Query 019032
Match_columns 347
No_of_seqs 125 out of 372
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 06:07:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019032.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019032hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0251 Clathrin assembly prot 100.0 6.2E-66 1.4E-70 521.3 22.8 269 9-294 1-276 (491)
2 PF07651 ANTH: ANTH domain; I 100.0 6.7E-52 1.4E-56 394.0 23.9 253 32-294 2-265 (280)
3 cd03564 ANTH_AP180_CALM ANTH d 100.0 1.3E-32 2.8E-37 231.3 11.3 117 34-157 1-117 (117)
4 smart00273 ENTH Epsin N-termin 100.0 2E-28 4.2E-33 208.4 9.5 124 33-162 2-125 (127)
5 KOG0980 Actin-binding protein 99.9 6E-21 1.3E-25 199.7 14.3 236 32-287 5-251 (980)
6 PF01417 ENTH: ENTH domain; I 99.3 1.8E-11 3.9E-16 103.9 9.3 117 32-155 2-120 (125)
7 cd00197 VHS_ENTH_ANTH VHS, ENT 99.2 5.1E-11 1.1E-15 99.4 7.5 112 35-154 2-113 (115)
8 cd03571 ENTH_epsin ENTH domain 98.9 2.2E-09 4.7E-14 91.5 7.7 114 34-155 2-117 (123)
9 cd03572 ENTH_epsin_related ENT 98.1 9.9E-06 2.2E-10 69.0 7.4 113 37-155 5-118 (122)
10 KOG2056 Equilibrative nucleosi 98.1 9.7E-06 2.1E-10 79.5 7.3 130 11-154 5-136 (336)
11 PF00790 VHS: VHS domain; Int 95.6 0.041 8.9E-07 47.5 7.1 78 32-111 4-81 (140)
12 cd03568 VHS_STAM VHS domain fa 95.6 0.055 1.2E-06 47.3 7.9 75 35-111 2-76 (144)
13 cd03567 VHS_GGA VHS domain fam 95.6 0.061 1.3E-06 46.9 8.0 76 34-111 2-77 (139)
14 cd03569 VHS_Hrs_Vps27p VHS dom 95.4 0.083 1.8E-06 46.0 8.3 78 32-111 3-80 (142)
15 cd03565 VHS_Tom1 VHS domain fa 95.4 0.085 1.8E-06 45.9 8.3 77 34-111 2-78 (141)
16 smart00288 VHS Domain present 94.9 0.13 2.9E-06 44.1 8.0 75 35-111 2-76 (133)
17 cd03561 VHS VHS domain family; 94.8 0.15 3.3E-06 43.6 7.9 75 35-111 2-76 (133)
18 KOG2057 Predicted equilibrativ 93.5 0.11 2.4E-06 51.2 4.8 117 30-152 20-139 (499)
19 KOG2199 Signal transducing ada 82.5 4.9 0.00011 40.8 7.5 77 32-111 7-84 (462)
20 KOG1087 Cytosolic sorting prot 58.9 31 0.00067 36.0 7.2 76 34-111 2-77 (470)
21 PF00046 Homeobox: Homeobox do 38.2 31 0.00067 24.3 2.5 45 232-279 8-52 (57)
22 PF12783 Sec7_N: Guanine nucle 36.2 2.7E+02 0.0059 24.1 8.7 62 220-281 96-163 (168)
23 KOG1961 Vacuolar sorting prote 33.3 6.7E+02 0.014 27.3 12.1 64 212-279 538-611 (683)
24 cd00086 homeodomain Homeodomai 23.3 1.6E+02 0.0034 20.4 4.1 44 233-279 9-52 (59)
25 PF12652 CotJB: CotJB protein; 23.0 85 0.0018 24.7 2.8 28 250-277 24-51 (78)
26 PF11728 DUF939_C: DUF939 C-te 22.4 5.5E+02 0.012 22.7 8.2 84 190-275 77-162 (167)
27 TIGR02606 antidote_CC2985 puta 20.5 1E+02 0.0022 23.5 2.6 45 48-94 7-51 (69)
No 1
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.2e-66 Score=521.26 Aligned_cols=269 Identities=28% Similarity=0.389 Sum_probs=244.3
Q ss_pred HHHhhhccccchhhhcccCCCCchhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHH
Q 019032 9 IFNGVLKDKASLIKTTLSTKRQTSFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFV 88 (347)
