_185A: Transmemb 99.5 1.4E-13 3.1E-18 134.3 10.4 172 11-189 47-237 (238)
5 KOG1101 Apoptosis inhibitor IA 98.4 4.5E-07 9.7E-12 83.1 5.3 56 328-396 49-104 (147)
6 KOG1100 Predicted E3 ubiquitin 98.3 2.6E-07 5.6E-12 89.0 2.9 146 281-445 41-187 (207)
7 KOG4265 Predicted E3 ubiquitin 98.3 1.1E-07 2.3E-12 97.0 -0.6 36 412-447 286-321 (349)
8 KOG4275 Predicted E3 ubiquitin 98.3 2E-07 4.3E-12 92.8 0.5 32 416-447 300-331 (350)
9 PF13920 zf-C3HC4_3: Zinc fing 98.0 2.1E-06 4.6E-11 64.1 1.0 30 417-446 3-32 (50)
10 KOG1571 Predicted E3 ubiquitin 97.4 5.3E-05 1.1E-09 77.7 0.8 31 417-447 306-336 (355)
11 KOG4172 Predicted E3 ubiquitin 96.7 7.3E-05 1.6E-09 57.6 -3.8 29 418-446 9-37 (62)
12 smart00238 BIR Baculoviral inh 95.6 0.0069 1.5E-07 48.1 1.9 32 328-360 34-65 (71)
13 cd00022 BIR Baculoviral inhibi 95.3 0.0099 2.1E-07 46.9 1.8 32 328-360 32-63 (69)
14 KOG4692 Predicted E3 ubiquitin 95.3 0.019 4.1E-07 59.4 4.2 29 415-444 421-449 (489)
15 PF13923 zf-C3HC4_2: Zinc fing 95.1 0.0072 1.6E-07 42.8 0.5 26 419-445 1-27 (39)
16 PF00653 BIR: Inhibitor of Apo 95.0 0.012 2.5E-07 47.0 1.6 32 328-360 34-65 (70)
17 smart00184 RING Ring finger. E 94.7 0.012 2.6E-07 39.5 0.7 25 419-444 1-25 (39)
18 KOG1785 Tyrosine kinase negati 93.1 0.028 6.1E-07 58.9 0.2 28 417-445 370-397 (563)
19 PF13445 zf-RING_UBOX: RING-ty 92.3 0.052 1.1E-06 39.9 0.6 25 419-445 1-29 (43)
20 PF00097 zf-C3HC4: Zinc finger 92.1 0.054 1.2E-06 38.3 0.5 26 419-445 1-27 (41)
21 KOG1814 Predicted E3 ubiquitin 89.6 0.11 2.4E-06 54.7 0.3 35 410-445 178-215 (445)
22 PF14634 zf-RING_5: zinc-RING 89.1 0.12 2.7E-06 37.5 0.1 27 419-446 2-31 (44)
23 PF14447 Prok-RING_4: Prokaryo 88.8 0.17 3.6E-06 39.3 0.7 27 417-444 8-34 (55)
24 PF15227 zf-C3HC4_4: zinc fing 87.3 0.27 5.9E-06 35.7 1.0 25 419-444 1-25 (42)
25 PHA02929 N1R/p28-like protein; 86.8 0.28 6E-06 48.6 1.0 27 417-444 175-209 (238)
26 cd00162 RING RING-finger (Real 85.5 0.37 8E-06 33.2 0.8 26 418-444 1-27 (45)
27 KOG0978 E3 ubiquitin ligase in 85.4 0.27 5.9E-06 55.2 0.2 39 405-445 633-671 (698)
28 COG5236 Uncharacterized conser 83.4 0.21 4.5E-06 51.8 -1.6 31 415-446 60-90 (493)
29 PF13639 zf-RING_2: Ring finge 80.5 0.75 1.6E-05 33.1 0.8 26 418-444 2-30 (44)
30 PHA02926 zinc finger-like prot 74.3 1.2 2.6E-05 43.9 0.6 27 417-444 171-206 (242)
31 KOG0823 Predicted E3 ubiquitin 70.6 1.8 3.8E-05 42.7 0.7 26 417-443 48-73 (230)
32 COG5243 HRD1 HRD ubiquitin lig 67.2 2.3 4.9E-05 44.8 0.7 28 410-437 281-321 (491)
33 smart00504 Ubox Modified RING 63.7 3.1 6.6E-05 31.6 0.7 25 418-443 3-27 (63)
34 KOG0320 Predicted E3 ubiquitin 61.5 2.1 4.6E-05 40.8 -0.7 28 417-445 132-161 (187)
35 KOG0317 Predicted E3 ubiquitin 61.0 2.3 4.9E-05 43.3 -0.6 26 417-443 240-265 (293)
36 COG5574 PEX10 RING-finger-cont 52.6 4.8 0.0001 40.6 0.1 23 417-439 216-238 (271)
37 KOG2164 Predicted E3 ubiquitin 51.3 7.1 0.00015 42.6 1.1 26 417-443 187-212 (513)
38 PF10367 Vps39_2: Vacuolar sor 51.0 18 0.00039 30.1 3.4 30 416-446 78-109 (109)
39 KOG4159 Predicted E3 ubiquitin 45.6 7.3 0.00016 41.5 0.2 89 335-443 22-110 (398)
40 PF04710 Pellino: Pellino; In 45.4 7 0.00015 41.5 0.0 14 425-438 356-369 (416)
41 KOG3039 Uncharacterized conser 39.9 14 0.00029 37.2 1.0 32 415-447 220-255 (303)
42 KOG2113 Predicted RNA binding 36.4 19 0.00042 37.3 1.5 29 417-445 344-372 (394)
43 COG5152 Uncharacterized conser 34.8 7.4 0.00016 37.9 -1.6 27 418-445 198-224 (259)
44 KOG0802 E3 ubiquitin ligase [P 32.0 18 0.00038 39.9 0.5 31 412-443 287-322 (543)
45 KOG2879 Predicted E3 ubiquitin 29.5 25 0.00053 35.9 1.0 31 414-445 237-268 (298)
46 PF14147 Spore_YhaL: Sporulati 29.2 38 0.00083 26.1 1.7 20 286-305 1-21 (52)
47 KOG4628 Predicted E3 ubiquitin 26.1 36 0.00079 35.8 1.5 20 418-437 231-253 (348)
48 COG5540 RING-finger-containing 26.0 46 0.00099 34.6 2.2 24 414-437 321-347 (374)
49 smart00744 RINGv The RING-vari 23.7 50 0.0011 24.7 1.5 18 418-435 1-20 (49)
50 KOG2113 Predicted RNA binding 23.2 46 0.001 34.7 1.6 31 416-446 136-166 (394)
No 1
>PF10269 Tmemb_185A: Transmembrane Fragile-X-F protein ; InterPro: IPR019396 This entry represents conserved transmembrane proteins that in humans are expressed from a region upstream of the FragileXF site and appear to be intimately linked with Fragile-X syndrome. The absence of the human TMEM185A protein does not necessarily lead to developmental delay, but might, in combination with other, currently unknown, factors. Alternatively, the TMEM185A protein is either redundant, or its function can be complemented by the highly similar chromosome 2 retro-pseudogene product, TMEM185B [].
Probab=100.00 E-value=6.7e-46 Score=360.52 Aligned_cols=232 Identities=49% Similarity=0.815 Sum_probs=192.6
Q ss_pred HhcCCccccchhHHHHHHHHHHHHHHhhcccCCCCCCCCCccccchhhHHHHHHHHHHHHHHHHHhccccccccccccee
Q 013205 28 LKLDHVISYSWWIVFFPVWIFHAVVARGRFSLPAPSVPHNRHWAPCHAIVATPLLIAFELLLCIYLESIYEHGFEAVNLK 107 (447)
Q Consensus 28 LKLDg~I~wsWwvVFiPLWI~~~lv~~g~~~~~~~~~~~~~~w~~~~~~v~~lLLl~FelLLc~kLe~~~~~~~~~~~~~ 107 (447)
||+||.++||||+||+|+|++++++++|.+........+++.++.+++....+++++||+|+|.||++... .+|.
