Query 005660
Match_columns 685
No_of_seqs 241 out of 626
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 11:48:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005660.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005660hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2659 LisH motif-containing 100.0 9.7E-36 2.1E-40 299.6 17.0 200 1-213 19-221 (228)
2 KOG2659 LisH motif-containing 100.0 1.6E-31 3.6E-36 269.1 11.1 146 433-578 59-210 (228)
3 KOG2817 Predicted E3 ubiquitin 100.0 1.1E-30 2.4E-35 278.0 11.2 218 10-249 118-360 (394)
4 KOG0396 Uncharacterized conser 99.9 3.1E-25 6.8E-30 234.4 15.1 177 3-195 110-288 (389)
5 PF10607 CLTH: CTLH/CRA C-term 99.9 3.5E-24 7.5E-29 200.3 12.6 134 52-196 2-140 (145)
6 PF10607 CLTH: CTLH/CRA C-term 99.7 1.3E-17 2.8E-22 156.1 10.5 134 438-574 1-143 (145)
7 smart00757 CRA CT11-RanBPM. pr 99.4 1.3E-12 2.8E-17 114.8 9.7 85 110-196 2-89 (99)
8 smart00668 CTLH C-terminal to 99.0 6E-10 1.3E-14 89.0 4.7 49 59-107 6-55 (58)
9 smart00757 CRA CT11-RanBPM. pr 98.8 9.7E-09 2.1E-13 90.2 7.3 85 491-575 1-93 (99)
10 smart00668 CTLH C-terminal to 98.7 1.5E-08 3.3E-13 80.9 5.2 56 439-494 2-57 (58)
11 KOG0396 Uncharacterized conser 98.5 4.1E-07 8.9E-12 98.0 11.2 136 435-573 149-291 (389)
12 KOG0293 WD40 repeat-containing 97.8 0.00012 2.5E-09 80.5 10.9 123 5-149 14-137 (519)
13 PF08513 LisH: LisH; InterPro 97.6 2.8E-05 6E-10 55.0 1.8 27 9-35 1-27 (27)
14 COG5109 Uncharacterized conser 97.6 7.3E-05 1.6E-09 79.6 4.7 208 17-249 109-362 (396)
15 smart00667 LisH Lissencephaly 97.5 8.6E-05 1.9E-09 52.8 2.7 32 7-38 2-33 (34)
16 KOG1477 SPRY domain-containing 97.3 5.6E-05 1.2E-09 85.2 -0.1 173 12-192 253-442 (469)
17 KOG2817 Predicted E3 ubiquitin 97.2 0.0011 2.3E-08 72.8 8.8 84 441-527 158-243 (394)
18 KOG0275 Conserved WD40 repeat- 90.0 1.9 4.1E-05 47.3 9.7 177 3-206 2-181 (508)
19 PF14555 UBA_4: UBA-like domai 86.3 1.7 3.8E-05 33.6 5.0 37 648-684 1-37 (43)
20 cd00194 UBA Ubiquitin Associat 77.3 6.1 0.00013 29.2 4.9 37 648-685 2-38 (38)
21 PF00627 UBA: UBA/TS-N domain; 74.4 7 0.00015 29.1 4.5 35 647-682 2-36 (37)
22 KOG0293 WD40 repeat-containing 73.6 23 0.0005 40.4 10.1 135 442-587 53-194 (519)
23 PF02845 CUE: CUE domain; Int 70.8 7.6 0.00017 29.8 4.1 37 648-684 2-39 (42)
24 PRK06369 nac nascent polypepti 70.0 7.4 0.00016 36.9 4.6 38 215-252 73-110 (115)
25 smart00165 UBA Ubiquitin assoc 68.6 11 0.00024 27.6 4.5 36 648-684 2-37 (37)
26 TIGR00264 alpha-NAC-related pr 67.1 8.6 0.00019 36.5 4.4 37 216-252 76-112 (116)
27 COG1308 EGD2 Transcription fac 64.0 14 0.00031 35.3 5.3 38 215-252 81-118 (122)
28 smart00546 CUE Domain that may 63.5 14 0.00031 28.3 4.4 35 650-684 5-40 (43)
29 PF14559 TPR_19: Tetratricopep 62.0 16 0.00035 29.2 4.6 54 448-513 1-57 (68)
30 KOG1477 SPRY domain-containing 57.4 7.8 0.00017 44.6 2.8 120 447-566 307-441 (469)
31 PRK06369 nac nascent polypepti 54.5 40 0.00087 32.1 6.5 60 616-681 51-110 (115)
32 PF00627 UBA: UBA/TS-N domain; 49.0 34 0.00073 25.5 4.2 34 218-252 2-35 (37)
33 COG1308 EGD2 Transcription fac 46.6 35 0.00076 32.8 4.8 38 644-681 81-118 (122)
34 KOG1333 Uncharacterized conser 37.3 17 0.00038 37.7 1.4 20 262-281 5-24 (241)
35 PRK10564 maltose regulon perip 36.8 57 0.0012 35.8 5.2 24 440-463 259-282 (303)
36 PF09398 FOP_dimer: FOP N term 35.5 19 0.00041 32.2 1.1 29 10-38 20-48 (81)
37 TIGR00264 alpha-NAC-related pr 32.5 87 0.0019 30.0 5.0 37 645-681 76-112 (116)
38 PRK10564 maltose regulon perip 29.0 69 0.0015 35.2 4.3 40 59-105 262-301 (303)
39 PF04053 Coatomer_WDAD: Coatom 24.9 2.1E+02 0.0045 32.9 7.4 76 10-119 296-371 (443)
40 PF04840 Vps16_C: Vps16, C-ter 24.5 3.7E+02 0.008 29.5 8.9 81 3-103 202-282 (319)
41 TIGR01470 cysG_Nterm siroheme 23.7 95 0.0021 31.7 4.0 65 440-505 135-205 (205)
42 KOG2910 Uncharacterized conser 22.0 1.1E+02 0.0024 31.7 4.0 59 60-123 45-117 (209)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=9.7e-36 Score=299.57 Aligned_cols=200 Identities=28% Similarity=0.423 Sum_probs=179.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhh
Q 005660 1 MESTPVNWEALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAH 80 (685)
Q Consensus 1 me~~~Vnk~~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~ 80 (685)
++.+.+..+++|+||+|||+++||.|+|+.|++|+|+..| ..|+++ ++.|. +||++|+.|+|+.||+.++++
T Consensus 19 ~~~~~~~~~d~n~LVmnylv~eg~~EaA~~Fa~e~~i~~~---~~d~~~--~~eR~---~Ir~~I~~G~Ie~Aie~in~l 90 (228)
T KOG2659|consen 19 LMKVSVMREDLNRLVMNYLVHEGYVEAAEKFAKESGIKPP---SIDLDS--MDERL---QIRRAIEEGQIEEAIEKVNQL 90 (228)
T ss_pred HhccCcchhhHHHHHHHHHHhccHHHHHHHhccccCCCCc---cCchhh--HhHHH---HHHHHHHhccHHHHHHHHHHh
Confidence 3578899999999999999999999999999999999853 245565 99999 999999999999999999999
Q ss_pred CcCccc-cCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCCCCCCchHhhh
Q 005660 81 APFILD-DHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKDDPTSPVAIEW 159 (685)
Q Consensus 81 ~P~LL~-ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~dpe~SPya~LL 159 (685)
+|++|+ |.+|+|+|++|+||||||.|. .++||+|||++|+|++ ..+++++.+++++|++|+| ++++.||+++||
T Consensus 91 ~PeiLd~n~~l~F~Lq~q~lIEliR~~~---~eeal~F~q~~LA~~a-~e~~~~~~elE~~l~lLvf-~~~~~sp~~~l~ 165 (228)
T KOG2659|consen 91 NPEILDTNRELFFHLQQLHLIELIREGK---TEEALEFAQTKLAPFA-EENPKKMEELERTLALLVF-ELSQESPSAELL 165 (228)
T ss_pred ChHHHccchhHHHHHHHHHHHHHHHhhh---HHHHHHHHHHHccccc-cccHHHHHHHHHHHHHHHc-CCcccCcHHHHH
Confidence 999999 889999999999999999999 9999999999999999 6777999999999999999 799999999999
Q ss_pred chhhHHHHHHH-HHHHHHhcccCCCcHHHHHHHHHHHHH-hhcCCCCCCCccccCC
Q 005660 160 AERRRFEIAGL-MSSVLRAHLHAYDPVFAMTLRYLIRLL-LEERDPPATPQESLYE 213 (685)
Q Consensus 160 s~srR~~LAee-NsAIL~~~~~a~~p~L~~LLK~llw~l-l~erD~p~~~~e~dL~ 213 (685)
+.++|+++|+. |++||..+.....|+|+.|+|.+.|.. -.+++..+.|...++.