Q Consensus 9 ~~~G~lKD~asi~~A~v~~~~~~~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~V 88 (347)
+++|++||++|+++|++++ ..+++++||+|||||+. .|||+|||++|+.+|++++++++.||++|++||++|+||+|
T Consensus 1 ~~~gaiKD~~s~~~a~v~~--~~~~l~~AV~KATsh~~-~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~V 77 (491)
T KOG0251|consen 1 RAIGAIKDRTSIGKASVAS--AGSDLEKAVVKATSHDD-MPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTV 77 (491)
T ss_pred CCccccchhhhhHHHHhhh--hhhhHHHHHHhhccCCC-CCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceee
Confidence 4789999999999999976 45699999999999995 99999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCcchHHHHhhcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhHhhhhhccccccCC
Q 019032 89 ALKCLYTIHNIITKDSFILKDQLSIFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLTVSRVLGYHLSSSD 168 (347)
Q Consensus 89 alK~LIviH~lireG~~~f~d~l~~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~~~r~l~~d~~~~~ 168 (347)
|||||||||+||++|++.|.+++..+. ..|+|++|+|++++.+|||++|||+|+.||+||+.+|+.+++|++..+
T Consensus 78 AlKsLIliH~ll~~G~~~f~~~l~~~~-----~~l~lS~F~d~s~~~~~d~safVR~Ya~YLderl~~~~~~~~d~~~~~ 152 (491)
T KOG0251|consen 78 ALKALILIHRLLKEGDPSFEQELLSRN-----LILNLSDFRDKSSSLTWDMSAFVRTYALYLDERLECYRVLGFDIEKVK 152 (491)
T ss_pred hHHHHHHHHHHHhcCcHHHHHHHHhcc-----cccchhhhhcccccccchhhHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 999999999999999999999995331 479999999999999999999999999999999999999999998763
Q ss_pred CCCCCchhhhHHhhcC-hHHHHHHHHHHHHHHHHh-hcCCCcccccccHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 019032 169 SKKNHKDKEEKIFALL-SSDLLIEIDALVGFVQEI-SNVPNSLHLQRNNLVYEIVRLVSED----YRLIQREISLRVVEL 242 (347)
Q Consensus 169 s~~~~~~~~~~l~~L~-~~~LL~~l~~LQ~li~~l-~~~p~~~~l~~N~li~~a~~Ll~ed----Y~~~negIi~lLe~~ 242 (347)
... ....++++. ++.+|+.++.||.||+++ +|+|.+.++ +|.+|++||.||++| |+++|+||+++||+|
T Consensus 153 ~~~----~k~~~~~~~~~~~~l~~i~~LQ~lld~ll~~~p~~~~~-~N~lI~~A~~lvvkdsf~ly~~i~~gi~~Llekf 227 (491)
T KOG0251|consen 153 RGK----EKTKDRSSKSTDKLLKTIPKLQNLLDRLLKCRPTGSAL-NNGLIIEAFELVVKDSFKLYAAINDGIINLLEKF 227 (491)
T ss_pred Ccc----cccccccccchHHHHHHHHHHHHHHHHHHcCCCCchhh-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 211 223444555 789999999999999965 999999985 999999999999777 999999999999999
Q ss_pred HhhccCCCHHHHHHHHHHHHHHHHhHHHHHHHHHh-hhhcCcccccchhhhhh
Q 019032 243 DERMTSLSVDQLTLFMSALKKFEDCKERLSLLFVN-RKKNDGLWHLIGETKMK 294 (347)
Q Consensus 243 fEr~~~ms~~da~~aL~iyKrf~~q~E~L~~~f~~-r~~~~~~w~~~~~~k~~ 294 (347)
|| |+++||.++|+|||||.+|+|+|++||++ |...-+.|..+|++|.+
T Consensus 228 fe----m~~~~a~~al~iykr~~~q~e~L~~f~~~ck~~g~~r~~~iP~l~~i 276 (491)
T KOG0251|consen 228 FE----MSKHDAIKALDIYKRFLSQTEKLSEFLKVCKSVGVDRGFEIPVLKRI 276 (491)
T ss_pred hh----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCcchhhc
Confidence 96 99999999999999999999999999999 55559999999999955
No 2