T Consensus 1 LrlD~~i~wsww~VF~Plw~~~~iv~~g~~~~~~~~~~~~~~~~~~~~~~~~lll~~f~~llc~~L~~~~~-----~~w~ 75 (238)
T PF10269_consen 1 LRLDGVISWSWWIVFIPLWIWKAIVIVGAFVGIAVSRPRVDFKAMLISVVAHLLLLAFELLLCIKLEGGSS-----ISWS 75 (238)
T ss_pred CccCceeeccHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHheeecCCCCc-----ceee
Confidence 69999999999999999999999999988665544455566666677777778999999999999965555 7999
Q ss_pred eehhhHHHHHH---HHHHHhhhhhhccCCCCCCccchHHHHhhhhHHHHHHHHHHHHHHHhhhheeecCcccccceeehh
Q 013205 108 IVFLPLLAFEI---TILIDNFRMCRALMPGDEESMNDEAIWEALPHFWVAISMVFFVAATVFTLLKLCGYVGALGWWDLF 184 (447)
Q Consensus 108 ~VFiPL~ill~---~~~i~~fr~c~~~~~g~~~s~~~e~~~~~~~~F~i~is~lf~l~~~IfLaLKLDg~~~~w~Ww~VF 184 (447)
+||+|+|++.. ..+++++|+ |||+++++++++.+.+.+++++.++++++++|++|++|||||. ++||||+||
T Consensus 76 ~VFiPL~~l~~~~I~~~i~~~r~----~~~~~e~~~~~~~~~~~~~~~~~l~~if~~~f~v~l~Lkld~~-i~~sW~~vF 150 (238)
T PF10269_consen 76 IVFIPLFVLSALSILICIWNFRH----MPGDGEEMSDRSIWFELPFFWNILSLIFFLAFTVFLALKLDGV-IDWSWWIVF 150 (238)
T ss_pred eeeechhhHHHHHHHHHHHhhcc----CcccccCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCc-ccccHHHHH
Confidence 99999987764 677788888 8999999999999999999999999999999999999999999 999999999
Q ss_pred hhHHHHHhhhhheecccCCCcccCCCCCCCCCCccchhhhhccccccccccccCCCCCcchhh-hhhh--HHhHHHHHHH
Q 013205 185 INFGIAECFAFLVCTKWSNPVIHRSPQTRPATSSSAITYLDWNSGLVVSAEEEQNPDGMCGLS-DIGG--HIMKVPVIGF 261 (447)
Q Consensus 185 IPlwi~~~~~~lvc~~~~~~~i~~~~~~~~~~~~~~~~y~~w~~~~~~~~~~~~~q~r~~~~~-~i~~--~ll~ipll~F 261 (447)
||+|++|++++++|... ....++|.+++++...+ |++. +.+ ++++ +++++|+++|
T Consensus 151 iPl~i~~~~~~~~~~~~---------------~i~~~~~~~~~~~~~~~------~~~~-~~~~~~~~~~~~~~i~~l~F 208 (238)
T PF10269_consen 151 IPLWIADGLAFLVCLYS---------------IIMSIRYLDRNPGLLPS------QRRS-SLQSRICWGGLFLVIPLLVF 208 (238)
T ss_pred HHHHHHHHHHHHHHHHH---------------HHHHHHHHhccCCCchh------hHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999864210 11234556665444332 2333 233 5555 8999999999
Q ss_pred HHHHHHhhcCCCCCCCCccchhhhHHHHHH
Q 013205 262 QVLLCMHLEGTPAGARNIALPVLFSPLFLL 291 (447)
Q Consensus 262 qiLLc~kLeg~~~~~~~~~~~~Vf~PL~il 291 (447)
|++||+||||++..+.++|+.+||+|||++
T Consensus 209 ~vLL~~kLe~~~~~~~~~~~~~vf~PL~i~ 238 (238)
T PF10269_consen 209 QVLLCMKLEGTPWSAANIPISVVFIPLFIL 238 (238)
T ss_pred HHHHHHHhcCCccccccccHHHHHHHHHhC
Confidence 999999999977667799999999999974
No 2
>KOG3879 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=1.5e-34 Score=274.20 Aligned_cols=188 Identities=27% Similarity=0.448 Sum_probs=166.6
Q ss_pred HHHHHHHHHHHHHhcccccccccccceeeehhhHHHHHH---HHHHHhhhhhhccCCCCCCccchHHHHhhhhHHHHHHH
Q 013205 80 PLLIAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEI---TILIDNFRMCRALMPGDEESMNDEAIWEALPHFWVAIS 156 (447)
Q Consensus 80 lLLl~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~---~~~i~~fr~c~~~~~g~~~s~~~e~~~~~~~~F~i~is 156 (447)
+++++||+|.|+|||.+++ -|.+||+||+..++ ++|+|++|| |++++.|.. .++|
T Consensus 9 l~llmfe~lvcdkle~~~h------fw~lvf~plff~s~vsvgacvw~~Rh--------d~a~ele~~--------~avn 66 (267)
T KOG3879|consen 9 LLLLMFEVLVCDKLERDYH------FWLLVFMPLFFVSPVSVGACVWGFRH--------DLAFELEFT--------WAVN 66 (267)
T ss_pred HHHHHHHHHHhhhhccCce------ehHHHHHHHHhcChhhhhhhhhhhhc--------chHHHHHHH--------HHHH
Confidence 7789999999999999998 69999999999765 899999999 999888777 6789
Q ss_pred HHHHHHHHhhhheeecCcccccceeehhhhHHHHHhhhhheecccCCCcccCCCCCCCCCCccchhhhhccccccccccc
Q 013205 157 MVFFVAATVFTLLKLCGYVGALGWWDLFINFGIAECFAFLVCTKWSNPVIHRSPQTRPATSSSAITYLDWNSGLVVSAEE 236 (447)
Q Consensus 157 ~lf~l~~~IfLaLKLDg~~~~w~Ww~VFIPlwi~~~~~~lvc~~~~~~~i~~~~~~~~~~~~~~~~y~~w~~~~~~~~~~ 236 (447)
++| +||++||||.. ++|||.+||+|+||+|++++++ ++||..|+ .+.+|+.+
T Consensus 67 ilq----lIflaLKLD~~-v~WnW~VVFvPlWI~~sil~V~----------------------VLy~iv~s-~~~lrs~~ 118 (267)
T KOG3879|consen 67 ILQ----LIFLALKLDKI-VHWNWFVVFVPLWIFDSILLVV----------------------VLYKIVWS-VLFLRSRD 118 (267)
T ss_pred HHH----HHHHHHhcCcc-cCCceEEEeehHHHHHHHHHHH----------------------HHHHHHHH-HHhccccc
Confidence 999 99999999999 9999999999999999999998 89999997 88899999
Q ss_pred -cCCCCCcchhh-hhhhHHhHHHHHHHHHHHHHhhcCCCCCCCCccchhhhHHHHHHHHHHHHHhhhhhHHHHHHHHHcC
Q 013205 237 -EQNPDGMCGLS-DIGGHIMKVPVIGFQVLLCMHLEGTPAGARNIALPVLFSPLFLLQGVGVVFSTTRLVEKIVILLRSG 314 (447)
Q Consensus 237 -~~~q~r~~~~~-~i~~~ll~ipll~FqiLLc~kLeg~~~~~~~~~~~~Vf~PL~il~~~~v~~~~~~l~e~~~~~~~~~ 314 (447)
+++|+|. ++. ++.++..++|+++||++||.||||. .+.+||+++|+|+|++...++...++ .
T Consensus 119 v~p~~rr~-~l~~ai~~i~~Vlp~Laf~VlLc~KLdg~---~t~~sy~~vfaPLwlsl~t~i~~s~~------------k 182 (267)
T KOG3879|consen 119 VIPEQRRT-HLTMAIWNITIVLPLLAFQVLLCHKLDGH---NTTFSYIVVFAPLWLSLLTAIATSGS------------K 182 (267)
T ss_pred cCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcCc---cccceEEEEHHHHHHHHHHHHHHhcc------------C
Confidence 8899999 888 8889999999999999999999982 34799999999999997777665544 3
Q ss_pred CCCcceEEeecccccccccccc
Q 013205 315 AGTGIYFRISSRAHDCFGFLHR 336 (447)
Q Consensus 315 ~~~~~~~~~~s~~~~~~~~~~~ 336 (447)
.|+.++|-++ +||..|+-.
