Query 012685
Match_columns 458
No_of_seqs 312 out of 494
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 05:14:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012685.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012685hhsearch_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 1.6E-44 3.5E-49 352.0 11.4 236 28-302 1-238 (238)
2 KOG3879 Predicted membrane pro 100.0 1.5E-38 3.2E-43 302.2 9.7 195 80-351 9-205 (267)
3 KOG3879 Predicted membrane pro 99.8 2E-18 4.3E-23 165.2 8.8 113 8-124 55-179 (267)
4 PF10269 Tmemb_185A: Transmemb 99.4 8.7E-13 1.9E-17 129.2 11.4 172 12-200 48-237 (238)
5 KOG1101 Apoptosis inhibitor IA 98.3 4.1E-07 8.8E-12 83.6 4.2 57 339-408 49-105 (147)
6 KOG4265 Predicted E3 ubiquitin 98.3 1E-07 2.2E-12 97.5 -0.5 35 424-458 287-321 (349)
7 KOG1100 Predicted E3 ubiquitin 98.3 3.4E-07 7.3E-12 88.5 2.8 146 292-456 41-187 (207)
8 KOG4275 Predicted E3 ubiquitin 98.2 4.4E-07 9.5E-12 90.7 2.4 32 427-458 300-331 (350)
9 PF13920 zf-C3HC4_3: Zinc fing 98.0 2.4E-06 5.3E-11 64.0 1.0 30 428-457 3-32 (50)
10 KOG1571 Predicted E3 ubiquitin 97.4 4.1E-05 8.9E-10 78.8 0.9 31 428-458 306-336 (355)
11 KOG4172 Predicted E3 ubiquitin 96.8 6.3E-05 1.4E-09 58.2 -3.8 29 429-457 9-37 (62)
12 smart00238 BIR Baculoviral inh 95.5 0.0077 1.7E-07 47.9 1.9 32 339-371 34-65 (71)
13 cd00022 BIR Baculoviral inhibi 95.2 0.011 2.4E-07 46.8 1.9 32 339-371 32-63 (69)
14 PF13923 zf-C3HC4_2: Zinc fing 95.1 0.0071 1.5E-07 43.0 0.5 26 430-456 1-27 (39)
15 PF00653 BIR: Inhibitor of Apo 95.0 0.012 2.6E-07 47.0 1.5 32 339-371 34-65 (70)
16 smart00184 RING Ring finger. E 94.7 0.012 2.7E-07 39.5 0.7 25 430-455 1-25 (39)
17 KOG4692 Predicted E3 ubiquitin 93.7 0.03 6.4E-07 58.1 1.4 29 426-455 421-449 (489)
18 KOG1785 Tyrosine kinase negati 93.2 0.027 5.9E-07 59.2 0.2 33 423-456 365-397 (563)
19 PF13445 zf-RING_UBOX: RING-ty 92.4 0.05 1.1E-06 40.1 0.6 25 430-456 1-29 (43)
20 PF00097 zf-C3HC4: Zinc finger 92.2 0.051 1.1E-06 38.5 0.5 26 430-456 1-27 (41)
21 KOG1814 Predicted E3 ubiquitin 91.3 0.066 1.4E-06 56.6 0.3 36 420-456 177-215 (445)
22 PF14634 zf-RING_5: zinc-RING 89.1 0.12 2.7E-06 37.6 0.1 27 430-457 2-31 (44)
23 PF14447 Prok-RING_4: Prokaryo 89.0 0.16 3.5E-06 39.6 0.7 27 428-455 8-34 (55)
24 PF15227 zf-C3HC4_4: zinc fing 87.4 0.26 5.7E-06 35.9 0.9 25 430-455 1-25 (42)
25 KOG0978 E3 ubiquitin ligase in 87.0 0.2 4.3E-06 56.4 0.2 37 417-455 634-670 (698)
26 PHA02929 N1R/p28-like protein; 86.3 0.31 6.8E-06 48.4 1.1 27 428-455 175-209 (238)
27 cd00162 RING RING-finger (Real 85.6 0.35 7.5E-06 33.5 0.8 26 429-455 1-27 (45)
28 COG5236 Uncharacterized conser 81.4 0.38 8.3E-06 50.1 -0.6 31 426-457 60-90 (493)
29 PF13639 zf-RING_2: Ring finge 81.1 0.69 1.5E-05 33.4 0.8 26 429-455 2-30 (44)
30 PHA02926 zinc finger-like prot 73.8 1.3 2.8E-05 43.9 0.6 27 428-455 171-206 (242)
31 COG5243 HRD1 HRD ubiquitin lig 73.0 2.1 4.5E-05 45.2 1.9 28 421-448 281-321 (491)
32 KOG0823 Predicted E3 ubiquitin 72.1 1.5 3.3E-05 43.3 0.7 26 428-454 48-73 (230)
33 smart00504 Ubox Modified RING 65.2 2.8 6E-05 32.0 0.7 26 429-455 3-28 (63)
34 KOG0320 Predicted E3 ubiquitin 62.6 1.9 4.2E-05 41.2 -0.7 28 428-456 132-161 (187)
35 KOG0317 Predicted E3 ubiquitin 62.3 2.1 4.6E-05 43.7 -0.6 27 427-454 239-265 (293)
36 COG5574 PEX10 RING-finger-cont 59.2 2.5 5.3E-05 42.7 -0.7 26 428-454 216-241 (271)
37 PF10367 Vps39_2: Vacuolar sor 51.2 18 0.0004 30.1 3.5 30 427-457 78-109 (109)
38 KOG2164 Predicted E3 ubiquitin 51.0 7.1 0.00015 42.7 1.1 27 427-454 186-212 (513)
39 KOG4159 Predicted E3 ubiquitin 45.2 7.2 0.00016 41.7 0.1 63 381-454 48-110 (398)
40 KOG2113 Predicted RNA binding 40.1 16 0.00034 38.1 1.5 29 428-456 344-372 (394)
41 KOG2879 Predicted E3 ubiquitin 38.3 15 0.00032 37.6 1.0 33 423-456 235-268 (298)
42 KOG0802 E3 ubiquitin ligase [P 36.4 19 0.0004 39.8 1.6 31 423-454 287-322 (543)
43 COG5152 Uncharacterized conser 36.1 6.9 0.00015 38.2 -1.6 27 429-456 198-224 (259)
44 KOG3039 Uncharacterized conser 33.5 18 0.0004 36.5 0.8 32 426-458 220-255 (303)
45 PF07010 Endomucin: Endomucin; 26.5 74 0.0016 31.9 3.6 37 104-140 184-226 (259)
46 PF14147 Spore_YhaL: Sporulati 25.3 49 0.0011 25.7 1.7 20 297-316 1-21 (52)
47 PF04710 Pellino: Pellino; In 24.5 25 0.00054 37.7 0.0 14 436-449 356-369 (416)
48 COG5540 RING-finger-containing 24.4 48 0.001 34.6 2.0 22 427-448 323-347 (374)
49 KOG2113 Predicted RNA binding 23.9 45 0.00097 34.9 1.7 31 427-457 136-166 (394)
50 smart00744 RINGv The RING-vari 23.7 50 0.0011 24.8 1.5 18 429-446 1-20 (49)
51 KOG4628 Predicted E3 ubiquitin 21.1 50 0.0011 34.9 1.4 21 429-449 231-254 (348)
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=1.6e-44 Score=351.97 Aligned_cols=236 Identities=46% Similarity=0.764 Sum_probs=189.3
Q ss_pred HhcCCccccchhHHHHHHHHHHHHHHhccccCCCCCCCCcccccchhhHHHHHHHHHHHHHHHHHhccccccccccccee
Q 012685 28 LKLDHVISYSWWIVFFPVWIFHAVVARGRFSLPAPSVPHNRHWAPCHAIVATPLLIAFELLLCIYLESIYEHGFEAVNLK 107 (458)
Q Consensus 28 LKLDg~I~wsWwiVFiPLWi~~~lv~~g~~~~~~~~~~~~~~wa~~~~~v~llLLl~FelLLc~kLe~~~~~~~~~~~~~ 107 (458)
||+||.++||||.||+|+|++++++++|.+........+++.++.+++....+++++||+|+|.||++... .+|.