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=100.00 E-value=6.7e-52 Score=394.02 Aligned_cols=253 Identities=25% Similarity=0.353 Sum_probs=191.4
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+++++||+|||+|++ +|||+|||++||.+|++ +.+++.++++|++|++.|+||+||+||||++|+|||+|+|.|.+++
T Consensus 2 ~~l~~av~KAT~~~~-~ppk~Khv~~il~~t~~-~~~~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~~~~~~~ 79 (280)
T PF07651_consen 2 SDLEKAVIKATSHDE-APPKEKHVREILSATSS-PESVAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHPSFLQEL 79 (280)
T ss_dssp -HHHHHHHHHT-SSS----HHHHHHHHHHHCST-TS-HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-CHHHHHH
T ss_pred hHHHHHHHHHcCCCC-CCCCHHHHHHHHHHhcC-CccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCchHHHHHH
Confidence 489999999999996 99999999999999999 8889999999999999999999999999999999999999999888
Q ss_pred hhcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhHhhhhhccc---cccCCCC--CCCchhhhHHhhcChH
Q 019032 112 SIFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLTVSRVLGYH---LSSSDSK--KNHKDKEEKIFALLSS 186 (347)
Q Consensus 112 ~~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~~~r~l~~d---~~~~~s~--~~~~~~~~~l~~L~~~ 186 (347)
..+.. ......++++| |++++.+|+|+.|||+|++||++|+.+|+.++.+ ++..... ...+..... ..++..
T Consensus 80 ~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~ir~Y~~yL~~rl~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~-~~~~~~ 156 (280)
T PF07651_consen 80 LRYNR-RLFDLSNIWDF-DDSSSKSWDYSAFIRAYAKYLDERLSFHRKLKIDPGNLEREEEGSLVSRDDPNSR-KSLDID 156 (280)
T ss_dssp HHTT------TT---T----SSCHHHHHHHHHHHHHHHHHHHHHHHHHHSS----CCCS--S-----TTSHCC--C--HH
T ss_pred HHccc-chhhhcccccc-ccCCccccchhHHHHHHHHHHHHHHHHHHHccccccccccccccccccccCcccc-ccccHH
Confidence 65532 22223334444 4677889999999999999999999999999987 4433211 111111111 366688
Q ss_pred HHHHHHHHHHHHHHH-hhcCCCcccccccHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHH
Q 019032 187 DLLIEIDALVGFVQE-ISNVPNSLHLQRNNLVYEIVRLVSED----YRLIQREISLRVVELDERMTSLSVDQLTLFMSAL 261 (347)
Q Consensus 187 ~LL~~l~~LQ~li~~-l~~~p~~~~l~~N~li~~a~~Ll~ed----Y~~~negIi~lLe~~fEr~~~ms~~da~~aL~iy 261 (347)
+||++++.||+++++ +.|+|.+.++ +|.++++|+.+|+.| |..+|+||+++++.||| |++.||.+++++|
T Consensus 157 ~lL~~l~~lq~ll~~ll~~~~~~~~~-~n~~~~~a~~lli~Ds~~lY~~i~~~i~~Ll~~~~~----m~~~~a~~~~~i~ 231 (280)
T PF07651_consen 157 DLLDQLPKLQRLLDRLLDCRPRGAAL-NNQCVQAAFRLLIKDSFQLYKFINEGIINLLERFFE----MSKPDAEKLLGIY 231 (280)
T ss_dssp HHHHHHHHHHHHHHHHHTT---GGG---SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC----S-CHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcccccccch-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----cchHHHHHHHHHH
Confidence 999999999999996 5999999985 799999999999766 99999999999999995 9999999999999
Q ss_pred HHHHHhHHHHHHHHHhhhhcCccccc-chhhhhh
Q 019032 262 KKFEDCKERLSLLFVNRKKNDGLWHL-IGETKMK 294 (347)
Q Consensus 262 Krf~~q~E~L~~~f~~r~~~~~~w~~-~~~~k~~ 294 (347)
+||.+|+++|.+||++|+.-..+=.+ ||.++..