T Consensus 183 ggn~wwFGiR---k~fcqflle 201 (267)
T KOG3879|consen 183 GGNHWWFGIR---KDFCQFLLE 201 (267)
T ss_pred CCceEEEEec---chHHHHHHH
Confidence 4567888887 777766543
No 3
>KOG3879 consensus Predicted membrane protein [Function unknown]
Probab=99.81 E-value=1.5e-20 Score=179.16 Aligned_cols=129 Identities=25% Similarity=0.468 Sum_probs=105.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCccccchhHHHHHHHHHHHHHHhh---------cccCCCCCCCCCccccchh---h
Q 013205 8 KSVQAVAAHSLLLTFTLLLVLKLDHVISYSWWIVFFPVWIFHAVVARG---------RFSLPAPSVPHNRHWAPCH---A 75 (447)
Q Consensus 8 ~~~~~~~~~~~Ll~F~ILLaLKLDg~I~wsWwvVFiPLWI~~~lv~~g---------~~~~~~~~~~~~~~w~~~~---~ 75 (447)
++++..++|+.-++|+|+||||||.+++|||.+||+||||+|++.+++ .+.|+++..++.+.-.-+. .
T Consensus 55 ~a~ele~~~avnilqlIflaLKLD~~v~WnW~VVFvPlWI~~sil~V~VLy~iv~s~~~lrs~~v~p~~rr~~l~~ai~~ 134 (267)
T KOG3879|consen 55 LAFELEFTWAVNILQLIFLALKLDKIVHWNWFVVFVPLWIFDSILLVVVLYKIVWSVLFLRSRDVIPEQRRTHLTMAIWN 134 (267)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhcCcccCCceEEEeehHHHHHHHHHHHHHHHHHHHHHhccccccCHHHHHHHHHHHHHH
Confidence 456788999999999999999999999999999999999999998842 2666666666644432222 2
Q ss_pred HHHHHHHHHHHHHHHHHhcccccccccccceeeehhhHHHHHHHHHHHhhhhhhccCCCCCCccchHHHHhhhhHHHHHH
Q 013205 76 IVATPLLIAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEITILIDNFRMCRALMPGDEESMNDEAIWEALPHFWVAI 155 (447)
Q Consensus 76 ~v~~lLLl~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~~~~i~~fr~c~~~~~g~~~s~~~e~~~~~~~~F~i~i 155 (447)
++.++++++||++||.||||+.++ ++++.||+|+|+++.++++.+++. |.|+||.++
T Consensus 135 i~~Vlp~Laf~VlLc~KLdg~~t~----~sy~~vfaPLwlsl~t~i~~s~~k-------------------ggn~wwFGi 191 (267)
T KOG3879|consen 135 ITIVLPLLAFQVLLCHKLDGHNTT----FSYIVVFAPLWLSLLTAIATSGSK-------------------GGNHWWFGI 191 (267)
T ss_pred HHHHHHHHHHHHHHHHHhcCcccc----ceEEEEHHHHHHHHHHHHHHhccC-------------------CCceEEEEe
Confidence 466688999999999999988743 899999999999999988876653 468888888
Q ss_pred HHHH
Q 013205 156 SMVF 159 (447)
Q Consensus 156 s~lf 159 (447)
+-.+
T Consensus 192 Rk~f 195 (267)
T KOG3879|consen 192 RKDF 195 (267)
T ss_pred cchH
Confidence 6555
No 4
>PF10269 Tmemb_185A: Transmembrane Fragile-X-F protein ; InterPro: IPR019396 This entry represents conserved transmembrane proteins that in humans are expressed from a region upstream of the FragileXF site and appear to be intimately linked with Fragile-X syndrome. The absence of the human TMEM185A protein does not necessarily lead to developmental delay, but might, in combination with other, currently unknown, factors. Alternatively, the TMEM185A protein is either redundant, or its function can be complemented by the highly similar chromosome 2 retro-pseudogene product, TMEM185B [].
Probab=99.48 E-value=1.4e-13 Score=134.27 Aligned_cols=172 Identities=24% Similarity=0.332 Sum_probs=113.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccchhHHHHHHHHHHHHHHhhc---ccC---CCCCCCCCccccc-hhhH--HHHHH
Q 013205 11 QAVAAHSLLLTFTLLLVLKLDHVISYSWWIVFFPVWIFHAVVARGR---FSL---PAPSVPHNRHWAP-CHAI--VATPL 81 (447)
Q Consensus 11 ~~~~~~~~Ll~F~ILLaLKLDg~I~wsWwvVFiPLWI~~~lv~~g~---~~~---~~~~~~~~~~w~~-~~~~--v~~lL 81 (447)
-.+..|.+++.|.+++|.||++.-+.+|..||+|+|+..++.+... +.+ +.+...++..|.. .+.. +..+.
T Consensus 47 ~~~~~~lll~~f~~llc~~L~~~~~~~w~~VFiPL~~l~~~~I~~~i~~~r~~~~~~e~~~~~~~~~~~~~~~~~l~~if 126 (238)
T PF10269_consen 47 ISVVAHLLLLAFELLLCIKLEGGSSISWSIVFIPLFVLSALSILICIWNFRHMPGDGEEMSDRSIWFELPFFWNILSLIF 126 (238)
T ss_pred HHHHHHHHHHHHHHHheeecCCCCcceeeeeeechhhHHHHHHHHHHHhhccCcccccCCCCchhhhhhhHHHHHHHHHH
Confidence 3567888999999999999998999999999999998887766422 111 1122222333321 1222 33344
Q ss_pred HHHHHHHHHHHhcccccccccccceeeehhhHHHHHHHHHH----HhhhhhhccCCCCCCccchHHHHhhhhHH-HH-HH
Q 013205 82 LIAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEITILI----DNFRMCRALMPGDEESMNDEAIWEALPHF-WV-AI 155 (447)
Q Consensus 82 Ll~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~~~~i----~~fr~c~~~~~g~~~s~~~e~~~~~~~~F-~i-~i 155 (447)
.++|.++++.|||+..+ ++|..||+|+|+......+ ....+++......+...+.+.- +..... +. ..
T Consensus 127 ~~~f~v~l~Lkld~~i~-----~sW~~vFiPl~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 200 (238)
T PF10269_consen 127 FLAFTVFLALKLDGVID-----WSWWIVFIPLWIADGLAFLVCLYSIIMSIRYLDRNPGLLPSQRRS-SLQSRICWGGLF 200 (238)
T ss_pred HHHHHHHHHHhcCCccc-----ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCchhhHHH-HHHHHHHHHHHH
Confidence 67899999999999988 9999999999999873322 3333443333322222221110 001111 10 12
Q ss_pred HHHHHHHHHhhhheeecCccc----ccceeehhhhHHH
Q 013205 156 SMVFFVAATVFTLLKLCGYVG----ALGWWDLFINFGI 189 (447)
Q Consensus 156 s~lf~l~~~IfLaLKLDg~~~----~w~Ww~VFIPlwi 189 (447)
-+..+++|.++++.||||. . +.+...+|+|+|+
T Consensus 201 ~~i~~l~F~vLL~~kLe~~-~~~~~~~~~~~vf~PL~i 237 (238)
T PF10269_consen 201 LVIPLLVFQVLLCMKLEGT-PWSAANIPISVVFIPLFI 237 (238)
T ss_pred HHHHHHHHHHHHHHHhcCC-ccccccccHHHHHHHHHh
Confidence 3344688999999999999 7 8899999999997
No 5
>KOG1101 consensus Apoptosis inhibitor IAP1 and related BIR domain proteins [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=98.37 E-value=4.5e-07 Score=83.05 Aligned_cols=56 Identities=25% Similarity=0.381 Sum_probs=49.6
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhcCCCCCccccCCCcchhhccCchhhhHHHHHHHHhhc
Q 013205 328 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHENSSGYNTFCGYPPEVVKKMPKKELAEEVWRLQAALG 396 (447)
Q Consensus 328 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~~~~~~~~~~~~~p~~v~~~~~~e~~qe~~~~~~~~~ 396 (447)
+|.+.=.+||+.|-+ |+++||||+|||+|+|. | ++|+..|++|++-.++....++.
