Query psy11261
Match_columns 247
No_of_seqs 133 out of 159
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 22:22:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11261.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11261hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1877|consensus 100.0 4.6E-69 9.9E-74 537.1 9.9 234 1-247 36-301 (819)
2 PF12755 Vac14_Fab1_bd: Vacuol 83.3 0.37 8.1E-06 37.5 0.1 75 119-213 2-79 (97)
3 PF12755 Vac14_Fab1_bd: Vacuol 83.1 5.3 0.00012 31.0 6.5 80 41-123 6-88 (97)
4 PF10350 DUF2428: Putative dea 70.3 16 0.00035 32.8 6.9 136 63-218 100-255 (255)
5 PF12348 CLASP_N: CLASP N term 61.6 40 0.00087 28.8 7.4 156 16-195 45-208 (228)
6 PF09759 Atx10homo_assoc: Spin 60.4 6.3 0.00014 31.2 1.9 31 164-195 29-61 (102)
7 PF04826 Arm_2: Armadillo-like 56.9 5.8 0.00013 36.0 1.4 65 63-131 57-123 (254)
8 KOG2171|consensus 53.8 1E+02 0.0023 33.8 10.1 145 57-220 197-365 (1075)
9 PLN03076 ARF guanine nucleotid 51.8 40 0.00087 38.8 7.0 126 10-136 397-551 (1780)
10 PF12719 Cnd3: Nuclear condens 48.1 79 0.0017 28.8 7.4 89 41-136 3-97 (298)
11 PF01602 Adaptin_N: Adaptin N 46.7 48 0.001 31.8 6.0 90 36-134 204-298 (526)
12 cd00020 ARM Armadillo/beta-cat 46.7 40 0.00087 24.8 4.4 68 65-133 12-79 (120)
13 PF08064 UME: UME (NUC010) dom 46.1 91 0.002 24.3 6.5 54 39-93 33-87 (107)
14 cd00020 ARM Armadillo/beta-cat 45.8 56 0.0012 24.0 5.1 89 41-131 27-119 (120)
15 KOG1062|consensus 41.9 4E+02 0.0087 28.6 11.9 170 16-214 174-397 (866)
16 KOG1824|consensus 40.0 30 0.00064 37.5 3.5 107 14-135 251-364 (1233)
17 PF02985 HEAT: HEAT repeat; I 39.6 32 0.00069 20.6 2.3 29 104-132 1-29 (31)
18 PF12348 CLASP_N: CLASP N term 39.3 32 0.00069 29.4 3.2 115 14-134 4-125 (228)
19 PF12783 Sec7_N: Guanine nucle 36.5 41 0.00088 27.9 3.3 76 13-89 65-146 (168)
20 PF08167 RIX1: rRNA processing 34.2 1.7E+02 0.0037 24.4 6.7 72 63-135 28-100 (165)
21 KOG2171|consensus 34.0 86 0.0019 34.4 5.9 142 71-231 129-277 (1075)
22 PF03224 V-ATPase_H_N: V-ATPas 31.4 1.8E+02 0.0039 26.5 7.0 96 34-132 70-179 (312)
23 PF10508 Proteasom_PSMB: Prote 31.1 1.9E+02 0.0041 28.6 7.5 68 67-134 297-368 (503)
24 PF01602 Adaptin_N: Adaptin N 29.1 1.7E+02 0.0037 28.0 6.7 92 35-134 242-335 (526)
25 COG5181 HSH155 U2 snRNP splice 27.9 5.3E+02 0.012 27.3 10.0 80 3-84 525-628 (975)
26 smart00802 UME Domain in UVSB 27.4 2.1E+02 0.0045 22.6 5.8 52 41-93 35-87 (107)
27 KOG2023|consensus 26.7 88 0.0019 32.9 4.3 68 64-134 132-205 (885)
28 PF12717 Cnd1: non-SMC mitotic 25.0 1.3E+02 0.0028 25.2 4.5 94 102-218 24-117 (178)
29 cd03567 VHS_GGA VHS domain fam 23.9 3.4E+02 0.0074 22.3 6.7 95 4-106 25-133 (139)
30 PF11698 V-ATPase_H_C: V-ATPas 23.3 1.2E+02 0.0026 24.7 3.7 69 63-132 46-115 (119)
31 PTZ00429 beta-adaptin; Provisi 23.2 9.1E+02 0.02 25.6 11.3 62 70-134 266-328 (746)
32 PF11588 DUF3243: Protein of u 22.7 74 0.0016 24.3 2.3 17 16-32 36-61 (81)
33 KOG1242|consensus 22.4 2.3E+02 0.0049 29.1 6.2 117 41-191 236-356 (569)
34 KOG2274|consensus 21.7 1.8E+02 0.0039 31.6 5.5 123 72-219 503-629 (1005)
No 1
>KOG1877|consensus
Probab=100.00 E-value=4.6e-69 Score=537.12 Aligned_cols=234 Identities=50% Similarity=0.917 Sum_probs=224.3
Q ss_pred CcchhhhhccCCCchhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhccccchhhhHH---HHHHHHHhcCCcchh
Q psy11261 1 MDKLTFYALSSPEKLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSCHAHALNLLQK---KLIQKLLECHEHVLQ 77 (247)
Q Consensus 1 ~skL~yYa~s~p~KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q~l~LFa~---~ii~~lL~s~~~~l~ 77 (247)
|+||||||+|||+||||||.||++||+||+||+|+|+|+|+|+||++||.+||+| +|+||+ +||++||++++++|+
T Consensus 36 m~kL~~YAasnp~KL~KI~~yL~~R~~kdl~~~r~~~v~Iamea~~kLL~~C~eq-~n~F~ssfL~mv~~LLes~~~~~~ 114 (819)
T KOG1877|consen 36 MEKLTFYAASNPSKLPKIGTYLEERCYKDLRRERFGSVKIAMEAYDKLLQACKEQ-INLFVSSFLRMVQKLLESNNDEMQ 114 (819)
T ss_pred HHHHHHHHhhChhhhhHHHHHHHHHHHHHHHhccCcchhhHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCCCcee
Confidence 7899999999999999999999999999999999999999999999999999998 999999 999999999999999
Q ss_pred hHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcch-----hHHhhchhhhhhhHhhccccccchhhcccccccch
Q psy11261 78 ILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDV-----ELRMAGISGIQGIIRKTVSDDLADNIWKSHHLDKR 152 (247)
Q Consensus 78 i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~-----~~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~~~ 152 (247)
++||++|++|++|++|+|+||++|++||++||+||++.++ .+|+||||||+||||+++.|++.++||+.+|||+
T Consensus 115 ilg~~sf~~F~~i~~d~~sy~~~yd~Fi~kf~~l~he~~~~~~~~~lr~agl~gLsa~v~~tv~d~l~~ti~e~~h~d~- 193 (819)
T KOG1877|consen 115 ILGTNSFVKFANIEEDGPSYHRNYDFFISKFSSLCHERGDDDMKDCLRAAGLQGLSAVVWLTVSDHLAATIWEPQHMDK- 193 (819)
T ss_pred eehhhHHHHHHhhcccCchhhhhhHHHHHHHHHHhhcccchhhhhhccHhhhhhHHHHHHHHHhhhhhhhhhhhhhhcc-
Confidence 9999999999999999999999999999999999999654 8999999999999999999999999999999999
Q ss_pred hhccCCCCCCccccccccccccCCC----------------------CChHHHHHHHHHHHHccccc-cccchhhhhhhh
Q psy11261 153 WISDGGDLPTRTIPSLLYNMHHEMT----------------------SDGSQMAETCLRELIGRAAF-GHVKGVVGPVLN 209 (247)
Q Consensus 153 ~v~~~~~~~~~ivPslL~n~~~~~~----------------------~~p~~~a~~CL~~l~~~a~~-ttir~vl~p~~~ 209 (247)
|||++++|++..+. .+|++||++|+|+|+++|++ ||||.+|+|+|.