T Consensus 232 ~rf~~q~~~L~~Fy~~c~~~~~~~~~~iP~l~~~ 265 (280)
T PF07651_consen 232 KRFAKQTEELKEFYEWCKSLGYFRSLEIPSLPHI 265 (280)
T ss_dssp HHHHHHHHHHHHHHHHHHHCT--GGG-S--GGGS
T ss_pred HHHHHHHHHHHHHHHHHHhCCcccCCCCCCCCCC
Confidence 99999999999999998877666555 8888855
No 3
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=99.98 E-value=1.3e-32 Score=231.31 Aligned_cols=117 Identities=30% Similarity=0.454 Sum_probs=107.9
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHHhh
Q 019032 34 IRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQLSI 113 (347)
Q Consensus 34 l~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l~~ 113 (347)
+++||.|||+|++ +|||+|||++|+.+|++++.++++++.+|.+|+++ +||+||+||||++|+|||+|+|.+.++...
T Consensus 1 ~~~aV~kAT~~~~-~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~-~~w~v~~K~LillH~llr~G~~~~~~~~~~ 78 (117)
T cd03564 1 LEKAVKKATSHDE-APPKDKHVRKIIAGTSSSPASIPSFASALSRRLLD-RNWVVVLKALILLHRLLREGHPSFLQELLS 78 (117)
T ss_pred CchHHHhhcCCCC-CCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-CcHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 4789999999996 99999999999999999889999999999999998 899999999999999999999988888753
Q ss_pred cccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhHhh
Q 019032 114 FPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLTVS 157 (347)
Q Consensus 114 y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~~~ 157 (347)
+ +++|++++|.|.+++.+|+++.|||+|++||++|+.+|
T Consensus 79 ~-----~~~l~l~~~~~~~~~~~~~~~~~Vr~Ya~yL~~rl~~~ 117 (117)
T cd03564 79 R-----RGWLNLSNFLDKSSSLGYGYSAFIRAYARYLDERLSFH 117 (117)
T ss_pred c-----cCeeeccccccCCCCCchhhhHHHHHHHHHHHHHHhcC
Confidence 2 46899999999877788999999999999999999864
No 4
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=99.95 E-value=2e-28 Score=208.39 Aligned_cols=124 Identities=23% Similarity=0.258 Sum_probs=111.2
Q ss_pred hHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHHh
Q 019032 33 FIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQLS 112 (347)
Q Consensus 33 dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l~ 112 (347)
+++++|.|||+|++ .|||+||+++|+.+|++++..++.++..|.+||+++++|+||+|||+++|+||++|++.+.+...
T Consensus 2 ~~e~~V~kAT~~~~-~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~~~~~~~~ 80 (127)
T smart00273 2 DLEVKVRKATNNDE-WGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEAL 80 (127)
T ss_pred HHHHHHHHhcCCCC-CCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 68999999999997 99999999999999999988889999999999998889999999999999999999986654443
Q ss_pred hcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhHhhhhhcc
Q 019032 113 IFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLTVSRVLGY 162 (347)
Q Consensus 113 ~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~~~r~l~~ 162 (347)
..+..+++|++|.+. ++.+||++.|||+||+||++++..++.++.