T Consensus 49 ~D~~~Cf~C~~~L~~-We~~DDPW~EH~k~~p~--------C----~F~~~~k~~e~~~~v~~~~~~~~ 104 (147)
T KOG1101|consen 49 QDCVKCFFCSGGLDD-WEPGDDPWEEHAKWSPE--------C----EFLKLKKGREFLGTVQSTARALL 104 (147)
T ss_pred CCceECcccCccccc-CCCCCCcHHHHHhhCCC--------C----ceeecccchhhhhHHHHhHhhhh
Confidence 499999999999999 99999999999999999 9 99999999999887776554343
No 6
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.6e-07 Score=88.99 Aligned_cols=146 Identities=13% Similarity=0.077 Sum_probs=89.9
Q ss_pred chhhhHHHHHHHHHHHHHhhhhhHHHHHHHHHcCCCC-cceEEeeccccccccccccCccccccccCCCCChHHHhhhhh
Q 013205 281 LPVLFSPLFLLQGVGVVFSTTRLVEKIVILLRSGAGT-GIYFRISSRAHDCFGFLHRGSRLLGWWSIDEGSREDQARLVH 359 (447)
Q Consensus 281 ~~~Vf~PL~il~~~~v~~~~~~l~e~~~~~~~~~~~~-~~~~~~~s~~~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~ 359 (447)
....+.|.....+++.++-+.....+..-.-....++ .+++....|...+-....+|=...++|..+.+.-.. ....+
T Consensus 41 ~~~~~~~~~~~~~l~~~e~~~~~~l~~k~~ei~~~~~~~~~l~~~~~~~~~e~~~w~~~a~~ne~~~~~l~~nl-~q~~~ 119 (207)
T KOG1100|consen 41 ELEENRQRELRNLLKAVEEALVKKLREKDEEIERIGNLNWELEERVKSLYVEAQIWRDRAQTNEATVNSLRTNL-DQVLA 119 (207)
T ss_pred HHHHhChHHHHHHHHHHHHHHHHHhhcchhHHHhcccccceehhhhhhhhhhHHHHHHHHHhChHHHHHHHHHH-HHHHH
Confidence 3344556666655555555444333333333333444 677778888888888888888888878777754433 33344
Q ss_pred cCCCCCccccCCCcchhhccCchhhhHHHHHHHHhhcCCcccccccHHHHHHhhhhcccccccccCcceEEEecCCcccc
Q 013205 360 ENSSGYNTFCGYPPEVVKKMPKKELAEEVWRLQAALGQQSEITNYSRQEFERLQNEKVLCRVCFEGDISVVLLPCRHRIL 439 (447)
Q Consensus 360 ~~~~~~~~~~~~~p~~v~~~~~~e~~qe~~~~~~~~~eq~~~~~~~~~~~~~l~~e~~~C~iC~~~~~~vv~lPC~H~~~ 439 (447)
.. + +.++..++.+.....+....+ ..++..++.++....+ .|+.|.+++.+|+++||+|+++
T Consensus 120 ~~----------~-~~~~~~~~~~~~~g~~~~~~~------~s~~~~~~~~~~~~~~-~Cr~C~~~~~~VlllPCrHl~l 181 (207)
T KOG1100|consen 120 QC----------P-ASAPAEERGQKSCGDREADDG------KSSYVDPSVDNFKRMR-SCRKCGEREATVLLLPCRHLCL 181 (207)
T ss_pred hc----------c-cccCchhhhccccCccccccc------cccccchhhhhhhccc-cceecCcCCceEEeecccceEe
Confidence 41 1 222233333322223222111 0135666777777776 3999999999999999999999
Q ss_pred cccccC
Q 013205 440 CRYDHL 445 (447)
Q Consensus 440 C~~Ca~ 445 (447)
|..|+.
T Consensus 182 C~~C~~ 187 (207)
T KOG1100|consen 182 CGICDE 187 (207)
T ss_pred cccccc
Confidence 999985
No 7
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=1.1e-07 Score=97.01 Aligned_cols=36 Identities=31% Similarity=0.587 Sum_probs=31.2
Q ss_pred hhhhcccccccccCcceEEEecCCcccccccccCCC
Q 013205 412 LQNEKVLCRVCFEGDISVVLLPCRHRILCRYDHLTL 447 (447)
Q Consensus 412 l~~e~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~l 447 (447)
.+++.+.|+||+++.+|+++|||||+|+|+.||..|
T Consensus 286 ~~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~L 321 (349)
T KOG4265|consen 286 ESESGKECVICLSESRDTVVLPCRHLCLCSGCAKSL 321 (349)
T ss_pred cccCCCeeEEEecCCcceEEecchhhehhHhHHHHH
Confidence 334456899999999999999999999999999753
No 8
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2e-07 Score=92.78 Aligned_cols=32 Identities=25% Similarity=0.656 Sum_probs=29.5
Q ss_pred cccccccccCcceEEEecCCcccccccccCCC
Q 013205 416 KVLCRVCFEGDISVVLLPCRHRILCRYDHLTL 447 (447)
Q Consensus 416 ~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~l 447 (447)
+.+|+||||.++|.|||||||.|+|.+|..++
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm 331 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM 331 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc
Confidence 34899999999999999999999999999864
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.98 E-value=2.1e-06 Score=64.13 Aligned_cols=30 Identities=40% Similarity=0.763 Sum_probs=26.6
Q ss_pred ccccccccCcceEEEecCCcccccccccCC
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~ 446 (447)
..|.||+++..++++.||||.+.|.+|+.+
T Consensus 3 ~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~ 32 (50)
T PF13920_consen 3 EECPICFENPRDVVLLPCGHLCFCEECAER 32 (50)
T ss_dssp SB-TTTSSSBSSEEEETTCEEEEEHHHHHH
T ss_pred CCCccCCccCCceEEeCCCChHHHHHHhHH
Confidence 479999999999999999999999999753
No 10
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=5.3e-05 Score=77.73 Aligned_cols=31 Identities=35% Similarity=0.700 Sum_probs=28.5
Q ss_pred ccccccccCcceEEEecCCcccccccccCCC
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYDHLTL 447 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~l 447 (447)
..|+||.|++-|++|+||||+|+|..|+..+
T Consensus 306 ~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l 336 (355)
T KOG1571|consen 306 DLCVVCLDEPKSAVFVPCGHVCCCTLCSKHL 336 (355)
T ss_pred CceEEecCCccceeeecCCcEEEchHHHhhC
Confidence 4799999999999999999999999998753
No 11
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.73 E-value=7.3e-05 Score=57.62 Aligned_cols=29 Identities=31% Similarity=0.724 Sum_probs=27.2
Q ss_pred cccccccCcceEEEecCCcccccccccCC
Q 013205 418 LCRVCFEGDISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 418 ~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~ 446 (447)
.|.||+|+++|-|+--|||++.|-+|+.+
T Consensus 9 ECTICye~pvdsVlYtCGHMCmCy~Cg~r 37 (62)
T KOG4172|consen 9 ECTICYEHPVDSVLYTCGHMCMCYACGLR 37 (62)
T ss_pred ceeeeccCcchHHHHHcchHHhHHHHHHH
Confidence 59999999999999999999999999854
No 12
>smart00238 BIR Baculoviral inhibition of apoptosis protein repeat. Domain found in inhibitor of apoptosis proteins (IAPs) and other proteins. Acts as a direct inhibitor of caspase enzymes.
Probab=95.60 E-value=0.0069 Score=48.05 Aligned_cols=32 Identities=16% Similarity=0.287 Sum_probs=28.2
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 013205 328 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 360 (447)
Q Consensus 328 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 360 (447)
.|-+.=.+||..+.+ |+++|+||+||++++|.