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 69999999999999999999999999988655544455666677777777778999999999999965555 7999
Q ss_pred eehhhHHHHHHHHHHHHHHHhhhcCCCCCCcccchhhhccCCcchHHHHHHhhHHHHHHHHHHHHHHHhhhheeecCccc
Q 012685 108 IVFLPLLAFEITILIDNFRMCRALMPGDEESMNDEAIWEALPVSSVELAISNMHFWVAISMVFFVAATVFTLLKLCGYVG 187 (458)
Q Consensus 108 ~VFiPL~ill~~~i~~~~r~c~~~~p~~~e~~~~~~iw~~~~~rs~e~~~~~~~~~~~i~~~~~~~f~IfLaLKLDg~~i 187 (458)
+||+|+|++.+..+...+...|. +||++|+++++++|...+ +++..++++++++|++|++|||||. +
T Consensus 76 ~VFiPL~~l~~~~I~~~i~~~r~-~~~~~e~~~~~~~~~~~~-----------~~~~~l~~if~~~f~v~l~Lkld~~-i 142 (238)
T PF10269_consen 76 IVFIPLFVLSALSILICIWNFRH-MPGDGEEMSDRSIWFELP-----------FFWNILSLIFFLAFTVFLALKLDGV-I 142 (238)
T ss_pred eeeechhhHHHHHHHHHHHhhcc-CcccccCCCCchhhhhhh-----------HHHHHHHHHHHHHHHHHHHHhcCCc-c
Confidence 99999988886665444333333 999999999888776555 7889999999999999999999999 9
Q ss_pred ccceeehhhhHHHHHhhHhheecccCCCcccCCCCCCCCCCccchhhhcccccccccccccCCCCCccchhhhhh--HHh
Q 012685 188 ALGWWDLFINFGIAECFAFLVCTKWSNPVIHRSPQTRPATSSSAITYLDWNSGLVVSAEEEQNPDGMCGLSDIGG--HIM 265 (458)
Q Consensus 188 ~w~Ww~VFIPlwi~d~~~~lvc~~~~~p~i~~~~~~~~~~~~~~l~y~~w~~~~~~~~~e~~~q~r~~~~~~i~~--~ll 265 (458)
+||||+||+|+|++||+++++|.... ...+++.+|+++... +|++.+....+++ +++
T Consensus 143 ~~sW~~vFiPl~i~~~~~~~~~~~~~---------------i~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~ 201 (238)
T PF10269_consen 143 DWSWWIVFIPLWIADGLAFLVCLYSI---------------IMSIRYLDRNPGLLP------SQRRSSLQSRICWGGLFL 201 (238)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHhccCCCch------hhHHHHHHHHHHHHHHHH
Confidence 99999999999999999988642211 113345555544433 3444444445555 999
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCccchhhhHHHHHH
Q 012685 266 KVPVIGFQVLLCMHLEGTPAGARNIALPVLFSPLFLL 302 (458)
Q Consensus 266 ~ipll~FqiLLc~kLeg~~~~~~~~~~~~Vf~PL~il 302 (458)
++|+++||++||+||||++.+++++|+.+||+|||++
T Consensus 202 ~i~~l~F~vLL~~kLe~~~~~~~~~~~~~vf~PL~i~ 238 (238)
T PF10269_consen 202 VIPLLVFQVLLCMKLEGTPWSAANIPISVVFIPLFIL 238 (238)
T ss_pred HHHHHHHHHHHHHHhcCCccccccccHHHHHHHHHhC
Confidence 9999999999999999977666799999999999974
No 2
>KOG3879 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=1.5e-38 Score=302.18 Aligned_cols=195 Identities=25% Similarity=0.411 Sum_probs=179.4
Q ss_pred HHHHHHHHHHHHHhcccccccccccceeeehhhHHHHHHHHHHHHHHHhhhcCCCCCCcccchhhhccCCcchHHHHHHh
Q 012685 80 PLLIAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEITILIDNFRMCRALMPGDEESMNDEAIWEALPVSSVELAISN 159 (458)
Q Consensus 80 lLLl~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~~~i~~~~r~c~~~~p~~~e~~~~~~iw~~~~~rs~e~~~~~ 159 (458)
+++++||+|.|+|||.+++ -|.+||+||+..+.+++ ++|+|+.+|+|++|+++
T Consensus 9 l~llmfe~lvcdkle~~~h------fw~lvf~plff~s~vsv-------------------gacvw~~Rhd~a~ele~-- 61 (267)
T KOG3879|consen 9 LLLLMFEVLVCDKLERDYH------FWLLVFMPLFFVSPVSV-------------------GACVWGFRHDLAFELEF-- 61 (267)
T ss_pred HHHHHHHHHHhhhhccCce------ehHHHHHHHHhcChhhh-------------------hhhhhhhhcchHHHHHH--
Confidence 7789999999999999998 69999999999999999 88999999999999987
Q ss_pred hHHHHHHHHHHHHHHHhhhheeecCcccccceeehhhhHHHHHhhHhheecccCCCcccCCCCCCCCCCccchhhhcccc
Q 012685 160 MHFWVAISMVFFVAATVFTLLKLCGYVGALGWWDLFINFGIAECFAFLVCTKWSNPVIHRSPQTRPATSSSAITYLDWNS 239 (458)
Q Consensus 160 ~~~~~~i~~~~~~~f~IfLaLKLDg~~i~w~Ww~VFIPlwi~d~~~~lvc~~~~~p~i~~~~~~~~~~~~~~l~y~~w~~ 239 (458)
+.++|++| +||++||||.. ++|||.+||+|+||+|++++++ ++||++|+