T Consensus 194 -----------ivpsl~~~l~~~e~~~~~~S~s~~~~~~~~~a~~~~~~p~vla~~cl~~l~~~A~~g~~iR~~l~pl~~ 262 (819)
T KOG1877|consen 194 -----------IVPSLLFELQSIENLGKRESDSRIRTFSLLAAGDKTSDPKVLAERCLRELLGRAKFGTNIRNALKPLLS 262 (819)
T ss_pred -----------chhhHHHhhcchhhcccccCcccccCccccccCCcccCcchhHHHHHHHhhccccccchHHHHHHHHHh
Confidence 99999999986551 35999999999999999975 499999999999
Q ss_pred hccCCCCCCCh-hhHHHHHHHHHHHhhcccceeeecccC
Q psy11261 210 HLDMHRLWPPK-DFAYQVFRILVFSVQSQYSYLIIESLL 247 (247)
Q Consensus 210 ~~D~~~~W~~~-~~A~~~~~~~~~s~~~Q~~~~v~~~L~ 247 (247)
|||.|.+|.|+ +||++||+++|+++|+|++|+|+++|+
T Consensus 263 ~~d~h~~w~p~n~fav~~~~~vi~~iq~q~s~~v~~~li 301 (819)
T KOG1877|consen 263 HLDFHELWTPPNGFAVHVFKIVIYLIQRQYSYFVIQELI 301 (819)
T ss_pred ccccceeecCCCccchHHHHHHHHHHhhccchHHHHHHH
Confidence 99999999998 999999999999999999999998764
No 2
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=83.34 E-value=0.37 Score=37.52 Aligned_cols=75 Identities=19% Similarity=0.166 Sum_probs=51.2
Q ss_pred HHhhchhhhhhhHhhccccccchhhcccccccchhhccCCCCCCccccccccccccCCCCChHHHHHHHHHHHHcccccc
Q psy11261 119 LRMAGISGIQGIIRKTVSDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEMTSDGSQMAETCLRELIGRAAFG 198 (247)
Q Consensus 119 ~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~~~~p~~~a~~CL~~l~~~a~~t 198 (247)
-|.+||-||+++.-..+++ + .+++++ |+|++|..+.+.+ ....+.|=.||.++++.+...
T Consensus 2 ~R~ggli~Laa~ai~l~~~-----~--~~~l~~------------Il~pVL~~~~D~d-~rVRy~AcEaL~ni~k~~~~~ 61 (97)
T PF12755_consen 2 YRKGGLIGLAAVAIALGKD-----I--SKYLDE------------ILPPVLKCFDDQD-SRVRYYACEALYNISKVARGE 61 (97)
T ss_pred chhHHHHHHHHHHHHchHh-----H--HHHHHH------------HHHHHHHHcCCCc-HHHHHHHHHHHHHHHHHHHHH
Confidence 4889999999997755443 3 445666 9999998887532 234789999999999877432
Q ss_pred ---ccchhhhhhhhhccC
Q psy11261 199 ---HVKGVVGPVLNHLDM 213 (247)
Q Consensus 199 ---tir~vl~p~~~~~D~ 213 (247)
.+..|.+.+++-++.
T Consensus 62 ~l~~f~~IF~~L~kl~~D 79 (97)
T PF12755_consen 62 ILPYFNEIFDALCKLSAD 79 (97)
T ss_pred HHHHHHHHHHHHHHHHcC
Confidence 344455555554443
No 3
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=83.14 E-value=5.3 Score=31.01 Aligned_cols=80 Identities=9% Similarity=0.230 Sum_probs=59.0
Q ss_pred HHHHHHHHHHhccccchhhhHHHHHHHHHh---cCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcch
Q psy11261 41 SLEAMNQILLSCHAHALNLLQKKLIQKLLE---CHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDV 117 (247)
Q Consensus 41 ~l~i~~kLl~~C~~q~l~LFa~~ii~~lL~---s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~ 117 (247)
.|-.+.+.-.+++.+ +.-+.+.||.-+|. .++...+.-||+++...+.+..+ .....+..+.+..+.++...++
T Consensus 6 gli~Laa~ai~l~~~-~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~--~~l~~f~~IF~~L~kl~~D~d~ 82 (97)
T PF12755_consen 6 GLIGLAAVAIALGKD-ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARG--EILPYFNEIFDALCKLSADPDE 82 (97)
T ss_pred HHHHHHHHHHHchHh-HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHcCCch
Confidence 355678888888987 88888878877775 47777889999999987766543 3555666777777777777766
Q ss_pred hHHhhc
Q psy11261 118 ELRMAG 123 (247)
Q Consensus 118 ~~R~aG 123 (247)
+.|.+.
T Consensus 83 ~Vr~~a 88 (97)
T PF12755_consen 83 NVRSAA 88 (97)
T ss_pred hHHHHH
Confidence 777654
No 4
>PF10350 DUF2428: Putative death-receptor fusion protein (DUF2428); InterPro: IPR019442 This domain is found in a family of proteins of unknown function that are conserved from plants to humans. Several of these proteins have been annotated as being HEAT repeat-containing proteins while others are designated as death-receptor interacting proteins, but neither of these has yet been confirmed. Aberrations in the genes encoding these proteins have been observed in benign thyroid adenomas [].
Probab=70.28 E-value=16 Score=32.83 Aligned_cols=136 Identities=16% Similarity=0.201 Sum_probs=77.5
Q ss_pred HHHHHHHhcCCcchhhHhHHHHHHhhcc--cCCchHHHHhHHHHHHHhhhhccCc--c---hhHHhhchh-hhhhhHhhc
Q psy11261 63 KLIQKLLECHEHVLQILATQSFVKYANI--EEDTPSYHRRYDFFISKFSSMCHDS--D---VELRMAGIS-GIQGIIRKT 134 (247)
Q Consensus 63 ~ii~~lL~s~~~~l~i~~~~tf~~F~~~--~~d~~~y~~~y~~~v~~f~~la~~~--~---~~~R~aGLq-aL~~~V~~~ 134 (247)
.+++.|++.+|----..+.++|..+|.. ..+.+.+..--+.-+...-+.-... . .+=|.|||+ .+.+++...
T Consensus 100 ~l~~~L~~~rHrGAfe~~~~~f~~lc~~l~~~~~~~l~~LP~~WL~~~l~~i~~~~~~~~~iTRRSAGLP~~i~aiL~ae 179 (255)
T PF10350_consen 100 LLIEQLLEIRHRGAFESVYPGFTALCRRLWSSNNPELSELPEEWLDELLEAIESKGQQKLSITRRSAGLPFLILAILSAE 179 (255)
T ss_pred HHHHHHHhcccccHHHHHHHHHHHHHHHHhcCCCchHHHhHHHHHHHHHHHHhcccccccccccccCcHHHHHHHHHhcC
Confidence 4555566778877777888999988874 2223344443344444443333333 1 155799999 566777654
Q ss_pred cccccchhhcccccccchhhccCCCCCCccccccccccccCC-------CCChHHHHHHHHHHHHcccccc-----ccch
Q psy11261 135 VSDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEM-------TSDGSQMAETCLRELIGRAAFG-----HVKG 202 (247)
Q Consensus 135 ~~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~-------~~~p~~~a~~CL~~l~~~a~~t-----tir~ 202 (247)
.... +.-+.. .+..+|....... .+.|.+=|-.|||.|++-++.+ -+.+
T Consensus 180 ~~~~-------~~ll~~------------~~~~Ll~ia~~~~~~~~~~~~d~~qVHAlNiLr~if~ds~L~~~~~~yi~~ 240 (255)
T PF10350_consen 180 PSNS-------RPLLHR------------TMKSLLEIAKSPSTQHEDEKSDLPQVHALNILRAIFRDSKLSEDVSPYIED 240 (255)
T ss_pred CCcc-------hhHHHH------------HHHHHHHHhcCCcccccccccchHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence 2210 000111 2223332222211 1369999999999999977522 2556
Q ss_pred hhhhhhhhccCCCCCC
Q psy11261 203 VVGPVLNHLDMHRLWP 218 (247)
Q Consensus 203 vl~p~~~~~D~~~~W~ 218 (247)
.+.-.++.|++.. |+
T Consensus 241 ~l~lai~~f~s~~-Wa 255 (255)
T PF10350_consen 241 ALILAIKGFSSPD-WA 255 (255)
T ss_pred HHHHHHHhCCCcc-CC
Confidence 6777778887766 63
No 5
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=61.64 E-value=40 Score=28.79 Aligned_cols=156 Identities=13% Similarity=0.172 Sum_probs=88.2
Q ss_pred hhhHHHHH---HHHHHHHhhcCCCceeeHHHHHHHHHHhccccchhhhHHHHHHHHHh---cCCcchhhHhHHHHHHhhc
Q psy11261 16 DRIGDYLY---ETASRDISRKRTQYVLMSLEAMNQILLSCHAHALNLLQKKLIQKLLE---CHEHVLQILATQSFVKYAN 89 (247)
Q Consensus 16 ~KIg~yLe---kR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q~l~LFa~~ii~~lL~---s~~~~l~i~~~~tf~~F~~ 89 (247)
+.+.+.|- .-+.+.+.-.|.-=++-++..+..|...++.. +.-|+..++..||+ .....++..|..++..++.
T Consensus 45 ~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~-~~~~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~ 123 (228)
T PF12348_consen 45 PDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSH-FEPYADILLPPLLKKLGDSKKFIREAANNALDAIIE 123 (228)
T ss_dssp HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGG-GHHHHHHHHHHHHHGGG---HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHh-HHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHH
Confidence 34444444 34445555555556677888899999999996 88888877777774 2445577777888887775
Q ss_pred ccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhcc--ccccchhhcccccccchhhccCCCCCCccccc
Q psy11261 90 IEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKTV--SDDLADNIWKSHHLDKRWISDGGDLPTRTIPS 167 (247)
Q Consensus 90 ~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~~--~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPs 167 (247)
.-. |.... .+......+.......|...++.|..++...+ ...+.... .++. ++|.