T Consensus 34 ~d~v~C~~C~~~l~~-w~~~d~p~~~H~~~~p~ 65 (71)
T smart00238 34 GDEVKCFFCGGELDN-WEPGDDPWEEHKKWSPN 65 (71)
T ss_pred CCEEEeCCCCCCcCC-CCCCCCHHHHHhHhCcC
Confidence 445666789999999 99999999999999999
No 13
>cd00022 BIR Baculoviral inhibition of apoptosis protein repeat domain; Found in inhibitors of apoptosis proteins (IAPs) and other proteins. In higher eukaryotes, BIR domains inhibit apoptosis by acting as direct inhibitors of the caspase family of protease enzymes. In yeast, BIR domains are involved in regulating cytokinesis. This novel fold is stabilized by zinc tetrahedrally coordinated by one histidine and three cysteine residues and resembles a classical zinc finger.
Probab=95.30 E-value=0.0099 Score=46.88 Aligned_cols=32 Identities=19% Similarity=0.302 Sum_probs=28.9
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 013205 328 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 360 (447)
Q Consensus 328 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 360 (447)
.|-+.=.+|+..+.+ |+++|+||+||+++.|.
T Consensus 32 ~d~v~C~~C~~~~~~-w~~~d~p~~~H~~~~p~ 63 (69)
T cd00022 32 GDEVKCFFCGLELKN-WEPGDDPWEEHKRWSPN 63 (69)
T ss_pred CCEEEeCCCCCCccC-CCCCCCHHHHHhHhCcC
Confidence 566666789999999 99999999999999999
No 14
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.29 E-value=0.019 Score=59.37 Aligned_cols=29 Identities=41% Similarity=0.912 Sum_probs=25.5
Q ss_pred hcccccccccCcceEEEecCCccccccccc
Q 013205 415 EKVLCRVCFEGDISVVLLPCRHRILCRYDH 444 (447)
Q Consensus 415 e~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca 444 (447)
|..+|-||..++++.||-||+|.. |..|-
T Consensus 421 Ed~lCpICyA~pi~Avf~PC~H~S-C~~CI 449 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPCSHRS-CYGCI 449 (489)
T ss_pred ccccCcceecccchhhccCCCCch-HHHHH
Confidence 445999999999999999999998 77773
No 15
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=95.11 E-value=0.0072 Score=42.80 Aligned_cols=26 Identities=27% Similarity=0.686 Sum_probs=22.3
Q ss_pred ccccccCcceE-EEecCCcccccccccC
Q 013205 419 CRVCFEGDISV-VLLPCRHRILCRYDHL 445 (447)
Q Consensus 419 C~iC~~~~~~v-v~lPC~H~~~C~~Ca~ 445 (447)
|.||++...|. ++.||||.. |.+|..
T Consensus 1 C~iC~~~~~~~~~~~~CGH~f-C~~C~~ 27 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSF-CKECIE 27 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEE-EHHHHH
T ss_pred CCCCCCcccCcCEECCCCCch-hHHHHH
Confidence 78999999999 799999995 999864
No 16
>PF00653 BIR: Inhibitor of Apoptosis domain; InterPro: IPR001370 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The baculovirus inhibitor of apoptosis protein repeat (BIR) is a domain of tandem repeats separated by a variable length linker that seems to confer cell death-preventing activity [, ]. The BIR domains characterise the Inhibitor of Apoptosis (IAP) family of proteins (MEROPS proteinase inhibitor family I32, clan IV) that suppress apoptosis by interacting with and inhibiting the enzymatic activity of both initiator and effector caspases (MEROPS peptidase family C14, IPR002398 from INTERPRO). Several distinct mammalian IAPs including XIAP, c-IAP1, c-IAP2, and ML-IAP, have been identified, and they all exhibit antiapoptotic activity in cell culture. The functional unit in each IAP protein is the baculoviral IAP repeat (BIR), which contains approximately 80 amino acids folded around a zinc atom. Most mammalian IAPs have more than one BIR domain, with the different BIR domains performing distinct functions. For example, in XIAP, the third BIR domain (BIR3) potently inhibits the catalytic activity of caspase-9, whereas the linker sequences immediately preceding the second BIR domain (BIR2) selectively targets caspase-3 or -7. The first-recognised members of family MEROPS inhibitor family I32 were viral proteins that inhibited the apoptosis of infected cells: Cp-IAP from Cydia pomonella granulosis virus (CpGV) [] and Op-IAP from Orgyia pseudotsugata multicapsid polyhedrosis virus(OpMNPV) []. The discovery of homologous proteins in mammals followed soon after with the recognition that mutations in the gene for neuronal apoptosis inhibitory protein (NIAP) underlie spinal muscular atrophy []. The inhibitors in family I32 all possess one or more 80-residue domains known as BIR (baculovirus inhibitor repeat) domains and have accordingly been termed 'BIR-containing' or 'BIRC' proteins as well as IAP proteins. The mechanism of inhibition of caspases by the IAP proteins is complex, and reactive site residues cannot yet be identified with any confidence. Despite the conservation of the BIR or IAP (inhibitor of apoptosis) domains throughout the family it seems clear that other parts of the molecules also make essential contributions to inhibitory activity. Homologs of most components in the mammalian apoptotic pathway have been identified in fruit flies. The Drosophila Apaf-1, known as Dapaf-1, HAC-1 or Dark, shares significant sequence similarity with its mammalian counterpart, and is critically important for the activation of the Drosophila initiator caspase Dronc. Dronc, in turn, cleaves and activates the effector caspase DrICE. The Drosophila IAP, DIAP1, binds to and in-activates both DrICE and Dronc through its BIR1 and BIR2 domains. During apoptosis, the anti-death function of DIAP1 is countered by at least four pro-apoptotic proteins, Reaper, Hid, Grim, and sickle, through direct physical interactions. These four proteins represent the functional homologs of the mammalian protein Smac, and they all share a conserved IAP-binding motif at their N termini. The three proteins Reaper, Hid, and Grim are collectively referred to as the RHG proteins [, ]. Both XIAP and DIAP1 contain a RING domain at their C termini, and can act as an E3 ubiquitin ligase. Indeed, both XIAP and DIAP1 have been shown to promote self-ubiquitination and degradation as well as to negatively regulate the target caspases. Nonetheless, important differences exist between XIAP and DIAP1. The primary function of XIAP is thought to inhibit the catalytic activities of caspases; to what extent the ubiquitinating activity of XIAP contributes to its function remains unclear. For DIAP1, however, the ubiquitinating activity appears to be essential for its function. Recently a Drosophila p53 protein has been identified that mediates apoptosis via a novel pathway involving the activation of the Reaper gene and subsequent inhibition of the inhibitors of apoptosis (IAPs). CIAP1, a major mammalian homologue of Drosophila IAPs, is irreversibly inhibited (cleaved) during p53-dependent apoptosis and this cleavage is mediated by a serine protease. Serine protease inhibitors that block CIAP1 cleavage inhibit p53-dependent apoptosis. Furthermore, activation of the p53 protein increases the transcription of the HTRA2 gene, which encodes a serine protease that interacts with CIAP1 and potentiates apoptosis. Therefore mammalian p53 protein activates apoptosis through a novel pathway functionally similar to that in Drosophila, which involves HTRA2 and subsequent inhibition of CIAP1 by cleavage [].; GO: 0005622 intracellular; PDB: 3HL5_B 3UW5_A 3CM7_A 1G3F_A 1G73_C 3G76_G 3CM2_C 2VSL_A 2OPZ_B 3CLX_A ....
Probab=95.04 E-value=0.012 Score=47.00 Aligned_cols=32 Identities=19% Similarity=0.279 Sum_probs=27.3
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 013205 328 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 360 (447)
Q Consensus 328 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 360 (447)
.|-+.=.+||..+.+ |+.+|+||+||.++.|+
T Consensus 34 ~d~v~C~~C~~~l~~-w~~~Ddp~~~H~~~sp~ 65 (70)
T PF00653_consen 34 GDRVRCFYCGLELDN-WEPNDDPWEEHKRHSPN 65 (70)
T ss_dssp TTEEEETTTTEEEES--STT--HHHHHHHHSTT
T ss_pred CCEEEEeccCCEEeC-CCCCCCHHHHHHHHCcC
Confidence 788888899999999 89999999999999999
No 17
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=94.72 E-value=0.012 Score=39.48 Aligned_cols=25 Identities=40% Similarity=0.874 Sum_probs=22.4
Q ss_pred ccccccCcceEEEecCCccccccccc
Q 013205 419 CRVCFEGDISVVLLPCRHRILCRYDH 444 (447)
Q Consensus 419 C~iC~~~~~~vv~lPC~H~~~C~~Ca 444 (447)
|.||++...+.+.+||||.. |.+|-
T Consensus 1 C~iC~~~~~~~~~~~C~H~~-c~~C~ 25 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTF-CRSCI 25 (39)
T ss_pred CCcCccCCCCcEEecCCChH-HHHHH
Confidence 78999999999999999994 88775
No 18
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=93.13 E-value=0.028 Score=58.90 Aligned_cols=28 Identities=36% Similarity=0.776 Sum_probs=25.2
Q ss_pred ccccccccCcceEEEecCCcccccccccC
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~ 445 (447)
.+||||-|++.||=+=||||+. |+.|-.