T Consensus 62 ---~~avnilq----lIflaLKLD~~-v~WnW~VVFvPlWI~~sil~V~----------------------VLy~iv~s- 110 (267)
T KOG3879|consen 62 ---TWAVNILQ----LIFLALKLDKI-VHWNWFVVFVPLWIFDSILLVV----------------------VLYKIVWS- 110 (267)
T ss_pred ---HHHHHHHH----HHHHHHhcCcc-cCCceEEEeehHHHHHHHHHHH----------------------HHHHHHHH-
Confidence 88999999 99999999999 9999999999999999999998 89999999
Q ss_pred cccccccc-cCCCCCccchhhhhhHHhHHHHHHHHHHHHHhhcCCCCCCC-CccchhhhHHHHHHHHHHHHHhhhhhHHH
Q 012685 240 GLVVSAEE-EQNPDGMCGLSDIGGHIMKVPVIGFQVLLCMHLEGTPAGAR-NIALPVLFSPLFLLQGVGVVFSTTRLVEK 317 (458)
Q Consensus 240 ~~~~~~~e-~~~q~r~~~~~~i~~~ll~ipll~FqiLLc~kLeg~~~~~~-~~~~~~Vf~PL~il~~~~v~~~~~~l~e~ 317 (458)
++.+|+.| +++|+|.+...+++++..++|+++||++||.|||| +. .+||+++|+|+|++...++...+
T Consensus 111 ~~~lrs~~v~p~~rr~~l~~ai~~i~~Vlp~Laf~VlLc~KLdg----~~t~~sy~~vfaPLwlsl~t~i~~s~------ 180 (267)
T KOG3879|consen 111 VLFLRSRDVIPEQRRTHLTMAIWNITIVLPLLAFQVLLCHKLDG----HNTTFSYIVVFAPLWLSLLTAIATSG------ 180 (267)
T ss_pred HHhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----ccccceEEEEHHHHHHHHHHHHHHhc------
Confidence 99999999 99999999999999999999999999999999998 54 79999999999998777664333
Q ss_pred HHHHHHcCCCCceeEEeeccccccccccccCccc
Q 012685 318 IVILLRSGAGTGIYFRISSRAHDCFGFLHRGSRL 351 (458)
Q Consensus 318 ~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~l 351 (458)
+ ++|+.|||.++ +||++|+-.-+..
T Consensus 181 -----~-kggn~wwFGiR---k~fcqflle~~pf 205 (267)
T KOG3879|consen 181 -----S-KGGNHWWFGIR---KDFCQFLLEIFPF 205 (267)
T ss_pred -----c-CCCceEEEEec---chHHHHHHHHCHH
Confidence 3 67889999994 9999998766653
No 3
>KOG3879 consensus Predicted membrane protein [Function unknown]
Probab=99.75 E-value=2e-18 Score=165.20 Aligned_cols=113 Identities=25% Similarity=0.477 Sum_probs=91.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCccccchhHHHHHHHHHHHHHHhc---------cccCCCCCCCCcccccchh---h
Q 012685 8 KSVQAVAAHSLLLTFTLLLVLKLDHVISYSWWIVFFPVWIFHAVVARG---------RFSLPAPSVPHNRHWAPCH---A 75 (458)
Q Consensus 8 ~~~~~~~~~~~LlvF~ILLaLKLDg~I~wsWwiVFiPLWi~~~lv~~g---------~~~~~~~~~~~~~~wa~~~---~ 75 (458)
++++..++|+.-++|+|+|+||||.+++|||.+||+||||+|++.+.+ .+-|+++..++.+.-..+. .
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 456888999999999999999999999999999999999999998742 2456555554433321222 3
Q ss_pred HHHHHHHHHHHHHHHHHhcccccccccccceeeehhhHHHHHHHHHHHH
Q 012685 76 IVATPLLIAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEITILIDN 124 (458)
Q Consensus 76 ~v~llLLl~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~~~i~~~ 124 (458)
++.++++++||++||.||||+.+. ++++.||+|+|+++.+.++..
T Consensus 135 i~~Vlp~Laf~VlLc~KLdg~~t~----~sy~~vfaPLwlsl~t~i~~s 179 (267)
T KOG3879|consen 135 ITIVLPLLAFQVLLCHKLDGHNTT----FSYIVVFAPLWLSLLTAIATS 179 (267)
T ss_pred HHHHHHHHHHHHHHHHHhcCcccc----ceEEEEHHHHHHHHHHHHHHh
Confidence 467788999999999999988742 899999999999999888433
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=99.42 E-value=8.7e-13 Score=129.20 Aligned_cols=172 Identities=24% Similarity=0.326 Sum_probs=112.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCccccchhHHHHHHHHHHHHHHhcc-----c-cCCCCCCCCcccccc-hhhH--HHHHHH
Q 012685 12 AVAAHSLLLTFTLLLVLKLDHVISYSWWIVFFPVWIFHAVVARGR-----F-SLPAPSVPHNRHWAP-CHAI--VATPLL 82 (458)
Q Consensus 12 ~~~~~~~LlvF~ILLaLKLDg~I~wsWwiVFiPLWi~~~lv~~g~-----~-~~~~~~~~~~~~wa~-~~~~--v~llLL 82 (458)
.+..+.+++.|.++++.||++.-+.+|..||+|+|+..++.+... + ..+.+...++..|.. .+.. +..+..