T Consensus 166 ~~s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~~~~~~~~~~~~ 221 (228)
T KOG2659|consen 166 SQSLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQEELDREKFSEPHFKDLT 221 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHhhccccccCCcc
Confidence 99999999999 999999999888999999999999942 2334444443344333
No 2
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=99.97 E-value=1.6e-31 Score=269.09 Aligned_cols=146 Identities=22% Similarity=0.305 Sum_probs=133.9
Q ss_pred hhhhhhHHHHHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccccCc
Q 005660 433 REQQENYEIVLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAASHP 512 (685)
Q Consensus 433 ~~~~d~~e~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~~~p 512 (685)
.-+.++|+.|.+||++|..|+|++||+++|+|+|+|||+|++||||||||+||||||+|.+++||+|||++|+|.|++|+
T Consensus 59 ~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~ 138 (228)
T KOG2659|consen 59 SIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENP 138 (228)
T ss_pred cCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccH
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhHHHHHHHhcCCCCC--cccCC---CChHHHHHHHHHHHHhhhCC-CCchHHHHHHHHHHhhhHHHHh
Q 005660 513 ALLKPLKETLLALLQPNED--VLVKG---FPLHTLATSLQVAIGRRLGI-EEPQLMKILRATLHTHNEWFKL 578 (685)
Q Consensus 513 ~~L~~Le~tmalLa~p~~~--~~~~~---l~~~~la~~ln~Ai~~~~~~-~epkL~~LlKllLwaq~ew~k~ 578 (685)
+++.+||+||++|+||.++ |++.. ..|+++|+.||.||+.+++. .+|+|++|+|++.|+|++--+.
T Consensus 139 ~~~~elE~~l~lLvf~~~~~sp~~~l~~~s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~ 210 (228)
T KOG2659|consen 139 KKMEELERTLALLVFELSQESPSAELLSQSLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQEELDRE 210 (228)
T ss_pred HHHHHHHHHHHHHHcCCcccCcHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHh
Confidence 9999999999999997655 33332 26899999999999999995 6999999999999999854443
No 3
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=1.1e-30 Score=278.01 Aligned_cols=218 Identities=17% Similarity=0.234 Sum_probs=195.2
Q ss_pred HHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCcCccc-cC
Q 005660 10 ALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAPFILD-DH 88 (685)
Q Consensus 10 ~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P~LL~-ns 88 (685)
.+|.+|+.|++|+|..|+|+.|++|+|... + .......+.++++|.++|..||+.+|++|+..+...|.+ ++
T Consensus 118 ~ln~ai~~h~~rqGm~dv~~~l~~Ea~~~~------~-~~~~~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~s 190 (394)
T KOG2817|consen 118 VLNEAIVYHFYRQGMDDVGECLIKEAGLSE------D-ESKSRTEFVELNQIVEALKERDLEPALEWAESNRQKLKEKSS 190 (394)
T ss_pred HHHHHHHHHHHHcCchHHHHHHHHHhcCCC------c-chhhhhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhccccc
Confidence 369999999999999999999999999873 2 122377888999999999999999999999999999999 99
Q ss_pred ccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCC-CCCCchHhhhchhhHHHH
Q 005660 89 RLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKD-DPTSPVAIEWAERRRFEI 167 (685)
Q Consensus 89 ~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~d-pe~SPya~LLs~srR~~L 167 (685)
.|+|+||+++|+++++.|+ .+..+||.|||+|++||+ ..+..|||.+|++|.|... .+.|||.+++++..|.++
T Consensus 191 ~LE~~Lh~l~fl~l~~~g~-~~~~eAl~Yar~~~~~F~----~~~~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~ 265 (394)
T KOG2817|consen 191 SLEFKLHSLHFLSLIRGGK-SDQREALRYARTHFAPFV----ADHLREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKEL 265 (394)
T ss_pred cHHHHHHHHHHHHHHhcCC-cCcHHHHHHHHHhcCccc----cchHHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHH
Confidence 9999999999999999998 556699999999999998 5568999999999999855 789999999999999999
Q ss_pred HHH-HH-----------HHHHhcccCCCcHHHHHHHHH--HH---HHhhcCCCCCCCccccCCCCCCChHhHHHHHH---
Q 005660 168 AGL-MS-----------SVLRAHLHAYDPVFAMTLRYL--IR---LLLEERDPPATPQESLYEAPPFDEVDIQALAH--- 227 (685)
Q Consensus 168 Aee-Ns-----------AIL~~~~~a~~p~L~~LLK~l--lw---~ll~erD~p~~~~e~dL~~p~fdE~~i~~~~h--- 227 (685)
+.+ -. ++|+....+|+.+||.|+++. +. +.|..+|++|+ +++|+. .++||
T Consensus 266 ~~~f~r~ycallg~s~eSPL~v~v~aG~~Alp~Llk~~~v~~~~~~~W~~~deLPv--eIeL~~--------~~~fHSvF 335 (394)
T KOG2817|consen 266 TEEFTREYCALLGISVESPLSVLVNAGCIALPQLLKYKSVMELKHGEWNTKDELPV--EIELGK--------EYHFHSVF 335 (394)
T ss_pred HHHHHHHHHHHcCCCccCcHHHHHHhhHHHHHHHHHHHHHHHHhccCccccccCcc--ceeccc--------ccccccee
Confidence 988 11 788888889999999999754 33 36999999999 888888 77899
Q ss_pred HhhcchhHHHHH---HHHhcCcHHH
Q 005660 228 AVKITRQGAVDS---LRFARGDLFQ 249 (685)
Q Consensus 228 a~~i~RQqa~d~---Lr~~~Gdv~~ 249 (685)
+||++|||+++. |+++|||||.
T Consensus 336 ~CPVlKeqtsdeNPPm~L~CGHVIS 360 (394)
T KOG2817|consen 336 ICPVLKEQTSDENPPMMLICGHVIS 360 (394)
T ss_pred ecccchhhccCCCCCeeeeccceec
Confidence 999999999999 9999999986
No 4
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.93 E-value=3.1e-25 Score=234.40 Aligned_cols=177 Identities=20% Similarity=0.241 Sum_probs=160.1
Q ss_pred CCCCCHHHHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCc
Q 005660 3 STPVNWEALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAP 82 (685)
Q Consensus 3 ~~~Vnk~~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P 82 (685)
...|++..+||+|++||.|.||+++|..|.++++++ |+.. ++.......|+++|+.|++.+||.||++|.-
T Consensus 110 ~~~w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~le-------dlvD--~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~ 180 (389)
T KOG0396|consen 110 SRKWPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLE-------DLVD--SDVYKRAYGIRDSLLAGELEPALSWCKEHKV 180 (389)
T ss_pred HHHhHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhh-------hhHh--HHHHHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence 356889999999999999999999999999999987 3333 4444456799999999999999999999999
Q ss_pred Cccc-cCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCCCCCCchHhhhch
Q 005660 83 FILD-DHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKDDPTSPVAIEWAE 161 (685)
Q Consensus 83 ~LL~-ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~dpe~SPya~LLs~ 161 (685)
.|.+ ++.|+|.|+.|+|||||+.++ ..+||+|||+||+|++ ..+.++++.+||+|||++.+..|+|..+++.