T Consensus 370 eLCKICaendKdvkIEPCGHLl-Ct~CLa 397 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLL-CTSCLA 397 (563)
T ss_pred HHHHHhhccCCCcccccccchH-HHHHHH
Confidence 4799999999999999999997 888853
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=92.27 E-value=0.052 Score=39.92 Aligned_cols=25 Identities=32% Similarity=0.721 Sum_probs=13.9
Q ss_pred ccccccCcce----EEEecCCcccccccccC
Q 013205 419 CRVCFEGDIS----VVLLPCRHRILCRYDHL 445 (447)
Q Consensus 419 C~iC~~~~~~----vv~lPC~H~~~C~~Ca~ 445 (447)
|.||+| ..+ -+.|||||.. |.+|-.
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~-c~~cl~ 29 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVF-CKDCLQ 29 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EE-EHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHH-HHHHHH
Confidence 677877 445 5779999988 888754
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=92.10 E-value=0.054 Score=38.26 Aligned_cols=26 Identities=42% Similarity=0.809 Sum_probs=22.8
Q ss_pred ccccccCcceEE-EecCCcccccccccC
Q 013205 419 CRVCFEGDISVV-LLPCRHRILCRYDHL 445 (447)
Q Consensus 419 C~iC~~~~~~vv-~lPC~H~~~C~~Ca~ 445 (447)
|.||++...+-+ ++||||.. |.+|..
T Consensus 1 C~iC~~~~~~~~~~~~C~H~f-C~~C~~ 27 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSF-CRDCLR 27 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEE-EHHHHH
T ss_pred CCcCCccccCCCEEecCCCcc-hHHHHH
Confidence 789999999998 99999995 888853
No 21
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.63 E-value=0.11 Score=54.74 Aligned_cols=35 Identities=31% Similarity=0.718 Sum_probs=27.8
Q ss_pred HHhhhhcccccccccCcc---eEEEecCCcccccccccC
Q 013205 410 ERLQNEKVLCRVCFEGDI---SVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 410 ~~l~~e~~~C~iC~~~~~---~vv~lPC~H~~~C~~Ca~ 445 (447)
+..++..-.|-|||+... +++++||+|+. |..|..
T Consensus 178 ~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~-Ck~C~k 215 (445)
T KOG1814|consen 178 EKFVNSLFDCCICFEEQMGQHCFKFLPCSHVF-CKSCLK 215 (445)
T ss_pred HHHHhhcccceeeehhhcCcceeeecccchHH-HHHHHH
Confidence 444555557999999875 59999999987 999975
No 22
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=89.08 E-value=0.12 Score=37.47 Aligned_cols=27 Identities=30% Similarity=0.588 Sum_probs=22.0
Q ss_pred ccccccCc---ceEEEecCCcccccccccCC
Q 013205 419 CRVCFEGD---ISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 419 C~iC~~~~---~~vv~lPC~H~~~C~~Ca~~ 446 (447)
|.+|+++- ...++++|||.. |.+|..+
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~-C~~C~~~ 31 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIF-CEKCLKK 31 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHH-HHHHHHh
Confidence 77887765 579999999997 9999754
No 23
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=88.84 E-value=0.17 Score=39.32 Aligned_cols=27 Identities=30% Similarity=0.487 Sum_probs=23.7
Q ss_pred ccccccccCcceEEEecCCccccccccc
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYDH 444 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~Ca 444 (447)
..|..|......=+++||||++ |..|-
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I-~~~~f 34 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLI-CDNCF 34 (55)
T ss_pred eeEEEcccccccccccccccee-ecccc
Confidence 4799999999999999999998 77773
No 24
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=87.31 E-value=0.27 Score=35.70 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=20.4
Q ss_pred ccccccCcceEEEecCCccccccccc
Q 013205 419 CRVCFEGDISVVLLPCRHRILCRYDH 444 (447)
Q Consensus 419 C~iC~~~~~~vv~lPC~H~~~C~~Ca 444 (447)
|-||+|-=.+=|-++|||.. |..|-
T Consensus 1 CpiC~~~~~~Pv~l~CGH~F-C~~Cl 25 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSF-CRSCL 25 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEE-EHHHH
T ss_pred CCccchhhCCccccCCcCHH-HHHHH
Confidence 78999999999999999988 87774
No 25
>PHA02929 N1R/p28-like protein; Provisional
Probab=86.78 E-value=0.28 Score=48.63 Aligned_cols=27 Identities=26% Similarity=0.502 Sum_probs=20.2
Q ss_pred ccccccccCcce--------EEEecCCccccccccc
Q 013205 417 VLCRVCFEGDIS--------VVLLPCRHRILCRYDH 444 (447)
Q Consensus 417 ~~C~iC~~~~~~--------vv~lPC~H~~~C~~Ca 444 (447)
..|.||+|.-.+ .++.||+|.. |.+|-
T Consensus 175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~F-C~~CI 209 (238)
T PHA02929 175 KECAICMEKVYDKEIKNMYFGILSNCNHVF-CIECI 209 (238)
T ss_pred CCCccCCcccccCccccccceecCCCCCcc-cHHHH
Confidence 479999996332 4677899975 88874
No 26
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=85.45 E-value=0.37 Score=33.23 Aligned_cols=26 Identities=42% Similarity=0.796 Sum_probs=19.1
Q ss_pred cccccccCcceEE-EecCCccccccccc
Q 013205 418 LCRVCFEGDISVV-LLPCRHRILCRYDH 444 (447)
Q Consensus 418 ~C~iC~~~~~~vv-~lPC~H~~~C~~Ca 444 (447)
.|.||++.-.+.+ +.||||.. |.+|.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~-c~~C~ 27 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVF-CRSCI 27 (45)
T ss_pred CCCcCchhhhCceEecCCCChh-cHHHH
Confidence 4899999874444 45599985 77775
No 27
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=85.43 E-value=0.27 Score=55.21 Aligned_cols=39 Identities=23% Similarity=0.398 Sum_probs=31.7
Q ss_pred cHHHHHHhhhhcccccccccCcceEEEecCCcccccccccC
Q 013205 405 SRQEFERLQNEKVLCRVCFEGDISVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 405 ~~~~~~~l~~e~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~ 445 (447)
.++|+++.+ +...|.+|.++..|+|+.-|||+. |.+|-.
T Consensus 633 L~EElk~yK-~~LkCs~Cn~R~Kd~vI~kC~H~F-C~~Cvq 671 (698)
T KOG0978|consen 633 LAEELKEYK-ELLKCSVCNTRWKDAVITKCGHVF-CEECVQ 671 (698)
T ss_pred HHHHHHHHH-hceeCCCccCchhhHHHHhcchHH-HHHHHH
Confidence 356666666 456899999999999999999998 888853
No 28
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.44 E-value=0.21 Score=51.79 Aligned_cols=31 Identities=26% Similarity=0.639 Sum_probs=26.8
Q ss_pred hcccccccccCcceEEEecCCcccccccccCC
Q 013205 415 EKVLCRVCFEGDISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 415 e~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~ 446 (447)
|+..|.||-+.--=+..+||+|.. |--||.+
T Consensus 60 en~~C~ICA~~~TYs~~~PC~H~~-CH~Ca~R 90 (493)
T COG5236 60 ENMNCQICAGSTTYSARYPCGHQI-CHACAVR 90 (493)
T ss_pred ccceeEEecCCceEEEeccCCchH-HHHHHHH
Confidence 345899999999999999999997 8888754
No 29
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=80.48 E-value=0.75 Score=33.06 Aligned_cols=26 Identities=38% Similarity=0.616 Sum_probs=21.1
Q ss_pred cccccccCc---ceEEEecCCccccccccc
Q 013205 418 LCRVCFEGD---ISVVLLPCRHRILCRYDH 444 (447)
Q Consensus 418 ~C~iC~~~~---~~vv~lPC~H~~~C~~Ca 444 (447)
.|.||++.- ..++.+||||.. |.+|.