T Consensus 124 ~~~----~~~~~--~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~----~~~~------------l~~~ 181 (228)
T PF12348_consen 124 SCS----YSPKI--LLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSA----FLKQ------------LVKA 181 (228)
T ss_dssp TS-----H--HH--HHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HH----HHHH------------HHHH
T ss_pred HCC----cHHHH--HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccc----hHHH------------HHHH
Confidence 432 22211 02223333444445899999999999998775 22221110 1122 6677
Q ss_pred cccccccCCCCChHHHHHHHHHHHHccc
Q psy11261 168 LLYNMHHEMTSDGSQMAETCLRELIGRA 195 (247)
Q Consensus 168 lL~n~~~~~~~~p~~~a~~CL~~l~~~a 195 (247)
+-..+.+. ..+....|+.|+..+....
T Consensus 182 l~~~l~D~-~~~VR~~Ar~~~~~l~~~~ 208 (228)
T PF12348_consen 182 LVKLLSDA-DPEVREAARECLWALYSHF 208 (228)
T ss_dssp HHHHHTSS--HHHHHHHHHHHHHHHHHH
T ss_pred HHHHCCCC-CHHHHHHHHHHHHHHHHHC
Confidence 66666542 1234689999998887654
No 6
>PF09759 Atx10homo_assoc: Spinocerebellar ataxia type 10 protein domain; InterPro: IPR019156 This is the conserved C-terminal 100 residues of Ataxin-10. Ataxin-10 belongs to the family of armadillo repeat proteins and in solution it tends to form homotrimeric complexes, which associate via a tip-to-tip association in a horseshoe-shaped contact with the concave sides of the molecules facing each other. This domain may represent the homo-association site since that is located near the C terminus of Ataxin-10. The protein does not contain a signal sequence for secretion or any subcellular compartment confirming its cytoplasmic localisation, specifically to the olivocerebellar region [].
Probab=60.39 E-value=6.3 Score=31.21 Aligned_cols=31 Identities=19% Similarity=0.155 Sum_probs=24.6
Q ss_pred cccccccccccCCCCCh--HHHHHHHHHHHHccc
Q psy11261 164 TIPSLLYNMHHEMTSDG--SQMAETCLRELIGRA 195 (247)
Q Consensus 164 ivPslL~n~~~~~~~~p--~~~a~~CL~~l~~~a 195 (247)
-+|.+|... .-|+.|| ..||..|+|+|..-.
T Consensus 29 Gi~liL~~c-~iD~~nP~irEwai~aiRnL~e~n 61 (102)
T PF09759_consen 29 GIPLILSCC-NIDDHNPFIREWAIFAIRNLCEGN 61 (102)
T ss_pred ChHHHHHhc-CCCcccHHHHHHHHHHHHHHHhCC
Confidence 467777664 4467899 799999999998765
No 7
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=56.87 E-value=5.8 Score=36.04 Aligned_cols=65 Identities=17% Similarity=0.264 Sum_probs=47.1
Q ss_pred HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCc--chhHHhhchhhhhhhH
Q psy11261 63 KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDS--DVELRMAGISGIQGII 131 (247)
Q Consensus 63 ~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~--~~~~R~aGLqaL~~~V 131 (247)
.+|..+|.+.++..++-|..++..++...+ -....+.+|++-|+..... +.....+||++|..|-
T Consensus 57 ~lI~~lL~~p~~~vr~~AL~aL~Nls~~~e----n~~~Ik~~i~~Vc~~~~s~~lns~~Q~agLrlL~nLt 123 (254)
T PF04826_consen 57 SLIGSLLNDPNPSVREKALNALNNLSVNDE----NQEQIKMYIPQVCEETVSSPLNSEVQLAGLRLLTNLT 123 (254)
T ss_pred HHHHHHcCCCChHHHHHHHHHHHhcCCChh----hHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHccC
Confidence 788888999999999889888887765543 3333445577777754432 3377789999999984
No 8
>KOG2171|consensus
Probab=53.76 E-value=1e+02 Score=33.75 Aligned_cols=145 Identities=16% Similarity=0.136 Sum_probs=86.7
Q ss_pred hhhhHH---HHHHH---HHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcch---hHHhhchhhh
Q psy11261 57 LNLLQK---KLIQK---LLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDV---ELRMAGISGI 127 (247)
Q Consensus 57 l~LFa~---~ii~~---lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~---~~R~aGLqaL 127 (247)
...|+. ++++. +++.++.+ -+++.|..|..+-+..|.+.+.+-+.|-.|+-.--.+.+ .+|-..|+-|
T Consensus 197 ~~~~~~llP~~l~vl~~~i~~~d~~---~a~~~l~~l~El~e~~pk~l~~~l~~ii~~~l~Ia~n~~l~~~~R~~ALe~i 273 (1075)
T KOG2171|consen 197 VDKFRDLLPSLLNVLQEVIQDGDDD---AAKSALEALIELLESEPKLLRPHLSQIIQFSLEIAKNKELENSIRHLALEFL 273 (1075)
T ss_pred HHHHHHHhHHHHHHhHhhhhccchH---HHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence 566766 45544 34444443 345556666665566668888888888788754443322 7888877777
Q ss_pred hhhHhhccccccchhhcccccccchhhccCCCCCCccccccccccccCC---------------CCChHHHHHHHHHHHH
Q psy11261 128 QGIIRKTVSDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEM---------------TSDGSQMAETCLRELI 192 (247)
Q Consensus 128 ~~~V~~~~~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~---------------~~~p~~~a~~CL~~l~ 192 (247)
...+... . .|-+.. .+....++|.+|.-|++.+ .++|...|+.||-.++
T Consensus 274 vs~~e~A----p--------~~~k~~----~~~~~~lv~~~l~~mte~~~D~ew~~~d~~ded~~~~~~~~A~~~lDrlA 337 (1075)
T KOG2171|consen 274 VSLSEYA----P--------AMCKKL----ALLGHTLVPVLLAMMTEEEDDDEWSNEDDLDEDDEETPYRAAEQALDRLA 337 (1075)
T ss_pred HHHHHhh----H--------HHhhhc----hhhhccHHHHHHHhcCCcccchhhccccccccccccCcHHHHHHHHHHHH
Confidence 6655431 1 011100 0001126777776665432 1569999999999999
Q ss_pred ccccccccchhhhhhhhhccCCCCCCCh
Q psy11261 193 GRAAFGHVKGVVGPVLNHLDMHRLWPPK 220 (247)
Q Consensus 193 ~~a~~ttir~vl~p~~~~~D~~~~W~~~ 220 (247)
..=.+.+|-.++-+.+.=+=.+..|.-.
T Consensus 338 ~~L~g~~v~p~~~~~l~~~l~S~~w~~R 365 (1075)
T KOG2171|consen 338 LHLGGKQVLPPLFEALEAMLQSTEWKER 365 (1075)
T ss_pred hcCChhhehHHHHHHHHHHhcCCCHHHH
Confidence 8777777766665555444445558776
No 9
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=51.82 E-value=40 Score=38.83 Aligned_cols=126 Identities=10% Similarity=0.161 Sum_probs=88.1
Q ss_pred cCCCchhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhcccc---chhhhHHHHHHHHHhcC-C--cchhhHhHHH
Q psy11261 10 SSPEKLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSCHAH---ALNLLQKKLIQKLLECH-E--HVLQILATQS 83 (247)
Q Consensus 10 s~p~KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q---~l~LFa~~ii~~lL~s~-~--~~l~i~~~~t 83 (247)
++|.=++-|-.||-.=+-+......-.=...+++|+--|+...|.+ .+.+|.+.|+-.+|++. + .+.+..+.+.