T Consensus 181 ~LkK~~S~lEf~lRlQefIELi~~~~---~~~Ai~~akk~f~~~~----~~~~~~Lk~a~g~laF~~~t~~sky~~l~~~ 253 (389)
T KOG0396|consen 181 ELKKEESSLEFQLRLQEFIELIKVDN---YDKAIAFAKKHFAPWA----KSHKSDLKLAMGLLAFPKYTSSSKYLNLLTA 253 (389)
T ss_pred HHHhccchhhhHHHHHHHHHHHHhcc---HHHHHHHHHHHHhhhh----hhhHHHHHHHHHhhcCccccCcccccCcccH
Confidence 9998 999999999999999999998 9999999999999999 6889999999999999999999999999999
Q ss_pred hhHHHHHHH-HHHHHHhcccCCCcHHHHHHHHHHH
Q 005660 162 RRRFEIAGL-MSSVLRAHLHAYDPVFAMTLRYLIR 195 (685)
Q Consensus 162 srR~~LAee-NsAIL~~~~~a~~p~L~~LLK~llw 195 (685)
.||..+++. -+.-++...-+..|.|...+.++++
T Consensus 254 ~rw~~l~~lF~s~a~~l~~i~~~~~L~~~l~~GLs 288 (389)
T KOG0396|consen 254 DRWSVLADLFLSEALKLFGIPINPALTIYLQAGLS 288 (389)
T ss_pred HHHHHHHHHhhHHHHHHhCCCCCcHHHHHHHhhhh
Confidence 999999999 4445666667788999999999988
No 5
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=99.91 E-value=3.5e-24 Score=200.34 Aligned_cols=134 Identities=32% Similarity=0.449 Sum_probs=125.4
Q ss_pred hhhHHHHHHHHHHHHcCCHHHHHHHHHhhCcCccc-cCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccccCC
Q 005660 52 YHSRLIIRQIRRSLEYGDIDAAIDLLRAHAPFILD-DHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALDAY 130 (685)
Q Consensus 52 i~~R~~i~~IreaIl~GdId~ALewln~~~P~LL~-ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~ 130 (685)
+..|. +|+++|++||+++|++|+++++|.+++ ++.|+|.|++|+|||||+.++ ..+||+|||++|.|+.
T Consensus 2 ~~~r~---~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~---~~~Ai~y~r~~l~~~~---- 71 (145)
T PF10607_consen 2 FKERK---KIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGD---IMEAIEYARKHLSPFN---- 71 (145)
T ss_pred HHHHH---HHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHh---HHHHHHHHHHHhhhhH----
Confidence 55666 999999999999999999999999999 899999999999999999988 9999999999998776
Q ss_pred hhHHHHHHHHHhHhcccCCCCC---CchHhhhchhhHHHHHHH-HHHHHHhcccCCCcHHHHHHHHHHHH
Q 005660 131 PEAYEEFKHVLLTFIYDKDDPT---SPVAIEWAERRRFEIAGL-MSSVLRAHLHAYDPVFAMTLRYLIRL 196 (685)
Q Consensus 131 pe~l~ELe~~MgLLAY~~dpe~---SPya~LLs~srR~~LAee-NsAIL~~~~~a~~p~L~~LLK~llw~ 196 (685)
..+.++|+++|+||+| .++.. +||++++++.+|..||+. |++++...+.+..|.|+.+++++.|.
T Consensus 72 ~~~~~~l~~~~~lL~~-~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~ 140 (145)
T PF10607_consen 72 DEFLEELKKLMSLLAY-PDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSA 140 (145)
T ss_pred HHHHHHHHHHHHHHHc-CCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHH
Confidence 3788999999999999 67665 899999999999999999 99999999999999999999999884
No 6
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=99.73 E-value=1.3e-17 Score=156.08 Aligned_cols=134 Identities=25% Similarity=0.327 Sum_probs=120.1
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccccCccchhh
Q 005660 438 NYEIVLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAASHPALLKP 517 (685)
Q Consensus 438 ~~e~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~~~p~~L~~ 517 (685)
++..|.+|+++|.+|++++||+.+|+..|++++.|+.|.|.|+.|+||||||+|++.+|++||+++|.|... ++.++
T Consensus 1 ~~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~~---~~~~~ 77 (145)
T PF10607_consen 1 SFKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFND---EFLEE 77 (145)
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhHH---HHHHH
Confidence 367899999999999999999999999999999999999999999999999999999999999999977666 78999
Q ss_pred HHHHHHHhcCCCCCc-----ccCC---CChHHHHHHHHHHHHhhhCC-CCchHHHHHHHHHHhhhH
Q 005660 518 LKETLLALLQPNEDV-----LVKG---FPLHTLATSLQVAIGRRLGI-EEPQLMKILRATLHTHNE 574 (685)
Q Consensus 518 Le~tmalLa~p~~~~-----~~~~---l~~~~la~~ln~Ai~~~~~~-~epkL~~LlKllLwaq~e 574 (685)
++++|++|+|+.... +... -.+.+|+..+|.+++...|. .+|.|..+++...|+...
T Consensus 78 l~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~ 143 (145)
T PF10607_consen 78 LKKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKT 143 (145)
T ss_pred HHHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhh
Confidence 999999999876542 2111 25699999999999999995 799999999999998753
No 7
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.40 E-value=1.3e-12 Score=114.80 Aligned_cols=85 Identities=19% Similarity=0.200 Sum_probs=77.9
Q ss_pred cHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCCC-CCCchHhhhchhhHHHHHHH-HHHHHHhc-ccCCCcHH
Q 005660 110 DRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKDD-PTSPVAIEWAERRRFEIAGL-MSSVLRAH-LHAYDPVF 186 (685)
Q Consensus 110 ~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~dp-e~SPya~LLs~srR~~LAee-NsAIL~~~-~~a~~p~L 186 (685)
++.+||.|||++|+||. ..++..+++|+++|+|||| .++ +.+||++++++++|..+|++ |.+||... +....|.|
T Consensus 2 ~~~eAi~yar~~l~~~~-~~~~~~~~el~~~m~llaf-~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L 79 (99)
T smart00757 2 KIEEALAYARELLAPFA-KEHEKFLKELEKTMALLAY-PDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPL 79 (99)
T ss_pred cHHHHHHHHHHHHhhhc-ccCHHHHHHHHHHHHHHhc-CCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChH
Confidence 38899999999999998 6677778999999999999 666 89999999999999999999 99999998 77778999
Q ss_pred HHHHHHHHHH
Q 005660 187 AMTLRYLIRL 196 (685)
Q Consensus 187 ~~LLK~llw~ 196 (685)
+.++++++|.
T Consensus 80 ~~~~~~~~~~ 89 (99)
T smart00757 80 EILLSAGLAA 89 (99)
T ss_pred HHHHHHHHHH
Confidence 9999999984
No 8
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=98.97 E-value=6e-10 Score=89.04 Aligned_cols=49 Identities=41% Similarity=0.724 Sum_probs=47.0
Q ss_pred HHHHHHHHcCCHHHHHHHHHhhCcCccc-cCccceehhhhHHHHHHhcCC
Q 005660 59 RQIRRSLEYGDIDAAIDLLRAHAPFILD-DHRLLFRLQKQKFIELLRRGT 107 (685)
Q Consensus 59 ~~IreaIl~GdId~ALewln~~~P~LL~-ns~LeFkL~~QqFIELIR~g~ 107 (685)
..|+++|+.|+|++|++|++.++|.+.+ ++.++|.|++|+|||||+.+.
T Consensus 6 ~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~ 55 (58)
T smart00668 6 KRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGK 55 (58)
T ss_pred HHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCC
Confidence 3999999999999999999999999999 899999999999999999886
No 9
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=98.82 E-value=9.7e-09 Score=90.23 Aligned_cols=85 Identities=31% Similarity=0.338 Sum_probs=72.3
Q ss_pred CChhhHHHHHHhhcCcccccCccchhhHHHHHHHhcCCCC-C--cccCCC---ChHHHHHHHHHHHHhhh-CC-CCchHH
Q 005660 491 GDHSGALRVACAHLGPLAASHPALLKPLKETLLALLQPNE-D--VLVKGF---PLHTLATSLQVAIGRRL-GI-EEPQLM 562 (685)
Q Consensus 491 g~~~~AL~fA~~~L~p~~~~~p~~L~~Le~tmalLa~p~~-~--~~~~~l---~~~~la~~ln~Ai~~~~-~~-~epkL~ 562 (685)
+++.+||.|||++|+|.+.+++.++++|+++|+||+||.. . +....+ .+.+|+..+|.+++... |. .+|.|.
T Consensus 1 ~~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L~ 80 (99)
T smart00757 1 GKIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPLE 80 (99)
T ss_pred CcHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChHH
Confidence 4689999999999999999999999999999999999765 2 222112 46999999999999998 75 689999
Q ss_pred HHHHHHHHhhhHH
Q 005660 563 KILRATLHTHNEW 575 (685)
Q Consensus 563 ~LlKllLwaq~ew 575 (685)
.++|..+|++..-
T Consensus 81 ~~~~~~~~~~~~l 93 (99)
T smart00757 81 ILLSAGLAALKTL 93 (99)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999987743
No 10
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=98.73 E-value=1.5e-08 Score=80.91 Aligned_cols=56 Identities=29% Similarity=0.429 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChh
Q 005660 439 YEIVLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHS 494 (685)
Q Consensus 439 ~e~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~ 494 (685)
+..+..|+++|..|++++||+.++.++|.++..++.+.|.|++|+|||||+.|++.