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~f-h~~Ci 30 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVF-HRSCI 30 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEE-EHHHH
T ss_pred CCcCCChhhcCCCeEEEccCCCee-CHHHH
Confidence 599998864 589999999976 77774
No 30
>PHA02926 zinc finger-like protein; Provisional
Probab=74.33 E-value=1.2 Score=43.86 Aligned_cols=27 Identities=26% Similarity=0.454 Sum_probs=20.7
Q ss_pred ccccccccCcc---------eEEEecCCccccccccc
Q 013205 417 VLCRVCFEGDI---------SVVLLPCRHRILCRYDH 444 (447)
Q Consensus 417 ~~C~iC~~~~~---------~vv~lPC~H~~~C~~Ca 444 (447)
..|.||||.-. --++.||+|.- |..|-
T Consensus 171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsF-Cl~CI 206 (242)
T PHA02926 171 KECGICYEVVYSKRLENDRYFGLLDSCNHIF-CITCI 206 (242)
T ss_pred CCCccCccccccccccccccccccCCCCchH-HHHHH
Confidence 38999998632 25889999995 88774
No 31
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.55 E-value=1.8 Score=42.75 Aligned_cols=26 Identities=23% Similarity=0.508 Sum_probs=22.5
Q ss_pred ccccccccCcceEEEecCCcccccccc
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYD 443 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~C 443 (447)
-.|-||+|...|-|+=+|||+- |=.|
T Consensus 48 FdCNICLd~akdPVvTlCGHLF-CWpC 73 (230)
T KOG0823|consen 48 FDCNICLDLAKDPVVTLCGHLF-CWPC 73 (230)
T ss_pred eeeeeeccccCCCEEeecccce-ehHH
Confidence 3599999999999999999997 5444
No 32
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=67.20 E-value=2.3 Score=44.78 Aligned_cols=28 Identities=32% Similarity=0.685 Sum_probs=19.9
Q ss_pred HHhhhhcccccccccCcce-------------EEEecCCcc
Q 013205 410 ERLQNEKVLCRVCFEGDIS-------------VVLLPCRHR 437 (447)
Q Consensus 410 ~~l~~e~~~C~iC~~~~~~-------------vv~lPC~H~ 437 (447)
|++.+++..|.||||+-.. ===+||||.
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHi 321 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHI 321 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccce
Confidence 5567777799999998111 124899996
No 33
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=63.68 E-value=3.1 Score=31.60 Aligned_cols=25 Identities=28% Similarity=0.408 Sum_probs=21.5
Q ss_pred cccccccCcceEEEecCCcccccccc
Q 013205 418 LCRVCFEGDISVVLLPCRHRILCRYD 443 (447)
Q Consensus 418 ~C~iC~~~~~~vv~lPC~H~~~C~~C 443 (447)
.|.||++--.|=|..||||.. |.+|
T Consensus 3 ~Cpi~~~~~~~Pv~~~~G~v~-~~~~ 27 (63)
T smart00504 3 LCPISLEVMKDPVILPSGQTY-ERRA 27 (63)
T ss_pred CCcCCCCcCCCCEECCCCCEE-eHHH
Confidence 699999998889999999876 6655
No 34
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.46 E-value=2.1 Score=40.79 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=22.7
Q ss_pred ccccccccCcceEE--EecCCcccccccccC
Q 013205 417 VLCRVCFEGDISVV--LLPCRHRILCRYDHL 445 (447)
Q Consensus 417 ~~C~iC~~~~~~vv--~lPC~H~~~C~~Ca~ 445 (447)
-.|-|||+....-+ ---|||+. |++|.+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvF-C~~Cik 161 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVF-CSQCIK 161 (187)
T ss_pred cCCCceecchhhccccccccchhH-HHHHHH
Confidence 46999999877666 36999987 999875
No 35
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=60.98 E-value=2.3 Score=43.29 Aligned_cols=26 Identities=27% Similarity=0.609 Sum_probs=22.8
Q ss_pred ccccccccCcceEEEecCCcccccccc
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYD 443 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~C 443 (447)
.+|.+|+|+..|=-.-||||.- |=.|
T Consensus 240 ~kC~LCLe~~~~pSaTpCGHiF-CWsC 265 (293)
T KOG0317|consen 240 RKCSLCLENRSNPSATPCGHIF-CWSC 265 (293)
T ss_pred CceEEEecCCCCCCcCcCcchH-HHHH
Confidence 5899999999999999999997 5555
No 36
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.60 E-value=4.8 Score=40.57 Aligned_cols=23 Identities=26% Similarity=0.502 Sum_probs=21.0
Q ss_pred ccccccccCcceEEEecCCcccc
Q 013205 417 VLCRVCFEGDISVVLLPCRHRIL 439 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~ 439 (447)
..|.+|++..-+-+..||||+-+
T Consensus 216 ~kC~lC~e~~~~ps~t~CgHlFC 238 (271)
T COG5574 216 YKCFLCLEEPEVPSCTPCGHLFC 238 (271)
T ss_pred cceeeeecccCCcccccccchhh
Confidence 37999999999999999999973
No 37
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.33 E-value=7.1 Score=42.63 Aligned_cols=26 Identities=27% Similarity=0.542 Sum_probs=22.8
Q ss_pred ccccccccCcceEEEecCCcccccccc
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYD 443 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~C 443 (447)
..|-||++.+...+..-|||.- |-.|
T Consensus 187 ~~CPICL~~~~~p~~t~CGHiF-C~~C 212 (513)
T KOG2164|consen 187 MQCPICLEPPSVPVRTNCGHIF-CGPC 212 (513)
T ss_pred CcCCcccCCCCcccccccCcee-eHHH
Confidence 4899999999999999999998 4455
No 38
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=51.04 E-value=18 Score=30.06 Aligned_cols=30 Identities=23% Similarity=0.352 Sum_probs=22.6
Q ss_pred cccccccccCc--ceEEEecCCcccccccccCC
Q 013205 416 KVLCRVCFEGD--ISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 416 ~~~C~iC~~~~--~~vv~lPC~H~~~C~~Ca~~ 446 (447)
...|.+|..+= ...+..||||.+ -..|+.+
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~-H~~C~~r 109 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVV-HYSCIKR 109 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEE-ecccccC
Confidence 45799998753 457778999887 7888753
No 39
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.61 E-value=7.3 Score=41.54 Aligned_cols=89 Identities=25% Similarity=0.396 Sum_probs=50.4
Q ss_pred ccCccccccccCCCCChHHHhhhhhcCCCCCccccCCCcchhhccCchhhhHHHHHHHHhhcCCcccccccHHHHHHhhh
Q 013205 335 HRGSRLLGWWSIDEGSREDQARLVHENSSGYNTFCGYPPEVVKKMPKKELAEEVWRLQAALGQQSEITNYSRQEFERLQN 414 (447)
Q Consensus 335 ~~~~~l~~~W~~~~~~~ee~ar~~~~~~~~~~~~~~~~p~~v~~~~~~e~~qe~~~~~~~~~eq~~~~~~~~~~~~~l~~ 414 (447)
++.++..+ |-.|....-.+|. .+.|. ++|++..+.-++++..|-.... ++..-...+++. .+
T Consensus 22 ~~~~~~~~-~~~~~~r~~~~~~-----~~~~t---~~p~~~~~~~~~~~~~e~~~~~------~~~~~~s~~~~~---~s 83 (398)
T KOG4159|consen 22 FSAETKSS-WCRDHTRRHSQAE-----VSRYT---GVPNRCINEDPGKSSEETMADS------TPKALLSGPEEI---RS 83 (398)
T ss_pred cccccchh-hhcccccCCchhh-----hhhhc---cCCHHHHhcccchhhhhhhhhh------hhhhhhccCccc---cc
Confidence 34455555 5544444333332 22232 6788887777777754433221 111111122222 33
Q ss_pred hcccccccccCcceEEEecCCcccccccc