T Consensus 397 ~~~~fi~~ik~~Lc~sL~~n~~S~~~~vf~lsl~If~~L~~~~R~~LK~eievF~~~I~l~ile~~~~~s~~qK~~~L~~ 476 (1780)
T PLN03076 397 TSDRFLGAIKQYLCLSLLKNSASSLMIIFQLSCSIFISLVSRFRAGLKAEIGVFFPMIVLRVLENVAQPNFQQKMIVLRF 476 (1780)
T ss_pred cCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHH
Confidence 3455556666777766666655544444577888887777777664 16788888888899863 3 4666788888
Q ss_pred HHHhhcc-----------cCCchHHHHhHHHHHHHhhhhccCcc------------hhHHhhchhhhhhhHhhccc
Q psy11261 84 FVKYANI-----------EEDTPSYHRRYDFFISKFSSMCHDSD------------VELRMAGISGIQGIIRKTVS 136 (247)
Q Consensus 84 f~~F~~~-----------~~d~~~y~~~y~~~v~~f~~la~~~~------------~~~R~aGLqaL~~~V~~~~~ 136 (247)
|.++|.. |=|- +.-+-||.+|...+..|+... ..+|..||.+|-+++.++++
T Consensus 477 L~~lc~dp~~lveiyvNYDCD~-~~~NifE~lv~~Lsk~a~~~~~~~~~~~~~~qe~~lk~~aLecLv~il~sl~~ 551 (1780)
T PLN03076 477 LDKLCVDSQILVDIFINYDCDV-NSSNIFERMVNGLLKTAQGVPPGVETTLLPPQEAAMKLEAMKCLVAILRSMGD 551 (1780)
T ss_pred HHHHHhCccHHHHHHhccCCCC-CCchHHHHHHHHHHHHhcCCCCccccccCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888763 2233 455778888888888887321 16899999999999988754
No 10
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=48.15 E-value=79 Score=28.79 Aligned_cols=89 Identities=10% Similarity=0.197 Sum_probs=61.2
Q ss_pred HHHHHHHHHHhccccchhh--hHHHHHHH----HHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccC
Q psy11261 41 SLEAMNQILLSCHAHALNL--LQKKLIQK----LLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHD 114 (247)
Q Consensus 41 ~l~i~~kLl~~C~~q~l~L--Fa~~ii~~----lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~ 114 (247)
+|.|...+++.|+.. +.- ....+++. -+++.+++++..|..++--||-++.. ... .+++.|......
T Consensus 3 cL~i~~~lL~~~~~~-~~~~~~l~~ll~~lI~P~v~~~~~~vR~~al~cLGl~~Lld~~---~a~---~~l~l~~~~~~~ 75 (298)
T PF12719_consen 3 CLSITQSLLENVSSS-LSPNISLESLLDSLILPAVQSSDPAVRELALKCLGLCCLLDKE---LAK---EHLPLFLQALQK 75 (298)
T ss_pred HHHHHHHHHHhcccc-CCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhChH---HHH---HHHHHHHHHHHh
Confidence 467888889988854 432 33344444 45678899999999999999988773 222 223444444444
Q ss_pred cchhHHhhchhhhhhhHhhccc
Q psy11261 115 SDVELRMAGISGIQGIIRKTVS 136 (247)
Q Consensus 115 ~~~~~R~aGLqaL~~~V~~~~~ 136 (247)
+++.+|..++++|--++-.-|.
T Consensus 76 ~~~~v~~~al~~l~Dll~~~g~ 97 (298)
T PF12719_consen 76 DDEEVKITALKALFDLLLTHGI 97 (298)
T ss_pred CCHHHHHHHHHHHHHHHHHcCc
Confidence 5669999999999888765444
No 11
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=46.74 E-value=48 Score=31.80 Aligned_cols=90 Identities=9% Similarity=0.103 Sum_probs=50.3
Q ss_pred CceeeHHHHHHHHHHhccccchhhhH--H---HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhh
Q psy11261 36 QYVLMSLEAMNQILLSCHAHALNLLQ--K---KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSS 110 (247)
Q Consensus 36 g~V~V~l~i~~kLl~~C~~q~l~LFa--~---~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~ 110 (247)
.+--+...+++-|-.-|+.. +-.. . ..+..+|++.++.....++.++..+. ... . ....+++.+..
T Consensus 204 ~~~~~q~~il~~l~~~~~~~--~~~~~~~~~i~~l~~~l~s~~~~V~~e~~~~i~~l~---~~~-~---~~~~~~~~L~~ 274 (526)
T PF01602_consen 204 PDPWLQIKILRLLRRYAPME--PEDADKNRIIEPLLNLLQSSSPSVVYEAIRLIIKLS---PSP-E---LLQKAINPLIK 274 (526)
T ss_dssp CSHHHHHHHHHHHTTSTSSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS---SSH-H---HHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHhcccCC--hhhhhHHHHHHHHHHHhhccccHHHHHHHHHHHHhh---cch-H---HHHhhHHHHHH
Confidence 33334455555555555553 2222 2 44444455555555555555555332 222 1 45566666666
Q ss_pred hccCcchhHHhhchhhhhhhHhhc
Q psy11261 111 MCHDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 111 la~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
+-...+..+|.+||++|..++...
T Consensus 275 lL~s~~~nvr~~~L~~L~~l~~~~ 298 (526)
T PF01602_consen 275 LLSSSDPNVRYIALDSLSQLAQSN 298 (526)
T ss_dssp HHTSSSHHHHHHHHHHHHHHCCHC
T ss_pred HhhcccchhehhHHHHHHHhhccc
Confidence 666555578888888888887654
No 12
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=46.69 E-value=40 Score=24.78 Aligned_cols=68 Identities=12% Similarity=0.084 Sum_probs=47.1
Q ss_pred HHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhh
Q psy11261 65 IQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRK 133 (247)
Q Consensus 65 i~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~ 133 (247)
+-.+|...+++.+..++.++..++...++....... .++++.+.++-..++.++|...+.+|..+...
T Consensus 12 l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~-~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 12 LVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVE-AGGLPALVQLLKSEDEEVVKAALWALRNLAAG 79 (120)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHH-CCChHHHHHHHhCCCHHHHHHHHHHHHHHccC
Confidence 334556677888888888888887764433222221 37777777776666669999999999988763
No 13
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=46.14 E-value=91 Score=24.31 Aligned_cols=54 Identities=9% Similarity=0.144 Sum_probs=44.6
Q ss_pred eeHHHHHHHHHHhccccchhhhHHHHHHHHHhc-CCcchhhHhHHHHHHhhcccCC
Q psy11261 39 LMSLEAMNQILLSCHAHALNLLQKKLIQKLLEC-HEHVLQILATQSFVKYANIEED 93 (247)
Q Consensus 39 ~V~l~i~~kLl~~C~~q~l~LFa~~ii~~lL~s-~~~~l~i~~~~tf~~F~~~~~d 93 (247)
+-++..+..|+..|+.. +.-|.++|+..|... +.++++..+++++-.|...=++
T Consensus 33 ~~~l~si~~lI~~~~~~-i~~~~pQI~a~L~sal~~~~l~~~al~~W~~fi~~L~~ 87 (107)
T PF08064_consen 33 KRALRSIEELIKLGGSH-ISSARPQIMACLQSALEIPELREEALSCWNCFIKTLDE 87 (107)
T ss_pred HHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHCCH
Confidence 45788899999999996 999999888777653 6679999999999999887544
No 14
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=45.80 E-value=56 Score=23.99 Aligned_cols=89 Identities=10% Similarity=0.097 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhccccchhhhHH----HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcc
Q psy11261 41 SLEAMNQILLSCHAHALNLLQK----KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSD 116 (247)
Q Consensus 41 ~l~i~~kLl~~C~~q~l~LFa~----~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~ 116 (247)
++.++..+....++. -..|.+ ..+-.+|.+++++++..++.++..++.......... .-.++++.+.+.....+
T Consensus 27 a~~~l~~l~~~~~~~-~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~-~~~g~l~~l~~~l~~~~ 104 (120)
T cd00020 27 AAWALSNLSAGNNDN-IQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIV-LEAGGVPKLVNLLDSSN 104 (120)
T ss_pred HHHHHHHHhcCCHHH-HHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHH-HHCCChHHHHHHHhcCC
Confidence 333444444332332 445555 444455667788888888888877775443221111 11246677776666655
Q ss_pred hhHHhhchhhhhhhH
Q psy11261 117 VELRMAGISGIQGII 131 (247)
Q Consensus 117 ~~~R~aGLqaL~~~V 131 (247)
.++|..++.+|..++
T Consensus 105 ~~~~~~a~~~l~~l~ 119 (120)
T cd00020 105 EDIQKNATGALSNLA 119 (120)
T ss_pred HHHHHHHHHHHHHhh
Confidence 577777777766543
No 15
>KOG1062|consensus
Probab=41.92 E-value=4e+02 Score=28.61 Aligned_cols=170 Identities=15% Similarity=0.213 Sum_probs=95.3
Q ss_pred hhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhccccchhhhHH------HHHHHHHhcC-----------Ccchhh
Q psy11261 16 DRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSCHAHALNLLQK------KLIQKLLECH-----------EHVLQI 78 (247)
Q Consensus 16 ~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q~l~LFa~------~ii~~lL~s~-----------~~~l~i 78 (247)
|-..+-..-.+.+=+.-++.|=.--++.++-.++..-.+. +..|=. +|++.+-.++ +|-+|+
T Consensus 174 P~l~e~f~~~~~~lL~ek~hGVL~~~l~l~~e~c~~~~~~-l~~fr~l~~~lV~iLk~l~~~~yspeydv~gi~dPFLQi 252 (866)
T KOG1062|consen 174 PDLVEHFVIAFRKLLCEKHHGVLIAGLHLITELCKISPDA-LSYFRDLVPSLVKILKQLTNSGYSPEYDVHGISDPFLQI 252 (866)
T ss_pred chHHHHhhHHHHHHHhhcCCceeeeHHHHHHHHHhcCHHH-HHHHHHHHHHHHHHHHHHhcCCCCCccCccCCCchHHHH
Confidence 3333444445555566677887788888888877777765 888866 5555554432 355555
Q ss_pred HhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcc------h-----------------hHHhhchhhhhhhHhhcc
Q psy11261 79 LATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSD------V-----------------ELRMAGISGIQGIIRKTV 135 (247)
Q Consensus 79 ~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~------~-----------------~~R~aGLqaL~~~V~~~~ 135 (247)
.....+--....+.|+.+-+. +..++.|...+ . .+|..|...|.-.+.