T Consensus 48 ~~~~~lll~~f~~llc~~L~~~~~~~w~~VFiPL~~l~~~~I~~~i~~~r~~~~~~e~~~~~~~~~~~~~~~~~l~~if~ 127 (238)
T PF10269_consen 48 SVVAHLLLLAFELLLCIKLEGGSSISWSIVFIPLFVLSALSILICIWNFRHMPGDGEEMSDRSIWFELPFFWNILSLIFF 127 (238)
T ss_pred HHHHHHHHHHHHHHheeecCCCCcceeeeeeechhhHHHHHHHHHHHhhccCcccccCCCCchhhhhhhHHHHHHHHHHH
Confidence 557888999999999999988999999999999998887765322 2 111122233333322 1222 333446
Q ss_pred HHHHHHHHHHhcccccccccccceeeehhhHHHHHHHHHHH----HHHHhhhcCCCCCCcccchhhhccCCcchHHHHHH
Q 012685 83 IAFELLLCIYLESIYEHGFEAVNLKIVFLPLLAFEITILID----NFRMCRALMPGDEESMNDEAIWEALPVSSVELAIS 158 (458)
Q Consensus 83 l~FelLLc~kLe~~~~~~~~~~~~~~VFiPL~ill~~~i~~----~~r~c~~~~p~~~e~~~~~~iw~~~~~rs~e~~~~ 158 (458)
++|.++++.|||+..+ ++|..||+|+|+......+. ...+++...-..+ ...+ ++++ ..+
T Consensus 128 ~~f~v~l~Lkld~~i~-----~sW~~vFiPl~i~~~~~~~~~~~~~i~~~~~~~~~~~--~~~~------~~~~---~~~ 191 (238)
T PF10269_consen 128 LAFTVFLALKLDGVID-----WSWWIVFIPLWIADGLAFLVCLYSIIMSIRYLDRNPG--LLPS------QRRS---SLQ 191 (238)
T ss_pred HHHHHHHHHhcCCccc-----ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--Cchh------hHHH---HHH
Confidence 7899999999999988 99999999999999765532 2334433221101 0000 0111 111
Q ss_pred hhHHHH-HHHHHHHHHHHhhhheeecCccc----ccceeehhhhHHH
Q 012685 159 NMHFWV-AISMVFFVAATVFTLLKLCGYVG----ALGWWDLFINFGI 200 (458)
Q Consensus 159 ~~~~~~-~i~~~~~~~f~IfLaLKLDg~~i----~w~Ww~VFIPlwi 200 (458)
.+-.+. ..-++-+++|.++++.||||. . +.+...+|+|+|+
T Consensus 192 ~~~~~~~~~~~i~~l~F~vLL~~kLe~~-~~~~~~~~~~~vf~PL~i 237 (238)
T PF10269_consen 192 SRICWGGLFLVIPLLVFQVLLCMKLEGT-PWSAANIPISVVFIPLFI 237 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCC-ccccccccHHHHHHHHHh
Confidence 111110 123444578899999999999 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=98.34 E-value=4.1e-07 Score=83.59 Aligned_cols=57 Identities=25% Similarity=0.373 Sum_probs=50.1
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhcCCCCCccccCCCcchhhccCchhhhHHHHHHHHhhcc
Q 012685 339 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHENSSGYNTFCGYPPEVVKKMPKKELAEEVWRLQAALGQ 408 (458)
Q Consensus 339 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~~~~~~~~~c~~~p~~v~~~~~~e~~qe~~r~~~~~~e 408 (458)
+|.++=.+|++.|-+ |+++||||+|||+|+|. | ++|+..|++|++-.++....++.+
T Consensus 49 ~D~~~Cf~C~~~L~~-We~~DDPW~EH~k~~p~--------C----~F~~~~k~~e~~~~v~~~~~~~~~ 105 (147)
T KOG1101|consen 49 QDCVKCFFCSGGLDD-WEPGDDPWEEHAKWSPE--------C----EFLKLKKGREFLGTVQSTARALLA 105 (147)
T ss_pred CCceECcccCccccc-CCCCCCcHHHHHhhCCC--------C----ceeecccchhhhhHHHHhHhhhhh
Confidence 499999999999999 99999999999999999 9 999999999998877765543433
No 6
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=1e-07 Score=97.45 Aligned_cols=35 Identities=31% Similarity=0.631 Sum_probs=30.7
Q ss_pred hhhcccccccccCceeEEEecCCcccccccccCCC
Q 012685 424 QNEKVLCRVCFEGDISVVLLPCRHRILCRYDHLTL 458 (458)
Q Consensus 424 ~~e~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~l 458 (458)
+++.+.|+||+++.+|+++|||||+|+|+.||..|
T Consensus 287 ~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~L 321 (349)
T KOG4265|consen 287 SESGKECVICLSESRDTVVLPCRHLCLCSGCAKSL 321 (349)
T ss_pred ccCCCeeEEEecCCcceEEecchhhehhHhHHHHH
Confidence 34456899999999999999999999999999753
No 7
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3.4e-07 Score=88.48 Aligned_cols=146 Identities=13% Similarity=0.087 Sum_probs=88.3
Q ss_pred chhhhHHHHHHHHHHHHHhhhhhHHHHHHHHHcCCCC-ceeEEeeccccccccccccCccccccccCCCCChHHHhhhhh
Q 012685 292 LPVLFSPLFLLQGVGVVFSTTRLVEKIVILLRSGAGT-GIYFRISSRAHDCFGFLHRGSRLLGWWSIDEGSREDQARLVH 370 (458)
Q Consensus 292 ~~~Vf~PL~il~~~~v~~~~~~l~e~~~~~~~~~~~~-~~~~~~~s~~~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~ 370 (458)
...-+.|......++.+.-+.....+..-.-....++ .+++....|...+-....+|=...++|..+.+.-..+ ...+
T Consensus 41 ~~~~~~~~~~~~~l~~~e~~~~~~l~~k~~ei~~~~~~~~~l~~~~~~~~~e~~~w~~~a~~ne~~~~~l~~nl~-q~~~ 119 (207)
T KOG1100|consen 41 ELEENRQRELRNLLKAVEEALVKKLREKDEEIERIGNLNWELEERVKSLYVEAQIWRDRAQTNEATVNSLRTNLD-QVLA 119 (207)
T ss_pred HHHHhChHHHHHHHHHHHHHHHHHhhcchhHHHhcccccceehhhhhhhhhhHHHHHHHHHhChHHHHHHHHHHH-HHHH
Confidence 3344556666555555544443333333333334444 6777777888888888888888888777776444333 3334
Q ss_pred cCCCCCccccCCCcchhhccCchhhhHHHHHHHHhhccCcccccccHHHHHHhhhhcccccccccCceeEEEecCCcccc
Q 012685 371 ENSSGYNTFCGYPPEVVKKMPKKELAEEVWRLQAALGQQSEITNYSRQEFERLQNEKVLCRVCFEGDISVVLLPCRHRIL 450 (458)
Q Consensus 371 ~~~~~~~~~c~~~p~~v~~~~~~e~~qe~~r~~~~~~eq~~~~~~~~~e~~~l~~e~~~C~iC~~~~~~~v~lPC~H~~~ 450 (458)
.+ + +.++..++.+.....+....+ . -++..++.++....+. |+.|.+++.+|+++||+|+++
T Consensus 120 ~~----------~-~~~~~~~~~~~~~g~~~~~~~----~--s~~~~~~~~~~~~~~~-Cr~C~~~~~~VlllPCrHl~l 181 (207)
T KOG1100|consen 120 QC----------P-ASAPAEERGQKSCGDREADDG----K--SSYVDPSVDNFKRMRS-CRKCGEREATVLLLPCRHLCL 181 (207)
T ss_pred hc----------c-cccCchhhhccccCccccccc----c--ccccchhhhhhhcccc-ceecCcCCceEEeecccceEe
Confidence 41 1 223233333322223322111 1 1355666777777663 999999999999999999999
Q ss_pred cccccC
Q 012685 451 CRYDHL 456 (458)
Q Consensus 451 C~~Ca~ 456 (458)
|..|+.