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~~ 57 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKLE 57 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCcC
Confidence 46789999999999999999999999999999999999999999999999999764
No 11
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.55 E-value=4.1e-07 Score=98.03 Aligned_cols=136 Identities=24% Similarity=0.277 Sum_probs=106.6
Q ss_pred hhhhHHHHHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccccCccc
Q 005660 435 QQENYEIVLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAASHPAL 514 (685)
Q Consensus 435 ~~d~~e~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~~~p~~ 514 (685)
|-|-|.....|++++..|.++.|+.-.++=.-++=..+..|=|++.+|+|||||+.+++.+|+.||+.|++|.+.++
T Consensus 149 D~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~~~~--- 225 (389)
T KOG0396|consen 149 DSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWAKSH--- 225 (389)
T ss_pred hHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhhhhh---
Confidence 46778888999999999999999999999888888999999999999999999999999999999999999999966
Q ss_pred hhhHHHHHHHhcCCCCCcccCC---CCh---HHHHHHHHHHHHhhhCC-CCchHHHHHHHHHHhhh
Q 005660 515 LKPLKETLLALLQPNEDVLVKG---FPL---HTLATSLQVAIGRRLGI-EEPQLMKILRATLHTHN 573 (685)
Q Consensus 515 L~~Le~tmalLa~p~~~~~~~~---l~~---~~la~~ln~Ai~~~~~~-~epkL~~LlKllLwaq~ 573 (685)
..+|+.+|++||||.....++- +.. +.+++--..--...-++ .+|.|-.++-+=|-++.
T Consensus 226 ~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~~l~~i~~~~~L~~~l~~GLsalK 291 (389)
T KOG0396|consen 226 KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEALKLFGIPINPALTIYLQAGLSALK 291 (389)
T ss_pred HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHHHHhCCCCCcHHHHHHHhhhhhcc
Confidence 4899999999999876645421 222 33333222111222243 77888777775554443
No 12
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=97.81 E-value=0.00012 Score=80.46 Aligned_cols=123 Identities=15% Similarity=0.158 Sum_probs=99.0
Q ss_pred CCCHHHHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhh-CcC
Q 005660 5 PVNWEALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAH-APF 83 (685)
Q Consensus 5 ~Vnk~~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~-~P~ 83 (685)
-+.+..+.+++.+.|+..||.+++..+..|+|+..+. .+ .....+.++.|+++.++.-+... ++.
T Consensus 14 likk~efi~il~q~l~slgy~~S~~~lE~es~ll~~t------at--------~klf~q~vlqg~w~q~v~~~~~i~~~d 79 (519)
T KOG0293|consen 14 LIKKGEFIRILWQILYSLGYDHSSPLLEWESGLLIPT------AT--------TKLFDQQVLQGQWDQQVMSLVRISFED 79 (519)
T ss_pred eeccchhhHhHHHHHHhcCccccchhhHHhhCccccc------ch--------HHHHHHHHHcccHHHHHHHHhhccCcc
Confidence 3567789999999999999999999999999998541 11 12458899999999999988877 544
Q ss_pred ccccCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCC
Q 005660 84 ILDDHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKD 149 (685)
Q Consensus 84 LL~ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~d 149 (685)
...-....|.|.+|.|+|+++.|. +.+|+...|..+.+.. --.+.+.++..-|.++++
T Consensus 80 e~~~~ea~fLv~kQ~fLEf~k~~~---is~al~~l~~~~~~lr-----~~~kk~~el~~sll~sn~ 137 (519)
T KOG0293|consen 80 ERNRKEAMFLVNKQIFLEFLKTGS---ISHALPVLRNPVLYLR-----KNKKKFHELASSLLVSND 137 (519)
T ss_pred hhhhHHHHHHHHHHHHHHHHhhcc---HhhhhHhhhcchhhhh-----hhHHHHHHHHHHHhcccc
Confidence 222567899999999999999999 9999999997777664 224568888888999543
No 13
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=97.62 E-value=2.8e-05 Score=54.97 Aligned_cols=27 Identities=19% Similarity=0.284 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHcCChhhHhhhcCCC
Q 005660 9 EALDALILEFAKSENLIEDSIVSSPPS 35 (685)
Q Consensus 9 ~~LnrLVldYLvreGY~EtAeaFa~ES 35 (685)
++||++|.+||+++||.+||.+|.+|+
T Consensus 1 ~~Ln~lI~~YL~~~Gy~~tA~~f~~Ea 27 (27)
T PF08513_consen 1 EELNQLIYDYLVENGYKETAKAFAKEA 27 (27)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHCCcHHHHHHHHhcC
Confidence 579999999999999999999998875
No 14
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.56 E-value=7.3e-05 Score=79.58 Aligned_cols=208 Identities=12% Similarity=0.043 Sum_probs=142.3
Q ss_pred HHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCcCccc-cCccceehh
Q 005660 17 EFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAPFILD-DHRLLFRLQ 95 (685)
Q Consensus 17 dYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P~LL~-ns~LeFkL~ 95 (685)
.++.+.|=..-+.-|+.+.|...+. . ..+.+..+..|.+-|.+.+.-.-|+|. +...-+-+ ++.+++.|.
T Consensus 109 l~~~n~~dv~~~hi~~~~~g~~e~~------~--~~~~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~kgdtesel~l~ 179 (396)
T COG5109 109 LLENNCADVVERHISETKDGKDEII------K--IRDGFVKLKKVISGISEKSTFLLIEFL-QIEGYLSKGDTESELELY 179 (396)
T ss_pred HHHhhHHHHHHHHHHHhhcCccchh------h--HHHHHHHHHHHHHhhccchhHhHHHHH-HhcCccccCCchhhhHHH
Confidence 3344444445556667777776321 1 145666677999999999999999999 55555555 776666666
Q ss_pred hhHHHHHHhcCCCccHHHHHHHHHHhcccccccCChhHHHHHHHHHhHhcccCCCC-CC-------chHhhhc-------
Q 005660 96 KQKFIELLRRGTTEDRKSAINCLRTALAPCALDAYPEAYEEFKHVLLTFIYDKDDP-TS-------PVAIEWA------- 160 (685)
Q Consensus 96 ~QqFIELIR~g~e~~~~EALeyARt~LaP~ald~~pe~l~ELe~~MgLLAY~~dpe-~S-------Pya~LLs------- 160 (685)
.-...-+.-..+ ...+|+.|.++.++.|. +.|...++.+|-.|.+.+... -+ ...+++.
T Consensus 180 ~~~~esl~l~hk--~~~~a~r~c~t~~a~f~----~kh~~dv~~~~~~l~nap~dcfrhrekelmqnI~~~l~ksligqP 253 (396)
T COG5109 180 LVSHESLLLIHK--RYDEALRLCFTKLASFV----PKHIQDVKPLLRFLVNAPTDCFRHREKELMQNIQEALKKSLIGQP 253 (396)
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHHH----HHhccchHHHHHHHHcCchHHhhhcchhHHHHHHHHHHHhhcCCc
Confidence 665555554443 38999999999999998 888899999999888842210 00 1111111
Q ss_pred ----------------hhhHHHHHHH---HHHHHHhcccCCCcHHHHHHHHHHH-----HHhhcCCCCCCCccccCCCCC
Q 005660 161 ----------------ERRRFEIAGL---MSSVLRAHLHAYDPVFAMTLRYLIR-----LLLEERDPPATPQESLYEAPP 216 (685)
Q Consensus 161 ----------------~srR~~LAee---NsAIL~~~~~a~~p~L~~LLK~llw-----~ll~erD~p~~~~e~dL~~p~ 216 (685)
.--+.-.|.. |.++|+-...+|..+|+.++|+.-- .=|-+++++|+ ++-|+.