T Consensus 253 ~iLrlLriLGq~d~daSd~M~------DiLaqvatntdsskN~GnAILYE~V~TI~~I~~~~~LrvlainiLgkFL~--- 323 (866)
T KOG1062|consen 253 RILRLLRILGQNDADASDLMN------DILAQVATNTDSSKNAGNAILYECVRTIMDIRSNSGLRVLAINILGKFLL--- 323 (866)
T ss_pred HHHHHHHHhcCCCccHHHHHH------HHHHHHHhcccccccchhHHHHHHHHHHHhccCCchHHHHHHHHHHHHhc---
Confidence 555554444444444434444 44555555421 1 345555444444333
Q ss_pred ccccchhhcccccccchhhccCCCCCCccccccccccccCCC-------------CCh-HHHHHHHHHHHHccccccccc
Q psy11261 136 SDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEMT-------------SDG-SQMAETCLRELIGRAAFGHVK 201 (247)
Q Consensus 136 ~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~~-------------~~p-~~~a~~CL~~l~~~a~~ttir 201 (247)
+. |++| ++|.- -+++..++.++. +|| ...-++.|.=...+.+..+||
T Consensus 324 n~--d~Ni--------rYvaL---------n~L~r~V~~d~~avqrHr~tIleCL~DpD~SIkrralELs~~lvn~~Nv~ 384 (866)
T KOG1062|consen 324 NR--DNNI--------RYVAL---------NMLLRVVQQDPTAVQRHRSTILECLKDPDVSIKRRALELSYALVNESNVR 384 (866)
T ss_pred CC--ccce--------eeeeh---------hhHHhhhcCCcHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhccccHH
Confidence 21 2333 11111 112222222110 455 345566677777788999999
Q ss_pred hhhhhhhhhccCC
Q psy11261 202 GVVGPVLNHLDMH 214 (247)
Q Consensus 202 ~vl~p~~~~~D~~ 214 (247)
-+++-++.|+++-
T Consensus 385 ~mv~eLl~fL~~~ 397 (866)
T KOG1062|consen 385 VMVKELLEFLESS 397 (866)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999999987
No 16
>KOG1824|consensus
Probab=40.00 E-value=30 Score=37.55 Aligned_cols=107 Identities=18% Similarity=0.254 Sum_probs=64.2
Q ss_pred chhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhccccchhhhHHHHHHHHHh--cCCcchhhHhHH--HHHHhhc
Q psy11261 14 KLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSCHAHALNLLQKKLIQKLLE--CHEHVLQILATQ--SFVKYAN 89 (247)
Q Consensus 14 KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q~l~LFa~~ii~~lL~--s~~~~l~i~~~~--tf~~F~~ 89 (247)
-++||...+.+=|.++ ....---=.-.++++..++..|+++ +.-|.+.|++.+|+ +-|||+- -.++ .=..|..
T Consensus 251 h~~~ivp~v~~y~~~~-e~~dDELrE~~lQale~fl~rcp~e-i~p~~pei~~l~l~yisYDPNy~-yd~~eDed~~~~e 327 (1233)
T KOG1824|consen 251 HLDKIVPLVADYCNKI-EEDDDELREYCLQALESFLRRCPKE-ILPHVPEIINLCLSYISYDPNYN-YDTEEDEDAMFLE 327 (1233)
T ss_pred ccchhhHHHHHHhccc-ccCcHHHHHHHHHHHHHHHHhChhh-hcccchHHHHHHHHHhccCCCCC-CCCccchhhhhhh
Confidence 4677777777777554 1111111145799999999999997 89899999999886 5666552 2221 0011111
Q ss_pred ccCCchHHHHhHHHHHHHhhhhccCcch---hHHhhchhhhhhhHhhcc
Q psy11261 90 IEEDTPSYHRRYDFFISKFSSMCHDSDV---ELRMAGISGIQGIIRKTV 135 (247)
Q Consensus 90 ~~~d~~~y~~~y~~~v~~f~~la~~~~~---~~R~aGLqaL~~~V~~~~ 135 (247)
=.+|+ ++-..| . .+.+ +.|-|+.++|.+||.+--
T Consensus 328 d~eDd-e~~deY-------s----DDeD~SWkVRRaAaKcl~a~IsSR~ 364 (1233)
T KOG1824|consen 328 DEEDD-EQDDEY-------S----DDEDMSWKVRRAAAKCLEAVISSRL 364 (1233)
T ss_pred ccccc-hhcccc-------c----cccchhHHHHHHHHHHHHHHHhccH
Confidence 11122 221111 1 1122 899999999999998653
No 17
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=39.61 E-value=32 Score=20.58 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=22.7
Q ss_pred HHHHhhhhccCcchhHHhhchhhhhhhHh
Q psy11261 104 FISKFSSMCHDSDVELRMAGISGIQGIIR 132 (247)
Q Consensus 104 ~v~~f~~la~~~~~~~R~aGLqaL~~~V~ 132 (247)
+++.+.++......+.|.+..++|..++.
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 45677777877777999999999988875
No 18
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=39.30 E-value=32 Score=29.43 Aligned_cols=115 Identities=16% Similarity=0.119 Sum_probs=65.3
Q ss_pred chhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhc-cccchhhhHH--H----HHHHHHhcCCcchhhHhHHHHHH
Q psy11261 14 KLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSC-HAHALNLLQK--K----LIQKLLECHEHVLQILATQSFVK 86 (247)
Q Consensus 14 KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C-~~q~l~LFa~--~----ii~~lL~s~~~~l~i~~~~tf~~ 86 (247)
+++.|-+.||++-..+=|.+|... +.-+++++..= +.+..+-|.. + .+...+.+.+..+...||.++..
T Consensus 4 ~~~~~~~~l~~~~~~~~W~~r~~a----l~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~ 79 (228)
T PF12348_consen 4 EFEEILAALEKKESESDWEERVEA----LQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSD 79 (228)
T ss_dssp --GGS-TTHHHHHT-SSHHHHHHH----HHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHH
T ss_pred hHHHHHHHHhccCCccCHHHHHHH----HHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 456677777776665556666543 33444555443 1212455544 2 22233344556677888888887
Q ss_pred hhcccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhc
Q psy11261 87 YANIEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 87 F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
++..-... +-...+.+++.....+.....-+|.++..+|..++...
T Consensus 80 l~~~l~~~--~~~~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~ 125 (228)
T PF12348_consen 80 LARQLGSH--FEPYADILLPPLLKKLGDSKKFIREAANNALDAIIESC 125 (228)
T ss_dssp HHHHHGGG--GHHHHHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS
T ss_pred HHHHHhHh--HHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHC
Confidence 77654332 55567888888888887777789999999999999865
No 19
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=36.53 E-value=41 Score=27.86 Aligned_cols=76 Identities=16% Similarity=0.188 Sum_probs=46.1
Q ss_pred CchhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHH----hccccchhhhHHHHHHHHHhcCC--cchhhHhHHHHHH
Q psy11261 13 EKLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILL----SCHAHALNLLQKKLIQKLLECHE--HVLQILATQSFVK 86 (247)
Q Consensus 13 ~KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~----~C~~q~l~LFa~~ii~~lL~s~~--~~l~i~~~~tf~~ 86 (247)
.=+.-|-.+|-.=+-+-+......-...++.|+.-|+. ..|.| +.+|.+.++..+|++.+ ..-++++.+.|..
T Consensus 65 ~l~~~lk~~l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~e-le~~l~~i~~~il~~~~~~~~~k~~~Le~l~~ 143 (168)
T PF12783_consen 65 SLINLLKDDLCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLE-LEVFLSHIILRILESDNSSLWQKELALEILRE 143 (168)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHccCCCcHHHHHHHHHHHHH
Confidence 34444444444444455554444444555555555554 44454 66676688888887654 4567888888888
Q ss_pred hhc
Q psy11261 87 YAN 89 (247)
Q Consensus 87 F~~ 89 (247)
+|.