T Consensus 182 C~~C~~ 187 (207)
T KOG1100|consen 182 CGICDE 187 (207)
T ss_pred cccccc
Confidence 999985
No 8
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=4.4e-07 Score=90.67 Aligned_cols=32 Identities=25% Similarity=0.656 Sum_probs=29.4
Q ss_pred cccccccccCceeEEEecCCcccccccccCCC
Q 012685 427 KVLCRVCFEGDISVVLLPCRHRILCRYDHLTL 458 (458)
Q Consensus 427 ~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~l 458 (458)
+.+|+||||.++|.|||||||.++|.+|..++
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm 331 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM 331 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc
Confidence 34899999999999999999999999998764
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=97.96 E-value=2.4e-06 Score=64.01 Aligned_cols=30 Identities=40% Similarity=0.763 Sum_probs=26.6
Q ss_pred ccccccccCceeEEEecCCcccccccccCC
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~ 457 (458)
..|.||+++..++++.||||.+.|.+|+.+
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=97.43 E-value=4.1e-05 Score=78.77 Aligned_cols=31 Identities=35% Similarity=0.700 Sum_probs=28.4
Q ss_pred ccccccccCceeEEEecCCcccccccccCCC
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYDHLTL 458 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~l 458 (458)
..|.||.+++-|++|+||||+|+|..|+..+
T Consensus 306 ~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l 336 (355)
T KOG1571|consen 306 DLCVVCLDEPKSAVFVPCGHVCCCTLCSKHL 336 (355)
T ss_pred CceEEecCCccceeeecCCcEEEchHHHhhC
Confidence 4799999999999999999999999998653
No 11
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=6.3e-05 Score=58.17 Aligned_cols=29 Identities=31% Similarity=0.724 Sum_probs=27.2
Q ss_pred cccccccCceeEEEecCCcccccccccCC
Q 012685 429 LCRVCFEGDISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 429 ~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~ 457 (458)
.|.||+|+++|.|+--|||++.|-+|+.+
T Consensus 9 ECTICye~pvdsVlYtCGHMCmCy~Cg~r 37 (62)
T KOG4172|consen 9 ECTICYEHPVDSVLYTCGHMCMCYACGLR 37 (62)
T ss_pred ceeeeccCcchHHHHHcchHHhHHHHHHH
Confidence 59999999999999999999999999754
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=95.52 E-value=0.0077 Score=47.94 Aligned_cols=32 Identities=16% Similarity=0.287 Sum_probs=28.3
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 012685 339 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 371 (458)
Q Consensus 339 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 371 (458)
.|-+.=.+||..+.+ |+++|+||+||++++|+
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 455666789999999 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=95.20 E-value=0.011 Score=46.76 Aligned_cols=32 Identities=19% Similarity=0.302 Sum_probs=29.0
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 012685 339 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 371 (458)
Q Consensus 339 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 371 (458)
+|-+.=.+|+..+.+ |+++|+||+||+++.|+
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 566777789999999 99999999999999999
No 14
>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=95.12 E-value=0.0071 Score=42.98 Aligned_cols=26 Identities=27% Similarity=0.686 Sum_probs=22.3
Q ss_pred ccccccCceeE-EEecCCcccccccccC
Q 012685 430 CRVCFEGDISV-VLLPCRHRILCRYDHL 456 (458)
Q Consensus 430 C~iC~~~~~~~-v~lPC~H~~~C~~Ca~ 456 (458)
|.||++...+. +++||||.. |.+|..
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 799999996 999864
No 15
>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=94.97 E-value=0.012 Score=47.04 Aligned_cols=32 Identities=19% Similarity=0.279 Sum_probs=27.4
Q ss_pred cccccccccCccccccccCCCCChHHHhhhhhc
Q 012685 339 HDCFGFLHRGSRLLGWWSIDEGSREDQARLVHE 371 (458)
Q Consensus 339 ~~~~~~~~~~~~l~~~W~~~~~~~ee~ar~~~~ 371 (458)
.|-+.=.+||..+.+ |+.+|+||+||.++.|+
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 788888999999999 89999999999999999
No 16
>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=94.68 E-value=0.012 Score=39.54 Aligned_cols=25 Identities=40% Similarity=0.874 Sum_probs=22.5
Q ss_pred ccccccCceeEEEecCCccccccccc
Q 012685 430 CRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 430 C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
|.||++...+.+.+||||.. |.+|.
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 88875
No 17
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.69 E-value=0.03 Score=58.13 Aligned_cols=29 Identities=41% Similarity=0.912 Sum_probs=25.6
Q ss_pred hcccccccccCceeEEEecCCccccccccc
Q 012685 426 EKVLCRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 426 e~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
|..+|-||..++++.||-||+|.. |..|-
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 345999999999999999999998 88773
No 18
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=93.19 E-value=0.027 Score=59.20 Aligned_cols=33 Identities=30% Similarity=0.652 Sum_probs=27.1
Q ss_pred hhhhcccccccccCceeEEEecCCcccccccccC
Q 012685 423 LQNEKVLCRVCFEGDISVVLLPCRHRILCRYDHL 456 (458)
Q Consensus 423 l~~e~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~ 456 (458)
+...-.+||||-|++.||=+=||||+. |+.|-.
T Consensus 365 MgsTFeLCKICaendKdvkIEPCGHLl-Ct~CLa 397 (563)
T KOG1785|consen 365 MGSTFELCKICAENDKDVKIEPCGHLL-CTSCLA 397 (563)
T ss_pred ccchHHHHHHhhccCCCcccccccchH-HHHHHH
Confidence 333334899999999999999999997 888853
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=92.36 E-value=0.05 Score=40.15 Aligned_cols=25 Identities=32% Similarity=0.721 Sum_probs=14.1
Q ss_pred ccccccCcee----EEEecCCcccccccccC
Q 012685 430 CRVCFEGDIS----VVLLPCRHRILCRYDHL 456 (458)
Q Consensus 430 C~iC~~~~~~----~v~lPC~H~~~C~~Ca~ 456 (458)
|.||.| ..+ -+.|||||.. |.+|..