T Consensus 254 iEdIDkvnk~~k~l~~lF~~eycaa~gm~~~spL~~~v~tG~iaf~~l~k~~si~~~kHvdWT~~~eLP~--eIklp~-- 329 (396)
T COG5109 254 IEDIDKVNKSRKKLIELFKSEYCAANGMPNRSPLRELVETGTIAFLQLSKSGSILFDKHVDWTDDSELPM--EIKLPK-- 329 (396)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHhcCCCccChHHHHHHhhhHHHHHHHHhhhHHHhhccCccCCCCCce--EEecCC--
Confidence 1122223333 5577777777888888888876533 25668899998 776665
Q ss_pred CChHhHHHHHH---HhhcchhHHHHH---HHHhcCcHHH
Q 005660 217 FDEVDIQALAH---AVKITRQGAVDS---LRFARGDLFQ 249 (685)
Q Consensus 217 fdE~~i~~~~h---a~~i~RQqa~d~---Lr~~~Gdv~~ 249 (685)
-..+| -||.+..++++- +++.|||||.
T Consensus 330 ------~~hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIs 362 (396)
T COG5109 330 ------GRHFHSLFICPVLKELCTDENPPVMLECGHVIS 362 (396)
T ss_pred ------cccccceeeccccHhhhcccCCCeeeeccceee
Confidence 23566 799999999998 9999999985
No 15
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=97.47 E-value=8.6e-05 Score=52.78 Aligned_cols=32 Identities=25% Similarity=0.235 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHHHHHcCChhhHhhhcCCCCCC
Q 005660 7 NWEALDALILEFAKSENLIEDSIVSSPPSSPS 38 (685)
Q Consensus 7 nk~~LnrLVldYLvreGY~EtAeaFa~ESgi~ 38 (685)
.+.+++++|++||.++||.++|.+|.+|+++.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 57889999999999999999999999999874
No 16
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=97.29 E-value=5.6e-05 Score=85.18 Aligned_cols=173 Identities=16% Similarity=0.061 Sum_probs=125.6
Q ss_pred HHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCc-----cc-------CCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHh
Q 005660 12 DALILEFAKSENLIEDSIVSSPPSSPSSSSTSS-----VS-------LSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRA 79 (685)
Q Consensus 12 nrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~-----~D-------l~s~~i~~R~~i~~IreaIl~GdId~ALewln~ 79 (685)
...+-.|+++.||.+++..|+..+.-..++... .+ .....+..|. -+...+.+|....++.....
T Consensus 253 t~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~---g~~~~~~~g~~~~~~~~~~~ 329 (469)
T KOG1477|consen 253 TVPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRK---GRGQFTRNGAYNAALIPTYR 329 (469)
T ss_pred CCCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhc---Ccceeechhhhccccccccc
Confidence 346778999999999999998876443211100 01 0111112222 33334445555555444444
Q ss_pred hCcCccc--cCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhccccccc--CChhHHHHHHHHHhHhcccCCCCCCch
Q 005660 80 HAPFILD--DHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCALD--AYPEAYEEFKHVLLTFIYDKDDPTSPV 155 (685)
Q Consensus 80 ~~P~LL~--ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~ald--~~pe~l~ELe~~MgLLAY~~dpe~SPy 155 (685)
....+.+ .+...++++|+.+|++.|-+. +...+.+-+.+|++.. . .+..+.++++.+|+||+| .+|..||.
T Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~---v~~e~~~~k~~l~~~~-g~~~~~~~~~~~~~s~~Llay-s~p~~s~~ 404 (469)
T KOG1477|consen 330 KVGQVFEVDYPQRGAKDPCGLHVNLGRAGF---VFIEANAKKWELAKDY-GIKKNSAAVGMLSDSSSLLAY-SDPEESPV 404 (469)
T ss_pred ccceeecccccchhhccchhhhhhHHHHHH---HHHHHHHHHHhhhhhh-CcCccccccccccchHHHHHh-cCcccCcc
Confidence 4444444 477999999999999999998 9999998888888764 2 345667889999999999 99999999
Q ss_pred HhhhchhhHHHHHHH-HHHHHHhcccCCCcHHHHHHHH
Q 005660 156 AIEWAERRRFEIAGL-MSSVLRAHLHAYDPVFAMTLRY 192 (685)
Q Consensus 156 a~LLs~srR~~LAee-NsAIL~~~~~a~~p~L~~LLK~ 192 (685)
..++++.+|.-+++. |++||....+.+.+.|+..++.
T Consensus 405 g~~~~~~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~~ 442 (469)
T KOG1477|consen 405 GYLLDPIQREPVAEALNSAILETDNNSKDPDLERVLSQ 442 (469)
T ss_pred ccccCcccchhHHhhhcccccccCCCCccchhhhhhcc
Confidence 999999999999999 9999999998888887766643
No 17
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.0011 Score=72.84 Aligned_cols=84 Identities=25% Similarity=0.341 Sum_probs=76.4
Q ss_pred HHHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChh--hHHHHHHhhcCcccccCccchhhH
Q 005660 441 IVLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHS--GALRVACAHLGPLAASHPALLKPL 518 (685)
Q Consensus 441 ~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~--~AL~fA~~~L~p~~~~~p~~L~~L 518 (685)
...+|-+++++|++.-|++-+-.=-=.+.+.+..|=|-|..++|+.+|+.|..+ +||.+|+.|++|++..+ ++|+
T Consensus 158 el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~~~~---~~eI 234 (394)
T KOG2817|consen 158 ELNQIVEALKERDLEPALEWAESNRQKLKEKSSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFVADH---LREI 234 (394)
T ss_pred HHHHHHHHHHhccchhHHHHHHHhhhhhccccccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccccch---HHHH
Confidence 347899999999999999987766666788899999999999999999999999 99999999999999887 8999
Q ss_pred HHHHHHhcC
Q 005660 519 KETLLALLQ 527 (685)
Q Consensus 519 e~tmalLa~ 527 (685)
...|.+|.+
T Consensus 235 Qklm~sl~~ 243 (394)
T KOG2817|consen 235 QKLMGSLLY 243 (394)
T ss_pred HHHHHHHHH
Confidence 999998876
No 18
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=89.96 E-value=1.9 Score=47.34 Aligned_cols=177 Identities=22% Similarity=0.244 Sum_probs=112.3
Q ss_pred CCCCCHHHHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCc
Q 005660 3 STPVNWEALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAP 82 (685)
Q Consensus 3 ~~~Vnk~~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P 82 (685)
++.+.-.++-|||.+||..+.+..|...+.+|+++... ++ ++ ++-+ ...|-+|+||..+..+..+.
T Consensus 2 sieiessdVIrli~QflKE~~L~rtl~tLQeEt~VSLN---TV--DS--vd~F------v~dI~sG~WD~VL~~vqsLK- 67 (508)
T KOG0275|consen 2 SIEIESSDVIRLIEQFLKENSLHRTLQTLQEETNVSLN---TV--DS--VDGF------VNDINSGHWDTVLKTVQSLK- 67 (508)
T ss_pred ceeeecchHHHHHHHHHhhhhHHHHHHHHHHhhcccee---ec--hh--HHHH------HHhcccCchHHHHHHHHhcc-
Confidence 34455568899999999999999999999999998743 12 23 4444 57899999999999988764
Q ss_pred CccccCccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcccccc--cCChhHHHHHHHHHhHhcccCCCCCCchHhhhc
Q 005660 83 FILDDHRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALAPCAL--DAYPEAYEEFKHVLLTFIYDKDDPTSPVAIEWA 160 (685)
Q Consensus 83 ~LL~ns~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~LaP~al--d~~pe~l~ELe~~MgLLAY~~dpe~SPya~LLs 160 (685)
|.+. -...|.-|-.+|||.-.. +..|-..+|.. -|..+ ...|+-+-.++.++.---| ||. ..|++--.
T Consensus 68 --LP~k-kL~dLYEqivlEliELRE---L~tAR~~lRQT-dpM~~lKQ~~peRy~~lE~ll~R~YF--Dp~-EaY~dssK 137 (508)
T KOG0275|consen 68 --LPDK-KLIDLYEQIVLELIELRE---LGTARSLLRQT-DPMIMLKQIQPERYIRLENLLNRSYF--DPR-EAYGDSSK 137 (508)
T ss_pred --Cchh-HHHHHHHHHHHHHHHHHh---hhHHHHHHhcc-CceehhhccChHHHHHHHHHhccccc--Chh-hhcCcchH
Confidence 1222 245677888888887665 55665555532 22221 3346666667776654444 332 34666445
Q ss_pred hhhHHHHHHHHHHHHHhcccCCCcHHHHHH-HHHHHHHhhcCCCCCC
Q 005660 161 ERRRFEIAGLMSSVLRAHLHAYDPVFAMTL-RYLIRLLLEERDPPAT 206 (685)
Q Consensus 161 ~srR~~LAeeNsAIL~~~~~a~~p~L~~LL-K~llw~ll~erD~p~~ 206 (685)
+.||..+|...++ .++..+ -+.|.+|+ +.+-|..-.+--||..