T Consensus 144 l~~ 146 (168)
T PF12783_consen 144 LCK 146 (168)
T ss_pred HHh
Confidence 885
No 20
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=34.25 E-value=1.7e+02 Score=24.41 Aligned_cols=72 Identities=10% Similarity=-0.008 Sum_probs=53.2
Q ss_pred HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcch-hHHhhchhhhhhhHhhcc
Q psy11261 63 KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDV-ELRMAGISGIQGIIRKTV 135 (247)
Q Consensus 63 ~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~-~~R~aGLqaL~~~V~~~~ 135 (247)
.-|..||+++++.-+-.|+......+...+ ...+.+.|..+++..-++-+..+. ....+.+.+|+.+...+.
T Consensus 28 ~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~-~e~l~~~~~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~ 100 (165)
T PF08167_consen 28 TRINSLLQSKSAYSRWAGLCLLKVTVEQCS-WEILLSHGSQWLRALLSILEKPDPPSVLEAAIITLTRLFDLIR 100 (165)
T ss_pred HHHHHHhCCCChhhHHHHHHHHHHHHHHhh-HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc
Confidence 446778899999999999887776554322 225668999999888877776444 778888888888887663
No 21
>KOG2171|consensus
Probab=34.00 E-value=86 Score=34.36 Aligned_cols=142 Identities=15% Similarity=0.167 Sum_probs=84.7
Q ss_pred cCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhccccccchhhccccccc
Q psy11261 71 CHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKTVSDDLADNIWKSHHLD 150 (247)
Q Consensus 71 s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~ 150 (247)
|.|+..|..|.-.|..+..+=+. +.....+.|.+.|.+==......+|.+++||+.+++-..-. +...| +++.
T Consensus 129 S~~~~~rE~al~il~s~~~~~~~--~~~~~~~~l~~lf~q~~~d~s~~vr~~a~rA~~a~~~~~~~---~~~~~--~~~~ 201 (1075)
T KOG2171|consen 129 SPNPSLRESALLILSSLPETFGN--TLQPHLDDLLRLFSQTMTDPSSPVRVAAVRALGAFAEYLEN---NKSEV--DKFR 201 (1075)
T ss_pred CCCcchhHHHHHHHHhhhhhhcc--ccchhHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHhcc---chHHH--HHHH
Confidence 57888888888777766554322 23344456666666533333346999999999999874411 11121 2333
Q ss_pred chhhccCCCCCCccccccccccccCC---CCChHHHHHHHHHHHHccc-c--ccccchhhhhhhhhccCCCCCCCh-hhH
Q psy11261 151 KRWISDGGDLPTRTIPSLLYNMHHEM---TSDGSQMAETCLRELIGRA-A--FGHVKGVVGPVLNHLDMHRLWPPK-DFA 223 (247)
Q Consensus 151 ~~~v~~~~~~~~~ivPslL~n~~~~~---~~~p~~~a~~CL~~l~~~a-~--~ttir~vl~p~~~~~D~~~~W~~~-~~A 223 (247)
. .+|+++..++..- +++...-+-.||-+|+... + ...+..|++-.+.-.-|.++=++- .+|
T Consensus 202 ~------------llP~~l~vl~~~i~~~d~~~a~~~l~~l~El~e~~pk~l~~~l~~ii~~~l~Ia~n~~l~~~~R~~A 269 (1075)
T KOG2171|consen 202 D------------LLPSLLNVLQEVIQDGDDDAAKSALEALIELLESEPKLLRPHLSQIIQFSLEIAKNKELENSIRHLA 269 (1075)
T ss_pred H------------HhHHHHHHhHhhhhccchHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence 3 7898887776532 3334455556666666655 2 334566666666666666654443 777
Q ss_pred HHHHHHHH
Q psy11261 224 YQVFRILV 231 (247)
Q Consensus 224 ~~~~~~~~ 231 (247)
+.++-..+
T Consensus 270 Le~ivs~~ 277 (1075)
T KOG2171|consen 270 LEFLVSLS 277 (1075)
T ss_pred HHHHHHHH
Confidence 77666533
No 22
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=31.43 E-value=1.8e+02 Score=26.53 Aligned_cols=96 Identities=16% Similarity=0.201 Sum_probs=47.0
Q ss_pred CCCceeeHHHHHHHHHHhccccchhhhHH-------HHHHH---HHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHH
Q psy11261 34 RTQYVLMSLEAMNQILLSCHAHALNLLQK-------KLIQK---LLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDF 103 (247)
Q Consensus 34 r~g~V~V~l~i~~kLl~~C~~q~l~LFa~-------~ii~~---lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~ 103 (247)
+..-++-++-.++.++...+.- -.+|.. ..... +|+++|.-.+..++..+..+....+....... ++
T Consensus 70 ~~d~v~yvL~li~dll~~~~~~-~~~~~~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~iLt~Ll~~~~~~~~~~~--~~ 146 (312)
T PF03224_consen 70 NDDTVQYVLTLIDDLLSDDPSR-VELFLELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFILTSLLSQGPKRSEKLV--KE 146 (312)
T ss_dssp -HHHHHHHHHHHHHHHH-SSSS-HHHHHHHHH-TTH--HHHHHHH-S-SSHHHHHHHHHHHHHHHTSTTT--HHHH--HH
T ss_pred cHHHHHHHHHHHHHHHhcCHHH-HHHHHHhcccccchhHHHHHHHhcCCCHHHHHHHHHHHHHHHHcCCccccchH--HH
Confidence 3344555666666677776663 666665 12222 45566666677777777776666554322111 34
Q ss_pred HHHHhhhhccC----cchhHHhhchhhhhhhHh
Q psy11261 104 FISKFSSMCHD----SDVELRMAGISGIQGIIR 132 (247)
Q Consensus 104 ~v~~f~~la~~----~~~~~R~aGLqaL~~~V~ 132 (247)
+++.|.+.-.+ ++......|+++|+.+.+
T Consensus 147 ~l~~ll~~L~~~l~~~~~~~~~~av~~L~~LL~ 179 (312)
T PF03224_consen 147 ALPKLLQWLSSQLSSSDSELQYIAVQCLQNLLR 179 (312)
T ss_dssp HHHHHHHHHH-TT-HHHH---HHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhhcCCCcchHHHHHHHHHHHhC
Confidence 44555444332 222455666777766654
No 23
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=31.14 E-value=1.9e+02 Score=28.60 Aligned_cols=68 Identities=10% Similarity=0.227 Sum_probs=52.4
Q ss_pred HHHhcCCcchhhHhHHHHHHhhcccCCchHH----HHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhc
Q psy11261 67 KLLECHEHVLQILATQSFVKYANIEEDTPSY----HRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 67 ~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y----~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
..+++++++++..|.+||-.+++..++-..- -...+.++..++..+......+|..+|+||+.+....
T Consensus 297 ~~~~s~d~~~~~~A~dtlg~igst~~G~~~L~~~~~~~~~~~l~~~~~~~~~~~~~lk~r~l~al~~il~~~ 368 (503)
T PF10508_consen 297 SMLESQDPTIREVAFDTLGQIGSTVEGKQLLLQKQGPAMKHVLKAIGDAIKSGSTELKLRALHALASILTSG 368 (503)
T ss_pred HHhCCCChhHHHHHHHHHHHHhCCHHHHHHHHhhcchHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcC
Confidence 4457899999999999998888776554222 2345677888888888766689999999999998654
No 24
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=29.12 E-value=1.7e+02 Score=28.00 Aligned_cols=92 Identities=20% Similarity=0.225 Sum_probs=59.4
Q ss_pred CCceeeHHHHHHHHHHhccccchhhhHH--HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhc
Q psy11261 35 TQYVLMSLEAMNQILLSCHAHALNLLQK--KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMC 112 (247)
Q Consensus 35 ~g~V~V~l~i~~kLl~~C~~q~l~LFa~--~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la 112 (247)
..+-.|.+++.+.++.-.+.+ ++... +.+..+|.+++++++..+.+++..++... +.+.+ ...+ ..| .+.
T Consensus 242 s~~~~V~~e~~~~i~~l~~~~--~~~~~~~~~L~~lL~s~~~nvr~~~L~~L~~l~~~~---~~~v~-~~~~-~~~-~l~ 313 (526)
T PF01602_consen 242 SSSPSVVYEAIRLIIKLSPSP--ELLQKAINPLIKLLSSSDPNVRYIALDSLSQLAQSN---PPAVF-NQSL-ILF-FLL 313 (526)
T ss_dssp HHHHHHHHHHHHHHHHHSSSH--HHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHCCHC---HHHHG-THHH-HHH-HHH
T ss_pred ccccHHHHHHHHHHHHhhcch--HHHHhhHHHHHHHhhcccchhehhHHHHHHHhhccc---chhhh-hhhh-hhh-eec
Confidence 455678899999888666654 43333 77777888999999999999998877665 23444 1112 222 222
Q ss_pred cCcchhHHhhchhhhhhhHhhc
Q psy11261 113 HDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 113 ~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
.+++..+|...|..|..++...