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 677887 555 5779999998 888854
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=92.19 E-value=0.051 Score=38.50 Aligned_cols=26 Identities=42% Similarity=0.809 Sum_probs=22.9
Q ss_pred ccccccCceeEE-EecCCcccccccccC
Q 012685 430 CRVCFEGDISVV-LLPCRHRILCRYDHL 456 (458)
Q Consensus 430 C~iC~~~~~~~v-~lPC~H~~~C~~Ca~ 456 (458)
|.||++...+-+ ++||||.. |.+|..
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 988854
No 21
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.29 E-value=0.066 Score=56.56 Aligned_cols=36 Identities=31% Similarity=0.717 Sum_probs=28.7
Q ss_pred HHHhhhhcccccccccCce---eEEEecCCcccccccccC
Q 012685 420 FERLQNEKVLCRVCFEGDI---SVVLLPCRHRILCRYDHL 456 (458)
Q Consensus 420 ~~~l~~e~~~C~iC~~~~~---~~v~lPC~H~~~C~~Ca~ 456 (458)
.++.++..-.|-|||+... +++++||+|+. |..|..
T Consensus 177 ~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~-Ck~C~k 215 (445)
T KOG1814|consen 177 LEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVF-CKSCLK 215 (445)
T ss_pred HHHHHhhcccceeeehhhcCcceeeecccchHH-HHHHHH
Confidence 3455555667999999875 59999999987 999974
No 22
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=89.11 E-value=0.12 Score=37.62 Aligned_cols=27 Identities=30% Similarity=0.588 Sum_probs=22.0
Q ss_pred ccccccCc---eeEEEecCCcccccccccCC
Q 012685 430 CRVCFEGD---ISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 430 C~iC~~~~---~~~v~lPC~H~~~C~~Ca~~ 457 (458)
|.+|+++- ...++++|||.. |.+|..+
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 77787765 578999999997 9999754
No 23
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=89.00 E-value=0.16 Score=39.56 Aligned_cols=27 Identities=30% Similarity=0.487 Sum_probs=23.8
Q ss_pred ccccccccCceeEEEecCCccccccccc
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
..|..|......=+++||||++ |..|-
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I-~~~~f 34 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLI-CDNCF 34 (55)
T ss_pred eeEEEcccccccccccccccee-ecccc
Confidence 4799999999999999999998 87773
No 24
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=87.41 E-value=0.26 Score=35.89 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=20.6
Q ss_pred ccccccCceeEEEecCCccccccccc
Q 012685 430 CRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 430 C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
|-||+|-=.+=|-++|||.. |..|-
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 78999999999999999998 88874
No 25
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=86.96 E-value=0.2 Score=56.43 Aligned_cols=37 Identities=24% Similarity=0.452 Sum_probs=30.5
Q ss_pred HHHHHHhhhhcccccccccCceeEEEecCCccccccccc
Q 012685 417 RQEFERLQNEKVLCRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 417 ~~e~~~l~~e~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
++|+++.+ +...|.+|.++..|+|+.-|||+. |.+|.
T Consensus 634 ~EElk~yK-~~LkCs~Cn~R~Kd~vI~kC~H~F-C~~Cv 670 (698)
T KOG0978|consen 634 AEELKEYK-ELLKCSVCNTRWKDAVITKCGHVF-CEECV 670 (698)
T ss_pred HHHHHHHH-hceeCCCccCchhhHHHHhcchHH-HHHHH
Confidence 45555555 456899999999999999999998 88884
No 26
>PHA02929 N1R/p28-like protein; Provisional
Probab=86.27 E-value=0.31 Score=48.43 Aligned_cols=27 Identities=26% Similarity=0.502 Sum_probs=20.4
Q ss_pred ccccccccCcee--------EEEecCCccccccccc
Q 012685 428 VLCRVCFEGDIS--------VVLLPCRHRILCRYDH 455 (458)
Q Consensus 428 ~~C~iC~~~~~~--------~v~lPC~H~~~C~~Ca 455 (458)
..|.||++.-.+ .++.||+|.. |.+|-
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 88884
No 27
>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=85.64 E-value=0.35 Score=33.49 Aligned_cols=26 Identities=42% Similarity=0.796 Sum_probs=19.2
Q ss_pred cccccccCceeEE-EecCCccccccccc
Q 012685 429 LCRVCFEGDISVV-LLPCRHRILCRYDH 455 (458)
Q Consensus 429 ~C~iC~~~~~~~v-~lPC~H~~~C~~Ca 455 (458)
.|.+|++.-.+.+ +.||||.. |.+|.
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 45599996 77775
No 28
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.41 E-value=0.38 Score=50.05 Aligned_cols=31 Identities=26% Similarity=0.639 Sum_probs=27.0
Q ss_pred hcccccccccCceeEEEecCCcccccccccCC
Q 012685 426 EKVLCRVCFEGDISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 426 e~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~ 457 (458)
|+..|.||-+.-.=+..+||+|.. |--||.+
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 345899999999999999999998 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=81.08 E-value=0.69 Score=33.37 Aligned_cols=26 Identities=38% Similarity=0.616 Sum_probs=21.3
Q ss_pred cccccccCc---eeEEEecCCccccccccc
Q 012685 429 LCRVCFEGD---ISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 429 ~C~iC~~~~---~~~v~lPC~H~~~C~~Ca 455 (458)
.|.||++.- ..++.+||||.. |.+|.
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=73.85 E-value=1.3 Score=43.86 Aligned_cols=27 Identities=26% Similarity=0.454 Sum_probs=20.9
Q ss_pred ccccccccCce---------eEEEecCCccccccccc
Q 012685 428 VLCRVCFEGDI---------SVVLLPCRHRILCRYDH 455 (458)
Q Consensus 428 ~~C~iC~~~~~---------~~v~lPC~H~~~C~~Ca 455 (458)
..|.||||... --++.||+|.- |..|-
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 38999998732 24889999995 88874
No 31
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=73.01 E-value=2.1 Score=45.24 Aligned_cols=28 Identities=32% Similarity=0.685 Sum_probs=20.2
Q ss_pred HHhhhhcccccccccCcee-------------EEEecCCcc
Q 012685 421 ERLQNEKVLCRVCFEGDIS-------------VVLLPCRHR 448 (458)
Q Consensus 421 ~~l~~e~~~C~iC~~~~~~-------------~v~lPC~H~ 448 (458)
|++.+++..|.||||+-.. ===+||||.