T Consensus 138 EkrRa~IAQ~ls~--EV~VVp-pSRLlaLlGQaLKWQqHQGLLPPGt 181 (508)
T KOG0275|consen 138 EKRRAVIAQALSG--EVHVVP-PSRLLALLGQALKWQQHQGLLPPGT 181 (508)
T ss_pred HHHHHHHHHHhcC--ceEEcC-hHHHHHHHHHHhhhHhhcCCCCCCc
Confidence 6677778777443 222222 34566666 6777744444445554
No 19
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=86.32 E-value=1.7 Score=33.57 Aligned_cols=37 Identities=22% Similarity=0.295 Sum_probs=32.1
Q ss_pred hhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHHHHh
Q 005660 648 ENAILKVMEFLALPRADAIHLLAQYNGNAETVIQQIF 684 (685)
Q Consensus 648 ~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~~~~ 684 (685)
|..|...|++-..+.+.|+++|...++|.|.-|..+|
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4678889999999999999999999999999999887
No 20
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=77.27 E-value=6.1 Score=29.16 Aligned_cols=37 Identities=22% Similarity=0.416 Sum_probs=31.6
Q ss_pred hhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHHHHhC
Q 005660 648 ENAILKVMEFLALPRADAIHLLAQYNGNAETVIQQIFA 685 (685)
Q Consensus 648 ~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~~~~~ 685 (685)
+..|..+++ +-.++.+|+.-|..++||++..+.-||.
T Consensus 2 ~~~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLE-MGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 456777777 4688999999999999999999988774
No 21
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=74.37 E-value=7 Score=29.15 Aligned_cols=35 Identities=31% Similarity=0.502 Sum_probs=30.7
Q ss_pred ChhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHHH
Q 005660 647 DENAILKVMEFLALPRADAIHLLAQYNGNAETVIQQ 682 (685)
Q Consensus 647 ~~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~~ 682 (685)
++..|..+|+- -.++.+|++-|...+||+|..+.-
T Consensus 2 ~~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~~ 36 (37)
T PF00627_consen 2 DEEKVQQLMEM-GFSREQAREALRACNGNVERAVDW 36 (37)
T ss_dssp HHHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHHH
T ss_pred CHHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHHh
Confidence 57889999998 999999999999999999998763
No 22
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=73.57 E-value=23 Score=40.35 Aligned_cols=135 Identities=17% Similarity=0.117 Sum_probs=97.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHhccCCcccccCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccccCccchhhHHHH
Q 005660 442 VLGMKELAGKGMAAEAVEEINAMDADFFVQNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAASHPALLKPLKET 521 (685)
Q Consensus 442 r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~~~p~~L~~Le~t 521 (685)
.....++|..|+...++...-.+--+...+..+..|-++.|.|+|+.+.|++..||..-+....+.... .+.++|-
T Consensus 53 ~klf~q~vlqg~w~q~v~~~~~i~~~de~~~~ea~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~----~kk~~el 128 (519)
T KOG0293|consen 53 TKLFDQQVLQGQWDQQVMSLVRISFEDERNRKEAMFLVNKQIFLEFLKTGSISHALPVLRNPVLYLRKN----KKKFHEL 128 (519)
T ss_pred HHHHHHHHHcccHHHHHHHHhhccCcchhhhHHHHHHHHHHHHHHHHhhccHhhhhHhhhcchhhhhhh----HHHHHHH
Confidence 356778899999999988777775566888899999999999999999999999999988888777654 4566775
Q ss_pred HHHhcCCCCCccc-----CC--CChHHHHHHHHHHHHhhhCCCCchHHHHHHHHHHhhhHHHHhhhccchhhh
Q 005660 522 LLALLQPNEDVLV-----KG--FPLHTLATSLQVAIGRRLGIEEPQLMKILRATLHTHNEWFKLQMCKDRFES 587 (685)
Q Consensus 522 malLa~p~~~~~~-----~~--l~~~~la~~ln~Ai~~~~~~~epkL~~LlKllLwaq~ew~k~q~~~D~f~~ 587 (685)
...|+.|.+.-.. .. ..|.+|-.+|.+-|-...=..+-+|--||+.- .++|...+-|-.
T Consensus 129 ~~sll~sn~~~~ne~~~~~~~~n~R~~ll~elskyi~p~illP~rRLehLl~qA-------v~~Q~d~cvyhn 194 (519)
T KOG0293|consen 129 ASSLLVSNDQFSNEENTTAQLNNERDKLLDELSKYIPPNILLPKRRLEHLLEQA-------VKYQRDSCVYHN 194 (519)
T ss_pred HHHHhccccccccccchhhhhchhHHHHHHHHHhhCCHhhcCChHHHHHHHHHH-------HHHHHhHhHHhc
Confidence 6667766654221 11 25677777776554443223667788888763 456665555553
No 23
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=70.77 E-value=7.6 Score=29.76 Aligned_cols=37 Identities=24% Similarity=0.375 Sum_probs=29.9
Q ss_pred hhHHHHHHHH-hcCChhhHHHHHHHhcCCHHHHHHHHh
Q 005660 648 ENAILKVMEF-LALPRADAIHLLAQYNGNAETVIQQIF 684 (685)
Q Consensus 648 ~~~i~~~~e~-~~l~r~~ai~ll~~~~g~~e~v~~~~~ 684 (685)
++.|..|+|. =.+++..-...|.+++||+|.+|..++
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL 39 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALL 39 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4567777774 468899999999999999999998875
No 24
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=70.04 E-value=7.4 Score=36.91 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=36.1
Q ss_pred CCCChHhHHHHHHHhhcchhHHHHHHHHhcCcHHHHHH
Q 005660 215 PPFDEVDIQALAHAVKITRQGAVDSLRFARGDLFQAFQ 252 (685)
Q Consensus 215 p~fdE~~i~~~~ha~~i~RQqa~d~Lr~~~Gdv~~a~~ 252 (685)
..+++.||.-+++-+-.+|..|..+|+-.+||+.+|+-
T Consensus 73 ~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~ 110 (115)
T PRK06369 73 VEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAIL 110 (115)
T ss_pred CCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHH
Confidence 46899999999999999999999999999999999985
No 25
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=68.57 E-value=11 Score=27.64 Aligned_cols=36 Identities=28% Similarity=0.493 Sum_probs=30.2
Q ss_pred hhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHHHHh
Q 005660 648 ENAILKVMEFLALPRADAIHLLAQYNGNAETVIQQIF 684 (685)
Q Consensus 648 ~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~~~~ 684 (685)
+..|..+++. -.|+.+|++-|...+||++..+.-+|
T Consensus 2 ~~~v~~L~~m-Gf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEM-GFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 4566677775 58999999999999999999987765
No 26
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=67.13 E-value=8.6 Score=36.55 Aligned_cols=37 Identities=24% Similarity=0.355 Sum_probs=35.4
Q ss_pred CCChHhHHHHHHHhhcchhHHHHHHHHhcCcHHHHHH
Q 005660 216 PFDEVDIQALAHAVKITRQGAVDSLRFARGDLFQAFQ 252 (685)
Q Consensus 216 ~fdE~~i~~~~ha~~i~RQqa~d~Lr~~~Gdv~~a~~ 252 (685)
.|++.||.-+++-+..+|..|..+|+-.+||+..|+-
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~ 112 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIM 112 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHH
Confidence 5899999999999999999999999999999999985
No 27
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=63.98 E-value=14 Score=35.33 Aligned_cols=38 Identities=29% Similarity=0.427 Sum_probs=35.6
Q ss_pred CCCChHhHHHHHHHhhcchhHHHHHHHHhcCcHHHHHH
Q 005660 215 PPFDEVDIQALAHAVKITRQGAVDSLRFARGDLFQAFQ 252 (685)
Q Consensus 215 p~fdE~~i~~~~ha~~i~RQqa~d~Lr~~~Gdv~~a~~ 252 (685)
-.|+|.||.=+++-+--+|.+|+.+|.-.+||+-+|+=
T Consensus 81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm 118 (122)
T COG1308 81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIM 118 (122)
T ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHH
Confidence 35999999999999999999999999999999999983
No 28
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=63.51 E-value=14 Score=28.27 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=28.5
Q ss_pred HHHHHHH-HhcCChhhHHHHHHHhcCCHHHHHHHHh
Q 005660 650 AILKVME-FLALPRADAIHLLAQYNGNAETVIQQIF 684 (685)
Q Consensus 650 ~i~~~~e-~~~l~r~~ai~ll~~~~g~~e~v~~~~~ 684 (685)
.|..|+| |=.+++......|..++||+|.+|+.+.