T Consensus 314 ~~~d~~Ir~~~l~lL~~l~~~~ 335 (526)
T PF01602_consen 314 YDDDPSIRKKALDLLYKLANES 335 (526)
T ss_dssp CSSSHHHHHHHHHHHHHH--HH
T ss_pred CCCChhHHHHHHHHHhhccccc
Confidence 3444567777788777777643
No 25
>COG5181 HSH155 U2 snRNP spliceosome subunit [RNA processing and modification]
Probab=27.89 E-value=5.3e+02 Score=27.34 Aligned_cols=80 Identities=20% Similarity=0.217 Sum_probs=40.4
Q ss_pred chhhhhccCCCchhhhHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHhccccc------------------------hh
Q psy11261 3 KLTFYALSSPEKLDRIGDYLYETASRDISRKRTQYVLMSLEAMNQILLSCHAHA------------------------LN 58 (247)
Q Consensus 3 kL~yYa~s~p~KL~KIg~yLekR~~kdl~r~r~g~V~V~l~i~~kLl~~C~~q~------------------------l~ 58 (247)
|++.|-.--|+---|..+-+..|+-.-+-+..+|-=.++ ..|+.++.+-.+|+ ++
T Consensus 525 kil~~~~De~ep~r~m~a~~vsri~~~lg~~~~dErlee-rl~d~il~Afqeq~~t~~~il~~f~tv~vsl~~r~kp~l~ 603 (975)
T COG5181 525 KILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEE-RLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFRGKPHLS 603 (975)
T ss_pred HHHhhccCCcchhhhhhhHHHHHHHHhcccccccHHHHH-HHHHHHHHHHHhccccccEEEecccceeeehhhccCcchH
Confidence 445555555555555555555555544444333332221 23444444433331 33
Q ss_pred hhHHHHHHHHHhcCCcchhhHhHHHH
Q psy11261 59 LLQKKLIQKLLECHEHVLQILATQSF 84 (247)
Q Consensus 59 LFa~~ii~~lL~s~~~~l~i~~~~tf 84 (247)
-.++ -|-.+|.++.++.++.|..+-
T Consensus 604 ~ivS-tiL~~L~~k~p~vR~~aadl~ 628 (975)
T COG5181 604 MIVS-TILKLLRSKPPDVRIRAADLM 628 (975)
T ss_pred HHHH-HHHHHhcCCCccHHHHHHHHH
Confidence 3332 233456789999999987554
No 26
>smart00802 UME Domain in UVSB PI-3 kinase, MEI-41 and ESR-1. Characteristic domain in UVSP PI-3 kinase, MEI-41 and ESR-1. Found in nucleolar proteins. Associated with FAT, FATC, PI3_PI4_kinase modules.
Probab=27.40 E-value=2.1e+02 Score=22.59 Aligned_cols=52 Identities=12% Similarity=0.144 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhccccchhhhHHHHHHHHHhc-CCcchhhHhHHHHHHhhcccCC
Q psy11261 41 SLEAMNQILLSCHAHALNLLQKKLIQKLLEC-HEHVLQILATQSFVKYANIEED 93 (247)
Q Consensus 41 ~l~i~~kLl~~C~~q~l~LFa~~ii~~lL~s-~~~~l~i~~~~tf~~F~~~~~d 93 (247)
++..+..|+..|... +.-|.+.|+-.|... +.++++..+.+++..|...=++
T Consensus 35 ~i~ai~~lI~~~g~~-i~~a~pQI~acL~saL~~~eL~~~al~~W~~~i~~L~~ 87 (107)
T smart00802 35 ALRSIGFLIKLMGKH-ISSALPQIMACLQSALEIPELRSLALRCWHVLIKTLKE 87 (107)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhCCH
Confidence 677888999999986 888888777766644 7888999999999998876443
No 27
>KOG2023|consensus
Probab=26.69 E-value=88 Score=32.92 Aligned_cols=68 Identities=18% Similarity=0.247 Sum_probs=49.2
Q ss_pred HHHHHHhcCCcchhhHhHHHHHHhhcccCCchHH------HHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhc
Q psy11261 64 LIQKLLECHEHVLQILATQSFVKYANIEEDTPSY------HRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 64 ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y------~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
.+-++|++.+-+.+.-|-..+.+-| +|++.+ .|-.+.++++|.++.+....++|.-++.++.-+|--.
T Consensus 132 ~L~~~L~s~d~n~~EgA~~AL~KIc---EDsa~~lds~~~~rpl~~mipkfl~f~~h~spkiRs~A~~cvNq~i~~~ 205 (885)
T KOG2023|consen 132 QLCELLDSPDYNTCEGAFGALQKIC---EDSAQFLDSDVLTRPLNIMIPKFLQFFKHPSPKIRSHAVGCVNQFIIIQ 205 (885)
T ss_pred HHHHHhcCCcccccchhHHHHHHHH---hhhHHHHhhhcccCchHHhHHHHHHHHhCCChhHHHHHHhhhhheeecC
Confidence 3445677777777766655555433 444333 4668999999999999888899999999998887543
No 28
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=24.99 E-value=1.3e+02 Score=25.17 Aligned_cols=94 Identities=12% Similarity=0.163 Sum_probs=59.5
Q ss_pred HHHHHHhhhhccCcchhHHhhchhhhhhhHhhccccccchhhcccccccchhhccCCCCCCccccccccccccCCCCChH
Q psy11261 102 DFFISKFSSMCHDSDVELRMAGISGIQGIIRKTVSDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEMTSDGS 181 (247)
Q Consensus 102 ~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~~~~p~ 181 (247)
|.+++.....=+.....+|...+..|+..+... -+ =|+++ ++..++.-+. +++.+.+
T Consensus 24 e~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d---~i---k~k~~----------------l~~~~l~~l~-D~~~~Ir 80 (178)
T PF12717_consen 24 EPYLPNLYKCLRDEDPLVRKTALLVLSHLILED---MI---KVKGQ----------------LFSRILKLLV-DENPEIR 80 (178)
T ss_pred HhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC---ce---eehhh----------------hhHHHHHHHc-CCCHHHH
Confidence 333444444444455589999999999998632 10 02221 2122332222 1122347
Q ss_pred HHHHHHHHHHHccccccccchhhhhhhhhccCCCCCC
Q psy11261 182 QMAETCLRELIGRAAFGHVKGVVGPVLNHLDMHRLWP 218 (247)
Q Consensus 182 ~~a~~CL~~l~~~a~~ttir~vl~p~~~~~D~~~~W~ 218 (247)
..|..|+.++...-+...+...+-.++.+|.+...|.
T Consensus 81 ~~A~~~~~e~~~~~~~~~i~~~~~e~i~~l~~~~~~~ 117 (178)
T PF12717_consen 81 SLARSFFSELLKKRNPNIIYNNFPELISSLNNCYEHP 117 (178)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHHHHHHhCccccc
Confidence 8999999999998777778888888888998887775
No 29
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=23.85 E-value=3.4e+02 Score=22.32 Aligned_cols=95 Identities=12% Similarity=0.174 Sum_probs=53.5
Q ss_pred hhhhhccCCCchhhhHHHHHHHHHHHHhhcCCCce---eeHHHHHHHHHHhccccch-hhhHH-HHHHH---HHhc----
Q psy11261 4 LTFYALSSPEKLDRIGDYLYETASRDISRKRTQYV---LMSLEAMNQILLSCHAHAL-NLLQK-KLIQK---LLEC---- 71 (247)
Q Consensus 4 L~yYa~s~p~KL~KIg~yLekR~~kdl~r~r~g~V---~V~l~i~~kLl~~C~~q~l-~LFa~-~ii~~---lL~s---- 71 (247)
+|....+.|..=-.....|.||+. .+|. .-+|.+++.++.-|-.. . .-+++ ..++. ++..
T Consensus 25 icD~In~~~~~~k~a~rai~krl~-------~~n~~v~l~AL~LLe~~vkNCG~~-fh~evas~~Fl~el~kl~~~k~~~ 96 (139)
T cd03567 25 FCEQINKEPEGPQLAVRLLAHKIQ-------SPQEKEALQALTVLEACMKNCGER-FHSEVGKFRFLNELIKLVSPKYLG 96 (139)
T ss_pred HHHHHHcCCccHHHHHHHHHHHHc-------CCCHHHHHHHHHHHHHHHHHcCHH-HHHHHHhHHHHHHHHHHhccccCC
Confidence 566677777632233445555543 4444 44566668889999775 3 33444 33333 3322
Q ss_pred --CCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHH
Q psy11261 72 --HEHVLQILATQSFVKYANIEEDTPSYHRRYDFFIS 106 (247)
Q Consensus 72 --~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~ 106 (247)
.+.+.+....+.+..|+.-=.+.|.|..-|+.+.+
T Consensus 97 ~~~~~~Vk~kil~li~~W~~~f~~~p~~~~~Y~~Lk~ 133 (139)
T cd03567 97 SRTSEKVKTKIIELLYSWTLELPHEPKIKEAYDMLKK 133 (139)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence 34566666777777666532344567777776543
No 30
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=23.29 E-value=1.2e+02 Score=24.66 Aligned_cols=69 Identities=16% Similarity=0.192 Sum_probs=46.6
Q ss_pred HHHHHHH-hcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHh
Q psy11261 63 KLIQKLL-ECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIR 132 (247)
Q Consensus 63 ~ii~~lL-~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~ 132 (247)
+.+-.+| .+.++....+||.-.-.|+.....+-.....+..-.....-|.+ .+..+|--+|.|++.++.