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 32
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.14 E-value=1.5 Score=43.31 Aligned_cols=26 Identities=23% Similarity=0.508 Sum_probs=22.9
Q ss_pred ccccccccCceeEEEecCCcccccccc
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYD 454 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~C 454 (458)
-.|-||.|...|-|+=+|||+- |=.|
T Consensus 48 FdCNICLd~akdPVvTlCGHLF-CWpC 73 (230)
T KOG0823|consen 48 FDCNICLDLAKDPVVTLCGHLF-CWPC 73 (230)
T ss_pred eeeeeeccccCCCEEeecccce-ehHH
Confidence 3599999999999999999997 6555
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=65.17 E-value=2.8 Score=31.99 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=22.1
Q ss_pred cccccccCceeEEEecCCccccccccc
Q 012685 429 LCRVCFEGDISVVLLPCRHRILCRYDH 455 (458)
Q Consensus 429 ~C~iC~~~~~~~v~lPC~H~~~C~~Ca 455 (458)
.|.+|++--.|=|..||||.. |.+|-
T Consensus 3 ~Cpi~~~~~~~Pv~~~~G~v~-~~~~i 28 (63)
T smart00504 3 LCPISLEVMKDPVILPSGQTY-ERRAI 28 (63)
T ss_pred CCcCCCCcCCCCEECCCCCEE-eHHHH
Confidence 699999998899999999987 66653
No 34
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.62 E-value=1.9 Score=41.19 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=22.7
Q ss_pred ccccccccCceeEE--EecCCcccccccccC
Q 012685 428 VLCRVCFEGDISVV--LLPCRHRILCRYDHL 456 (458)
Q Consensus 428 ~~C~iC~~~~~~~v--~lPC~H~~~C~~Ca~ 456 (458)
-.|-|||+....-+ ---|||+. |.+|.+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvF-C~~Cik 161 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVF-CSQCIK 161 (187)
T ss_pred cCCCceecchhhccccccccchhH-HHHHHH
Confidence 36999999877666 36999998 999965
No 35
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=62.26 E-value=2.1 Score=43.66 Aligned_cols=27 Identities=26% Similarity=0.588 Sum_probs=23.5
Q ss_pred cccccccccCceeEEEecCCcccccccc
Q 012685 427 KVLCRVCFEGDISVVLLPCRHRILCRYD 454 (458)
Q Consensus 427 ~~~C~iC~~~~~~~v~lPC~H~~~C~~C 454 (458)
..+|.+|+|+..|=-.-||||.- |=.|
T Consensus 239 ~~kC~LCLe~~~~pSaTpCGHiF-CWsC 265 (293)
T KOG0317|consen 239 TRKCSLCLENRSNPSATPCGHIF-CWSC 265 (293)
T ss_pred CCceEEEecCCCCCCcCcCcchH-HHHH
Confidence 35899999999999999999997 6655
No 36
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.23 E-value=2.5 Score=42.71 Aligned_cols=26 Identities=27% Similarity=0.517 Sum_probs=22.6
Q ss_pred ccccccccCceeEEEecCCcccccccc
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYD 454 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~C 454 (458)
..|.+|++..-+-+-.||||+- |-.|
T Consensus 216 ~kC~lC~e~~~~ps~t~CgHlF-C~~C 241 (271)
T COG5574 216 YKCFLCLEEPEVPSCTPCGHLF-CLSC 241 (271)
T ss_pred cceeeeecccCCcccccccchh-hHHH
Confidence 3799999999999999999997 4444
No 37
>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=51.21 E-value=18 Score=30.11 Aligned_cols=30 Identities=23% Similarity=0.352 Sum_probs=22.6
Q ss_pred cccccccccCc--eeEEEecCCcccccccccCC
Q 012685 427 KVLCRVCFEGD--ISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 427 ~~~C~iC~~~~--~~~v~lPC~H~~~C~~Ca~~ 457 (458)
...|.+|..+= ...+..||||.+ -..|+.+
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 38
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.97 E-value=7.1 Score=42.75 Aligned_cols=27 Identities=26% Similarity=0.528 Sum_probs=23.5
Q ss_pred cccccccccCceeEEEecCCcccccccc
Q 012685 427 KVLCRVCFEGDISVVLLPCRHRILCRYD 454 (458)
Q Consensus 427 ~~~C~iC~~~~~~~v~lPC~H~~~C~~C 454 (458)
...|-||++.+...+..-|||.- |-.|
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiF-C~~C 212 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIF-CGPC 212 (513)
T ss_pred CCcCCcccCCCCcccccccCcee-eHHH
Confidence 34899999999999999999998 5556
No 39
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.20 E-value=7.2 Score=41.69 Aligned_cols=63 Identities=24% Similarity=0.403 Sum_probs=39.0
Q ss_pred CCCcchhhccCchhhhHHHHHHHHhhccCcccccccHHHHHHhhhhcccccccccCceeEEEecCCcccccccc
Q 012685 381 GYPPEVVKKMPKKELAEEVWRLQAALGQQSEITNYSRQEFERLQNEKVLCRVCFEGDISVVLLPCRHRILCRYD 454 (458)
Q Consensus 381 ~~~p~~v~~~~~~e~~qe~~r~~~~~~eq~~~~~~~~~e~~~l~~e~~~C~iC~~~~~~~v~lPC~H~~~C~~C 454 (458)
++|++..+.-++++..|-... +++..-...+++. ..| -.|-||+..--+-|-.||||-. |..|
T Consensus 48 ~~p~~~~~~~~~~~~~e~~~~------~~~~~~~s~~~~~---~se-f~c~vc~~~l~~pv~tpcghs~-c~~C 110 (398)
T KOG4159|consen 48 GVPNRCINEDPGKSSEETMAD------STPKALLSGPEEI---RSE-FECCVCSRALYPPVVTPCGHSF-CLEC 110 (398)
T ss_pred cCCHHHHhcccchhhhhhhhh------hhhhhhhccCccc---cch-hhhhhhHhhcCCCccccccccc-cHHH
Confidence 678888777777765443222 1111111112222 333 3699999998888888999987 8877
No 40
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=40.15 E-value=16 Score=38.10 Aligned_cols=29 Identities=7% Similarity=-0.235 Sum_probs=27.0
Q ss_pred ccccccccCceeEEEecCCcccccccccC
Q 012685 428 VLCRVCFEGDISVVLLPCRHRILCRYDHL 456 (458)
Q Consensus 428 ~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~ 456 (458)
..|-+|-++-....+.||+|-.-|.+||.
T Consensus 344 ~~~~~~~~~~~st~~~~~~~n~~~~~~a~ 372 (394)
T KOG2113|consen 344 LKGTSAGFGLLSTIWSGGNMNLSPGSLAS 372 (394)
T ss_pred cccccccCceeeeEeecCCcccChhhhhh
Confidence 47999999999999999999999999985
No 41
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.31 E-value=15 Score=37.60 Aligned_cols=33 Identities=27% Similarity=0.415 Sum_probs=23.9
Q ss_pred hhhhcccccccccCce-eEEEecCCcccccccccC
Q 012685 423 LQNEKVLCRVCFEGDI-SVVLLPCRHRILCRYDHL 456 (458)
Q Consensus 423 l~~e~~~C~iC~~~~~-~~v~lPC~H~~~C~~Ca~ 456 (458)
......+|.+|.+.+. -.+..||||.- |-.|..