T Consensus 5 ~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL 40 (43)
T smart00546 5 ALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLL 40 (43)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 3444444 6689999999999999999999999875
No 29
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=61.96 E-value=16 Score=29.18 Aligned_cols=54 Identities=28% Similarity=0.319 Sum_probs=37.4
Q ss_pred HHhcCCHHHHHHHHhcc---CCcccccCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccccCcc
Q 005660 448 LAGKGMAAEAVEEINAM---DADFFVQNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAASHPA 513 (685)
Q Consensus 448 ai~~G~i~~Ai~~vN~l---dP~ild~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~~~p~ 513 (685)
++..|+.++|++..+.+ +|+ |+.+.|.|=++ +++.|+.++|. +.|.-....+|+
T Consensus 1 ll~~~~~~~A~~~~~~~l~~~p~----~~~~~~~la~~----~~~~g~~~~A~----~~l~~~~~~~~~ 57 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQRNPD----NPEARLLLAQC----YLKQGQYDEAE----ELLERLLKQDPD 57 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHHTTT----SHHHHHHHHHH----HHHTT-HHHHH----HHHHCCHGGGTT
T ss_pred ChhccCHHHHHHHHHHHHHHCCC----CHHHHHHHHHH----HHHcCCHHHHH----HHHHHHHHHCcC
Confidence 57899999999987764 555 66777765554 67899999974 445555555554
No 30
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=57.41 E-value=7.8 Score=44.57 Aligned_cols=120 Identities=16% Similarity=0.049 Sum_probs=95.7
Q ss_pred HHHhcCCHHHHHHHHhccCCcccc-------cCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcCcccc--cCccchhh
Q 005660 447 ELAGKGMAAEAVEEINAMDADFFV-------QNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLGPLAA--SHPALLKP 517 (685)
Q Consensus 447 ~ai~~G~i~~Ai~~vN~ldP~ild-------~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~p~~~--~~p~~L~~ 517 (685)
.-+..|.+--++...+++-|+..- ..|...+.+.=...|++.|.|.+..++..=..+|++.-. -+..+-+.
T Consensus 307 ~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~ 386 (469)
T KOG1477|consen 307 QRKGRGQFTRNGAYNAALIPTYRKVGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGM 386 (469)
T ss_pred hhcCcceeechhhhcccccccccccceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCcccccccc
Confidence 336666777777777777777665 668899999999999999999999999999999998777 67888899
Q ss_pred HHHHHHHhcC--CCCCcccC---CCChHHHHHHHHHHHHhhhCC-CCchHHHHHH
Q 005660 518 LKETLLALLQ--PNEDVLVK---GFPLHTLATSLQVAIGRRLGI-EEPQLMKILR 566 (685)
Q Consensus 518 Le~tmalLa~--p~~~~~~~---~l~~~~la~~ln~Ai~~~~~~-~epkL~~LlK 566 (685)
++-.++||++ |.+++.+- +-.+.-+++++|.|++...+. ++|+|..++.
T Consensus 387 ~~~s~~Llays~p~~s~~g~~~~~~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~ 441 (469)
T KOG1477|consen 387 LSDSSSLLAYSDPEESPVGYLLDPIQREPVAEALNSAILETDNNSKDPDLERVLS 441 (469)
T ss_pred ccchHHHHHhcCcccCccccccCcccchhHHhhhcccccccCCCCccchhhhhhc
Confidence 9999999996 55555433 337799999999999998884 8888555444
No 31
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=54.47 E-value=40 Score=32.07 Aligned_cols=60 Identities=22% Similarity=0.241 Sum_probs=44.3
Q ss_pred CCCcceeeccCccccCCCCCCCcccCCccccChhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHH
Q 005660 616 QGSSQITISSNARVSEDGSSPNQVSSADFVCDENAILKVMEFLALPRADAIHLLAQYNGNAETVIQ 681 (685)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~ 681 (685)
.|+.+-.+.|..+.-+ .+++ + +.-.++.+|-.||+=.-.+|.+|++-|..-|||.-+-|-
T Consensus 51 ~g~~tY~I~Ge~~~e~-~~~~-~----~~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~ 110 (115)
T PRK06369 51 QGQKTYQIVGEPEEVE-KEAE-K----EVEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAIL 110 (115)
T ss_pred CCCcEEEEEeccEEee-cccc-c----cCCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHH
Confidence 4445555566666643 2222 1 356899999999999999999999999999999765543
No 32
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=48.99 E-value=34 Score=25.48 Aligned_cols=34 Identities=29% Similarity=0.445 Sum_probs=27.7
Q ss_pred ChHhHHHHHHHhhcchhHHHHHHHHhcCcHHHHHH
Q 005660 218 DEVDIQALAHAVKITRQGAVDSLRFARGDLFQAFQ 252 (685)
Q Consensus 218 dE~~i~~~~ha~~i~RQqa~d~Lr~~~Gdv~~a~~ 252 (685)
++..|+.+..- ..+|.++..+|+..+||+..|+.
T Consensus 2 ~~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~ 35 (37)
T PF00627_consen 2 DEEKVQQLMEM-GFSREQAREALRACNGNVERAVD 35 (37)
T ss_dssp HHHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred CHHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHH
Confidence 45567777775 88999999999999999999974
No 33
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=46.63 E-value=35 Score=32.80 Aligned_cols=38 Identities=29% Similarity=0.314 Sum_probs=34.3
Q ss_pred cccChhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHH
Q 005660 644 FVCDENAILKVMEFLALPRADAIHLLAQYNGNAETVIQ 681 (685)
Q Consensus 644 ~~~~~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~ 681 (685)
..++|.||-+|||=.-.+|.+||.-|.--|||.-+-|=
T Consensus 81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm 118 (122)
T COG1308 81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIM 118 (122)
T ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHH
Confidence 45899999999999999999999999999999766553
No 34
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.31 E-value=17 Score=37.74 Aligned_cols=20 Identities=50% Similarity=0.866 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhhccccC
Q 005660 262 VSMLDELVREYCVYRGIVDS 281 (685)
Q Consensus 262 ~~~l~~l~~ey~~~rg~~~~ 281 (685)
|.-+|+||+||-++||++.+
T Consensus 5 v~~tDelvReYL~frgf~~t 24 (241)
T KOG1333|consen 5 VERTDELVREYLLFRGFTHT 24 (241)
T ss_pred HHHHHHHHHHHHHHhhHHHH
No 35
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=36.77 E-value=57 Score=35.79 Aligned_cols=24 Identities=17% Similarity=0.219 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHhc
Q 005660 440 EIVLGMKELAGKGMAAEAVEEINA 463 (685)
Q Consensus 440 e~r~~Ir~ai~~G~i~~Ai~~vN~ 463 (685)
=....|++||..|||++|+.++|+
T Consensus 259 Yy~~aI~~AVk~gDi~KAL~LldE 282 (303)
T PRK10564 259 YFNQAIKQAVKKGDVDKALKLLDE 282 (303)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHH
Confidence 356899999999999999999886
No 36
>PF09398 FOP_dimer: FOP N terminal dimerisation domain; InterPro: IPR018993 Fibroblast growth factor receptor 1 (FGFR1) oncogene partner (FOP) is a centrosomal protein that is involved in anchoring microtubules to centrosomes. This domain includes a Lis-homology motif. It forms an alpha-helical bundle and is involved in dimerisation []. ; GO: 0034453 microtubule anchoring, 0005813 centrosome; PDB: 2D68_A.