T Consensus 46 k~L~~lL~~s~d~~~laVac~Dig~~vr~~p~gr~ii~~lg~K~~vM~Lm~h-~d~eVr~eAL~avQklm~ 115 (119)
T PF11698_consen 46 KKLIKLLDKSDDPTTLAVACHDIGEFVRHYPNGRNIIEKLGAKERVMELMNH-EDPEVRYEALLAVQKLMV 115 (119)
T ss_dssp HHHHHHH-SHHHHHHHHHHHHHHHHHHHH-GGGHHHHHHHSHHHHHHHHTS--SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHccCCCcceeehhhcchHHHHHHChhHHHHHHhcChHHHHHHHhcC-CCHHHHHHHHHHHHHHHH
Confidence 5555667 45677777888988888888877665555554444444444455 345899999999998875
No 31
>PTZ00429 beta-adaptin; Provisional
Probab=23.24 E-value=9.1e+02 Score=25.57 Aligned_cols=62 Identities=10% Similarity=0.056 Sum_probs=29.9
Q ss_pred hcCCcchhhHhHHHHHHhhcccCCchHHHHhHH-HHHHHhhhhccCcchhHHhhchhhhhhhHhhc
Q psy11261 70 ECHEHVLQILATQSFVKYANIEEDTPSYHRRYD-FFISKFSSMCHDSDVELRMAGISGIQGIIRKT 134 (247)
Q Consensus 70 ~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~-~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~ 134 (247)
++.++.....++.+|..+....+ +..++.+- .+..-+-.+. .....+|-++|+.|.-++.+.
T Consensus 266 q~~N~AVVl~Aik~il~l~~~~~--~~~~~~~~~rl~~pLv~L~-ss~~eiqyvaLr~I~~i~~~~ 328 (746)
T PTZ00429 266 SHQNPAVVMGAIKVVANLASRCS--QELIERCTVRVNTALLTLS-RRDAETQYIVCKNIHALLVIF 328 (746)
T ss_pred cCCCHHHHHHHHHHHHHhcCcCC--HHHHHHHHHHHHHHHHHhh-CCCccHHHHHHHHHHHHHHHC
Confidence 35555555555666655543321 12332221 1112222332 223368888888887776643
No 32
>PF11588 DUF3243: Protein of unknown function (DUF3243); InterPro: IPR021637 This family of proteins with unknown function includes uncharacterised proteins ymfJ and yflH. The family appears to be restricted to Firmicutes.; PDB: 3D0W_B.
Probab=22.68 E-value=74 Score=24.29 Aligned_cols=17 Identities=35% Similarity=0.546 Sum_probs=14.8
Q ss_pred hhhHHHH---------HHHHHHHHhh
Q psy11261 16 DRIGDYL---------YETASRDISR 32 (247)
Q Consensus 16 ~KIg~yL---------ekR~~kdl~r 32 (247)
.+||.|| |+|+-+|||.
T Consensus 36 ~~iGdyLA~~vdP~N~EerlLkELW~ 61 (81)
T PF11588_consen 36 YQIGDYLAKNVDPKNPEERLLKELWD 61 (81)
T ss_dssp HHHHHHHHT-----SHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence 4799999 7899999995
No 33
>KOG1242|consensus
Probab=22.43 E-value=2.3e+02 Score=29.10 Aligned_cols=117 Identities=24% Similarity=0.282 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhccccchhhhHH----HHHHHHHhcCCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcc
Q psy11261 41 SLEAMNQILLSCHAHALNLLQK----KLIQKLLECHEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSD 116 (247)
Q Consensus 41 ~l~i~~kLl~~C~~q~l~LFa~----~ii~~lL~s~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~ 116 (247)
+.++.+++...-..+....|.. ++.....++.-.-++.+|+-.+-+ +. ..-.-.-.+|++..+..+.+.
T Consensus 236 a~~a~kai~~~~~~~aVK~llpsll~~l~~~kWrtK~aslellg~m~~~a------p~-qLs~~lp~iiP~lsevl~DT~ 308 (569)
T KOG1242|consen 236 AVEAAKAIMRCLSAYAVKLLLPSLLGSLLEAKWRTKMASLELLGAMADCA------PK-QLSLCLPDLIPVLSEVLWDTK 308 (569)
T ss_pred HHHHHHHHHHhcCcchhhHhhhhhHHHHHHHhhhhHHHHHHHHHHHHHhc------hH-HHHHHHhHhhHHHHHHHccCC
Q ss_pred hhHHhhchhhhhhhHhhccccccchhhcccccccchhhccCCCCCCccccccccccccCCCCChHHHHHHHHHHH
Q psy11261 117 VELRMAGISGIQGIIRKTVSDDLADNIWKSHHLDKRWISDGGDLPTRTIPSLLYNMHHEMTSDGSQMAETCLREL 191 (247)
Q Consensus 117 ~~~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~~~~v~~~~~~~~~ivPslL~n~~~~~~~~p~~~a~~CL~~l 191 (247)
..+|.||..+|..+.+..-+.+++. ++|.++.-+. +|.--...|++.|
T Consensus 309 ~evr~a~~~~l~~~~svidN~dI~~----------------------~ip~Lld~l~-----dp~~~~~e~~~~L 356 (569)
T KOG1242|consen 309 PEVRKAGIETLLKFGSVIDNPDIQK----------------------IIPTLLDALA-----DPSCYTPECLDSL 356 (569)
T ss_pred HHHHHHHHHHHHHHHHhhccHHHHH----------------------HHHHHHHHhc-----CcccchHHHHHhh
No 34
>KOG2274|consensus
Probab=21.72 E-value=1.8e+02 Score=31.56 Aligned_cols=123 Identities=14% Similarity=0.234 Sum_probs=72.4
Q ss_pred CCcchhhHhHHHHHHhhcccCCchHHHHhHHHHHHHhhhhccCcchhHHhhchhhhhhhHhhccccccchhhcccccccc
Q psy11261 72 HEHVLQILATQSFVKYANIEEDTPSYHRRYDFFISKFSSMCHDSDVELRMAGISGIQGIIRKTVSDDLADNIWKSHHLDK 151 (247)
Q Consensus 72 ~~~~l~i~~~~tf~~F~~~~~d~~~y~~~y~~~v~~f~~la~~~~~~~R~aGLqaL~~~V~~~~~d~l~~~i~~~~~~~~ 151 (247)
.-+-..+.++.+|--||.-+.= ..-...+++-..++|....+..-..=..+|+.||...-+.+- .|.
T Consensus 503 ~~~~~ki~a~~~~~~~~~~~vl----~~~~p~ild~L~qlas~~s~evl~llmE~Ls~vv~~dpef~a--------s~~- 569 (1005)
T KOG2274|consen 503 VPPPVKISAVRAFCGYCKVKVL----LSLQPMILDGLLQLASKSSDEVLVLLMEALSSVVKLDPEFAA--------SME- 569 (1005)
T ss_pred CCCchhHHHHHHHHhccCceec----cccchHHHHHHHHHcccccHHHHHHHHHHHHHHhccChhhhh--------hhh-
Confidence 4455677777777777743321 122234444455555544444555667788888875433211 011
Q ss_pred hhhccCCCCCCccccccccccccCCCCCh--HHHHHHHHHHHHccc-cccccchhhhh-hhhhccCCCCCCC
Q psy11261 152 RWISDGGDLPTRTIPSLLYNMHHEMTSDG--SQMAETCLRELIGRA-AFGHVKGVVGP-VLNHLDMHRLWPP 219 (247)
Q Consensus 152 ~~v~~~~~~~~~ivPslL~n~~~~~~~~p--~~~a~~CL~~l~~~a-~~ttir~vl~p-~~~~~D~~~~W~~ 219 (247)
. +|-+...|+-.+-++|| ...++.|+.++...+ +.+.+...+-| ++.=++... |.-
T Consensus 570 ----------s-kI~P~~i~lF~k~s~DP~V~~~~qd~f~el~q~~~~~g~m~e~~iPslisil~~~~-~~~ 629 (1005)
T KOG2274|consen 570 ----------S-KICPLTINLFLKYSEDPQVASLAQDLFEELLQIAANYGPMQERLIPSLISVLQLNA-DKA 629 (1005)
T ss_pred ----------c-chhHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHcCcc-ccc
Confidence 1 33344556665667888 467899999999988 68887665555 556666555 543
Done!