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~Hiy-CY~Ci~ 268 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIY-CYYCIA 268 (298)
T ss_pred cccCCceeeccCCCCCCCeeecccccee-ehhhhh
Confidence 3334568999998765 47888899964 777753
No 42
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.43 E-value=19 Score=39.85 Aligned_cols=31 Identities=32% Similarity=0.457 Sum_probs=24.4
Q ss_pred hhhhcccccccccCcee-----EEEecCCcccccccc
Q 012685 423 LQNEKVLCRVCFEGDIS-----VVLLPCRHRILCRYD 454 (458)
Q Consensus 423 l~~e~~~C~iC~~~~~~-----~v~lPC~H~~~C~~C 454 (458)
+.+....|.||.|.-.+ .-.+||+|.. |..|
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 33344489999999988 7999999986 5555
No 43
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=36.08 E-value=6.9 Score=38.21 Aligned_cols=27 Identities=30% Similarity=0.652 Sum_probs=24.8
Q ss_pred cccccccCceeEEEecCCcccccccccC
Q 012685 429 LCRVCFEGDISVVLLPCRHRILCRYDHL 456 (458)
Q Consensus 429 ~C~iC~~~~~~~v~lPC~H~~~C~~Ca~ 456 (458)
.|-||.+.-.+-|.-.|||.. |+.||.
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
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.46 E-value=18 Score=36.47 Aligned_cols=32 Identities=22% Similarity=0.269 Sum_probs=25.5
Q ss_pred hcccccccccCc----eeEEEecCCcccccccccCCC
Q 012685 426 EKVLCRVCFEGD----ISVVLLPCRHRILCRYDHLTL 458 (458)
Q Consensus 426 e~~~C~iC~~~~----~~~v~lPC~H~~~C~~Ca~~l 458 (458)
++-.|.+|.|.- ..+|+-||||++ |.+|+.++
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 455799999864 457899999998 99997653
No 45
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=26.47 E-value=74 Score=31.86 Aligned_cols=37 Identities=30% Similarity=0.468 Sum_probs=27.3
Q ss_pred cceeeehhhHHHHHHH------HHHHHHHHhhhcCCCCCCccc
Q 012685 104 VNLKIVFLPLLAFEIT------ILIDNFRMCRALMPGDEESMN 140 (458)
Q Consensus 104 ~~~~~VFiPL~ill~~------~i~~~~r~c~~~~p~~~e~~~ 140 (458)
-+|+-|++|..+.+++ .++..+|||+.--||++|.-+
T Consensus 184 pS~S~vilpvvIaliVitl~vf~LvgLyr~C~k~dPg~p~~g~ 226 (259)
T PF07010_consen 184 PSYSSVILPVVIALIVITLSVFTLVGLYRMCWKTDPGTPENGP 226 (259)
T ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcccCC
Confidence 3677788887765543 345569999999999987654
No 46
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=25.33 E-value=49 Score=25.69 Aligned_cols=20 Identities=25% Similarity=0.456 Sum_probs=15.6
Q ss_pred HHHHH-HHHHHHHHhhhhhHH
Q 012685 297 SPLFL-LQGVGVVFSTTRLVE 316 (458)
Q Consensus 297 ~PL~i-l~~~~v~~~~~~l~e 316 (458)
+|+|+ +..+|++|++|..+-
T Consensus 1 ~PwWvY~vi~gI~~S~ym~v~ 21 (52)
T PF14147_consen 1 IPWWVYFVIAGIIFSGYMAVK 21 (52)
T ss_pred CcchHHHHHHHHHHHHHHHHH
Confidence 48888 778889999986653
No 47
>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=24.50 E-value=25 Score=37.65 Aligned_cols=14 Identities=29% Similarity=0.546 Sum_probs=0.0
Q ss_pred CceeEEEecCCccc
Q 012685 436 GDISVVLLPCRHRI 449 (458)
Q Consensus 436 ~~~~~v~lPC~H~~ 449 (458)
...+.+|-||||++
T Consensus 356 ~~pthaF~PCGHv~ 369 (416)
T PF04710_consen 356 GPPTHAFNPCGHVC 369 (416)
T ss_dssp --------------
T ss_pred CCCceeeccccccc
Confidence 34678999999997
No 48
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.42 E-value=48 Score=34.56 Aligned_cols=22 Identities=41% Similarity=0.933 Sum_probs=17.2
Q ss_pred cccccccccCce---eEEEecCCcc
Q 012685 427 KVLCRVCFEGDI---SVVLLPCRHR 448 (458)
Q Consensus 427 ~~~C~iC~~~~~---~~v~lPC~H~ 448 (458)
-..|.|||++-+ -++.+||.|.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~ 347 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHR 347 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCce
Confidence 457999998532 3789999996
No 49
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=23.90 E-value=45 Score=34.87 Aligned_cols=31 Identities=10% Similarity=0.173 Sum_probs=27.9
Q ss_pred cccccccccCceeEEEecCCcccccccccCC
Q 012685 427 KVLCRVCFEGDISVVLLPCRHRILCRYDHLT 457 (458)
Q Consensus 427 ~~~C~iC~~~~~~~v~lPC~H~~~C~~Ca~~ 457 (458)
...|.+|++++.=+-.+||||-+-|.+|+..
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 3579999999999999999999999999764
No 50
>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=23.74 E-value=50 Score=24.80 Aligned_cols=18 Identities=33% Similarity=1.082 Sum_probs=14.5
Q ss_pred ccccccc--CceeEEEecCC
Q 012685 429 LCRVCFE--GDISVVLLPCR 446 (458)
Q Consensus 429 ~C~iC~~--~~~~~v~lPC~ 446 (458)
.|+||++ .+-+....||.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~ 20 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCR 20 (49)
T ss_pred CccCCCCCCCCCCeeEeccc
Confidence 4999996 56677889995
No 51
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.06 E-value=50 Score=34.89 Aligned_cols=21 Identities=33% Similarity=0.975 Sum_probs=16.7
Q ss_pred cccccccC---ceeEEEecCCccc
Q 012685 429 LCRVCFEG---DISVVLLPCRHRI 449 (458)
Q Consensus 429 ~C~iC~~~---~~~~v~lPC~H~~ 449 (458)
.|.||+|. .--+..|||+|.-
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~F 254 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKF 254 (348)
T ss_pred eEEEeecccccCCeeeEecCCCch
Confidence 79999985 3357789999973
Done!