Probab=35.54 E-value=19 Score=32.20 Aligned_cols=29 Identities=28% Similarity=0.283 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHcCChhhHhhhcCCCCCC
Q 005660 10 ALDALILEFAKSENLIEDSIVSSPPSSPS 38 (685)
Q Consensus 10 ~LnrLVldYLvreGY~EtAeaFa~ESgi~ 38 (685)
.++.||.+||--.||.=|+..|..|+|..
T Consensus 20 Li~eLIrEyLef~~l~~TlsVf~~Es~~~ 48 (81)
T PF09398_consen 20 LINELIREYLEFNNLDYTLSVFQPESGQP 48 (81)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHcCCccHHHHHhhccCCC
Confidence 57999999999999999999999999886
No 37
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=32.51 E-value=87 Score=29.96 Aligned_cols=37 Identities=22% Similarity=0.266 Sum_probs=33.4
Q ss_pred ccChhHHHHHHHHhcCChhhHHHHHHHhcCCHHHHHH
Q 005660 645 VCDENAILKVMEFLALPRADAIHLLAQYNGNAETVIQ 681 (685)
Q Consensus 645 ~~~~~~i~~~~e~~~l~r~~ai~ll~~~~g~~e~v~~ 681 (685)
-+++.+|-+||+=.-.+|+.|++.|..-|||.-+-|-
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~ 112 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIM 112 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHH
Confidence 5899999999999999999999999999999765543
No 38
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=29.01 E-value=69 Score=35.17 Aligned_cols=40 Identities=28% Similarity=0.479 Sum_probs=31.1
Q ss_pred HHHHHHHHcCCHHHHHHHHHhhCcCccccCccceehhhhHHHHHHhc
Q 005660 59 RQIRRSLEYGDIDAAIDLLRAHAPFILDDHRLLFRLQKQKFIELLRR 105 (685)
Q Consensus 59 ~~IreaIl~GdId~ALewln~~~P~LL~ns~LeFkL~~QqFIELIR~ 105 (685)
+.|+++|..|||+.||.++++-. .|=+.=-|+-||+-|..
T Consensus 262 ~aI~~AVk~gDi~KAL~LldEAe-------~LG~~~Ar~tFik~V~~ 301 (303)
T PRK10564 262 QAIKQAVKKGDVDKALKLLDEAE-------RLGSTSARSTFISSVKG 301 (303)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHH-------HhCCchHHHHHHHHhhc
Confidence 48999999999999999998762 34455556777777654
No 39
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=24.86 E-value=2.1e+02 Score=32.88 Aligned_cols=76 Identities=21% Similarity=0.242 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCcCccccCc
Q 005660 10 ALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAPFILDDHR 89 (685)
Q Consensus 10 ~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P~LL~ns~ 89 (685)
....-|+.||...||.|.|-.|+.+ .+.| ..-||..|+++.|++.+.+... .
T Consensus 296 ~~~~~i~~fL~~~G~~e~AL~~~~D-----------------~~~r-----FeLAl~lg~L~~A~~~a~~~~~-----~- 347 (443)
T PF04053_consen 296 DQGQSIARFLEKKGYPELALQFVTD-----------------PDHR-----FELALQLGNLDIALEIAKELDD-----P- 347 (443)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHSS------------------HHHH-----HHHHHHCT-HHHHHHHCCCCST-----H-
T ss_pred hHHHHHHHHHHHCCCHHHHHhhcCC-----------------hHHH-----hHHHHhcCCHHHHHHHHHhcCc-----H-
Confidence 3466788999999999999999543 2333 4779999999999999877641 1
Q ss_pred cceehhhhHHHHHHhcCCCccHHHHHHHHH
Q 005660 90 LLFRLQKQKFIELLRRGTTEDRKSAINCLR 119 (685)
Q Consensus 90 LeFkL~~QqFIELIR~g~e~~~~EALeyAR 119 (685)
...+|=.=+-+++|+ ..-|-++.+
T Consensus 348 ---~~W~~Lg~~AL~~g~---~~lAe~c~~ 371 (443)
T PF04053_consen 348 ---EKWKQLGDEALRQGN---IELAEECYQ 371 (443)
T ss_dssp ---HHHHHHHHHHHHTTB---HHHHHHHHH
T ss_pred ---HHHHHHHHHHHHcCC---HHHHHHHHH
Confidence 133333444466676 666655544
No 40
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=24.54 E-value=3.7e+02 Score=29.51 Aligned_cols=81 Identities=14% Similarity=0.106 Sum_probs=57.2
Q ss_pred CCCCCHHHHHHHHHHHHHHcCChhhHhhhcCCCCCCCCCCCcccCCchhhhhHHHHHHHHHHHHcCCHHHHHHHHHhhCc
Q 005660 3 STPVNWEALDALILEFAKSENLIEDSIVSSPPSSPSSSSTSSVSLSSSSYHSRLIIRQIRRSLEYGDIDAAIDLLRAHAP 82 (685)
Q Consensus 3 ~~~Vnk~~LnrLVldYLvreGY~EtAeaFa~ESgi~~~s~~~~Dl~s~~i~~R~~i~~IreaIl~GdId~ALewln~~~P 82 (685)
.|.|+...+-.+.+.-|...|.++.-+.|+++- .+| - .++++. ...+..|+..+|...+....+
T Consensus 202 ~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~sk--KsP-------I--GyepFv-----~~~~~~~~~~eA~~yI~k~~~ 265 (319)
T PF04840_consen 202 EFKVPDKRFWWLKIKALAENKDWDELEKFAKSK--KSP-------I--GYEPFV-----EACLKYGNKKEASKYIPKIPD 265 (319)
T ss_pred HcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhCC--CCC-------C--ChHHHH-----HHHHHCCCHHHHHHHHHhCCh
Confidence 367888888888899999999999999998752 212 1 267776 778889999999999888322
Q ss_pred CccccCccceehhhhHHHHHH
Q 005660 83 FILDDHRLLFRLQKQKFIELL 103 (685)
Q Consensus 83 ~LL~ns~LeFkL~~QqFIELI 103 (685)
...+.+.+++-.+.|.+
T Consensus 266 ----~~rv~~y~~~~~~~~A~ 282 (319)
T PF04840_consen 266 ----EERVEMYLKCGDYKEAA 282 (319)
T ss_pred ----HHHHHHHHHCCCHHHHH
Confidence 34455555555555443
No 41
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=23.72 E-value=95 Score=31.67 Aligned_cols=65 Identities=12% Similarity=0.031 Sum_probs=42.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHhccCCcccc------cCccchhhhhhhHHHHHHhcCChhhHHHHHHhhcC
Q 005660 440 EIVLGMKELAGKGMAAEAVEEINAMDADFFV------QNPMLLFQLKQVEFLKLVSCGDHSGALRVACAHLG 505 (685)
Q Consensus 440 e~r~~Ir~ai~~G~i~~Ai~~vN~ldP~ild------~np~L~F~Lqq~~liELIr~g~~~~AL~fA~~~L~ 505 (685)
.+|..|.+.+-. .+.+-++.+..+-+.+.. ....++..+..-.+.+++++|+.++|.+.+.+.|+
T Consensus 135 ~lr~~ie~~l~~-~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 205 (205)
T TIGR01470 135 LLRERIETLLPP-SLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRLA 205 (205)
T ss_pred HHHHHHHHhcch-hHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhhC
Confidence 345555555533 234445555544444433 33466777777789999999999999999888764
No 42
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=22.00 E-value=1.1e+02 Score=31.66 Aligned_cols=59 Identities=24% Similarity=0.353 Sum_probs=47.1
Q ss_pred HHHHHHHcCCHHHHHHHHHhh--CcCccc---c---------CccceehhhhHHHHHHhcCCCccHHHHHHHHHHhcc
Q 005660 60 QIRRSLEYGDIDAAIDLLRAH--APFILD---D---------HRLLFRLQKQKFIELLRRGTTEDRKSAINCLRTALA 123 (685)
Q Consensus 60 ~IreaIl~GdId~ALewln~~--~P~LL~---n---------s~LeFkL~~QqFIELIR~g~e~~~~EALeyARt~La 123 (685)
..|++|+.|+=+.|+-++++. ...|++ + ++++|...+.+|++=++.|+ +||+-.+..|.
T Consensus 45 ~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN-----~~lkkl~~~~~ 117 (209)
T KOG2910|consen 45 LARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN-----EALKKLQQEFD 117 (209)
T ss_pred HHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhcC
Confidence 668899999999998877643 334555 1 68999999999999999998 78877776654
Done!