Q 013205 415 EKVLCRVCFEGDISVVLLPCRHRILCRYD 443 (447)
Q Consensus 415 e~~~C~iC~~~~~~vv~lPC~H~~~C~~C 443 (447)
| -.|-||+..--+-|-.||||-. |..|
T Consensus 84 e-f~c~vc~~~l~~pv~tpcghs~-c~~C 110 (398)
T KOG4159|consen 84 E-FECCVCSRALYPPVVTPCGHSF-CLEC 110 (398)
T ss_pred h-hhhhhhHhhcCCCccccccccc-cHHH
Confidence 3 3699999998888888999987 8777
No 40
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=45.42 E-value=7 Score=41.53 Aligned_cols=14 Identities=29% Similarity=0.546 Sum_probs=0.0
Q ss_pred CcceEEEecCCccc
Q 013205 425 GDISVVLLPCRHRI 438 (447)
Q Consensus 425 ~~~~vv~lPC~H~~ 438 (447)
...+.+|-||||++
T Consensus 356 ~~pthaF~PCGHv~ 369 (416)
T PF04710_consen 356 GPPTHAFNPCGHVC 369 (416)
T ss_dssp --------------
T ss_pred CCCceeeccccccc
Confidence 34688999999996
No 41
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.92 E-value=14 Score=37.23 Aligned_cols=32 Identities=22% Similarity=0.311 Sum_probs=25.5
Q ss_pred hcccccccccC----cceEEEecCCcccccccccCCC
Q 013205 415 EKVLCRVCFEG----DISVVLLPCRHRILCRYDHLTL 447 (447)
Q Consensus 415 e~~~C~iC~~~----~~~vv~lPC~H~~~C~~Ca~~l 447 (447)
++-.|.+|.|. ...+|+-||||++ |.+|+.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv-~~ecvEkl 255 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVV-TKECVEKL 255 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEe-eHHHHHHh
Confidence 45579999986 4568999999998 99997653
No 42
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=36.45 E-value=19 Score=37.33 Aligned_cols=29 Identities=7% Similarity=-0.235 Sum_probs=27.1
Q ss_pred ccccccccCcceEEEecCCcccccccccC
Q 013205 417 VLCRVCFEGDISVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 417 ~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~ 445 (447)
..|-+|-++-....+.||+|..-|.+||.
T Consensus 344 ~~~~~~~~~~~st~~~~~~~n~~~~~~a~ 372 (394)
T KOG2113|consen 344 LKGTSAGFGLLSTIWSGGNMNLSPGSLAS 372 (394)
T ss_pred cccccccCceeeeEeecCCcccChhhhhh
Confidence 37999999999999999999999999985
No 43
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=34.81 E-value=7.4 Score=37.90 Aligned_cols=27 Identities=30% Similarity=0.652 Sum_probs=24.8
Q ss_pred cccccccCcceEEEecCCcccccccccC
Q 013205 418 LCRVCFEGDISVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 418 ~C~iC~~~~~~vv~lPC~H~~~C~~Ca~ 445 (447)
.|-||.+.-.+-|.-.|||.. |+.||.
T Consensus 198 ~C~iCKkdy~spvvt~CGH~F-C~~Cai 224 (259)
T COG5152 198 LCGICKKDYESPVVTECGHSF-CSLCAI 224 (259)
T ss_pred eehhchhhccchhhhhcchhH-HHHHHH
Confidence 699999999999999999998 999975
No 44
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.96 E-value=18 Score=39.90 Aligned_cols=31 Identities=32% Similarity=0.457 Sum_probs=24.1
Q ss_pred hhhhcccccccccCcce-----EEEecCCcccccccc
Q 013205 412 LQNEKVLCRVCFEGDIS-----VVLLPCRHRILCRYD 443 (447)
Q Consensus 412 l~~e~~~C~iC~~~~~~-----vv~lPC~H~~~C~~C 443 (447)
+.+....|.||.|.-.+ .-.+||+|.. |..|
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hif-h~~C 322 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIF-HDSC 322 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccch-HHHH
Confidence 43444589999999988 7999999985 5544
No 45
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.55 E-value=25 Score=35.90 Aligned_cols=31 Identities=29% Similarity=0.466 Sum_probs=22.8
Q ss_pred hhcccccccccCcc-eEEEecCCcccccccccC
Q 013205 414 NEKVLCRVCFEGDI-SVVLLPCRHRILCRYDHL 445 (447)
Q Consensus 414 ~e~~~C~iC~~~~~-~vv~lPC~H~~~C~~Ca~ 445 (447)
....+|.+|.+.+. -.+..||||.- |-.|..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~Hiy-CY~Ci~ 268 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIY-CYYCIA 268 (298)
T ss_pred cCCceeeccCCCCCCCeeecccccee-ehhhhh
Confidence 34568999998765 47888899964 666653
No 46
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=29.17 E-value=38 Score=26.14 Aligned_cols=20 Identities=25% Similarity=0.456 Sum_probs=15.8
Q ss_pred HHHHH-HHHHHHHHhhhhhHH
Q 013205 286 SPLFL-LQGVGVVFSTTRLVE 305 (447)
Q Consensus 286 ~PL~i-l~~~~v~~~~~~l~e 305 (447)
+|+|+ +..+|++|++|..+-
T Consensus 1 ~PwWvY~vi~gI~~S~ym~v~ 21 (52)
T PF14147_consen 1 IPWWVYFVIAGIIFSGYMAVK 21 (52)
T ss_pred CcchHHHHHHHHHHHHHHHHH
Confidence 48888 778899999997653
No 47
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.10 E-value=36 Score=35.75 Aligned_cols=20 Identities=35% Similarity=1.007 Sum_probs=16.5
Q ss_pred cccccccC---cceEEEecCCcc
Q 013205 418 LCRVCFEG---DISVVLLPCRHR 437 (447)
Q Consensus 418 ~C~iC~~~---~~~vv~lPC~H~ 437 (447)
.|.||+|. .--+..|||+|.
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~ 253 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHK 253 (348)
T ss_pred eEEEeecccccCCeeeEecCCCc
Confidence 79999985 345788999997
No 48
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.97 E-value=46 Score=34.56 Aligned_cols=24 Identities=38% Similarity=0.902 Sum_probs=18.0
Q ss_pred hhcccccccccCcc---eEEEecCCcc
Q 013205 414 NEKVLCRVCFEGDI---SVVLLPCRHR 437 (447)
Q Consensus 414 ~e~~~C~iC~~~~~---~vv~lPC~H~ 437 (447)
+.-..|.|||++-+ -++.+||.|.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~ 347 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHR 347 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCce
Confidence 33457999998532 3899999997
No 49
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=23.72 E-value=50 Score=24.67 Aligned_cols=18 Identities=33% Similarity=1.082 Sum_probs=14.5
Q ss_pred ccccccc--CcceEEEecCC
Q 013205 418 LCRVCFE--GDISVVLLPCR 435 (447)
Q Consensus 418 ~C~iC~~--~~~~vv~lPC~ 435 (447)
.|+||++ .+-+....||.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~ 20 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCR 20 (49)
T ss_pred CccCCCCCCCCCCeeEeccc
Confidence 4999996 66677889995
No 50
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=23.16 E-value=46 Score=34.67 Aligned_cols=31 Identities=10% Similarity=0.173 Sum_probs=27.9
Q ss_pred cccccccccCcceEEEecCCcccccccccCC
Q 013205 416 KVLCRVCFEGDISVVLLPCRHRILCRYDHLT 446 (447)
Q Consensus 416 ~~~C~iC~~~~~~vv~lPC~H~~~C~~Ca~~ 446 (447)
...|.+|++++.=+-.+||||-+-|.+|+..
T Consensus 136 ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~ 166 (394)
T KOG2113|consen 136 TIKRIQQFTNTYIATPVRCGEPVFCVTGAPK 166 (394)
T ss_pred ccchheecccceEeeeccCCCceEEEecCCc
Confidence 3469999999999999999999999999764
Done!