T Consensus 81 ----~~~~~i~~L~~f~~~-~~~~~d~g~~VR~ya~~L~~~l~~~~~l~~ 125 (127)
T smart00273 81 ----RNRNRILNLSDFQDI-DSRGKDQGANIRTYAKYLLERLEDDRRLKE 125 (127)
T ss_pred ----HhhHHHhhHhhCeec-CCCCeeCcHHHHHHHHHHHHHHcCHHHHhc
Confidence 224468899999986 568899999999999999999999887764
No 5
>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]
Probab=99.85 E-value=6e-21 Score=199.72 Aligned_cols=236 Identities=13% Similarity=0.145 Sum_probs=182.7
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCc-chHHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSF-ILKDQ 110 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~-~f~d~ 110 (347)
.+...||-||+|.++ +|||+||++.||.+||...+ +..++...+|+.=.++.+..+|.++++|++||+||| .+.|.
T Consensus 5 ~~q~~av~KAis~~E-t~~K~KH~Rt~I~gTh~eks--a~~FWt~ik~~PL~~~~VltwKfchllHKvLreGHpsal~es 81 (980)
T KOG0980|consen 5 RAQLEAVQKAISKDE-TPPKRKHVRTIIVGTHDEKS--SKIFWTTIKRQPLENHEVLTWKFCHLLHKVLREGHPSALEES 81 (980)
T ss_pred HHHHHHHHHHhcccc-CCCchhhhhheeeeeccccc--chhHHHHhhccccccchHHHHHHHHHHHHHHHcCCcchhHHH
Confidence 367899999999998 99999999999999998776 568888889998888999999999999999999999 56666
Q ss_pred HhhcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhHhhhhhc-----cccccC---CCCCCCchhhhHHhh
Q 019032 111 LSIFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLTVSRVLG-----YHLSSS---DSKKNHKDKEEKIFA 182 (347)
Q Consensus 111 l~~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~~~r~l~-----~d~~~~---~s~~~~~~~~~~l~~ 182 (347)
.+ | + + ++..+..+-+.-+ -+|+..||.|.+||..|+.++.... +++..+ ....|++++++.+-+
T Consensus 82 ~r-~--r-~-~i~~l~r~w~~ls---~~Yg~lI~~Y~klL~~Kl~FH~k~p~FpGtle~s~~~l~~av~D~n~~feltvd 153 (980)
T KOG0980|consen 82 QR-Y--K-K-WITQLGRMWGHLS---DGYGPLIRAYVKLLHDKLSFHAKHPVFPGTLEYSDYQLLTAVDDLNNGFELTVD 153 (980)
T ss_pred HH-H--H-H-HHHHHHHHhcccc---ccchHHHHHHHHHHHHHHhHhhcCCCCCCCccccHHHHHHHhccHHHHHHHHHH
Confidence 62 2 1 1 2445777544322 3699999999999999999775552 233222 234477777766555
Q ss_pred cChHHHHHHHHHHHHHHH-Hhhc-CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHH
Q 019032 183 LLSSDLLIEIDALVGFVQ-EISN-VPNSLHLQRNNLVYEIVRLVSEDYRLIQREISLRVVELDERMTSLSVDQLTLFMSA 260 (347)
Q Consensus 183 L~~~~LL~~l~~LQ~li~-~l~~-~p~~~~l~~N~li~~a~~Ll~edY~~~negIi~lLe~~fEr~~~ms~~da~~aL~i 260 (347)
|. ++++.+..||..|+ .+.. +..+...++-|.+..+++++.|+|+.| +-+..+|-++-. +++ +|+.+++.
T Consensus 154 mm--d~~D~ll~lq~~vF~s~~s~r~~s~t~qgqCrlapLI~lIqds~~lY-~y~vkmlfkLHs---~vp-~dtLeghR- 225 (980)
T KOG0980|consen 154 MM--DYMDSLLELQQTVFSSMNSSRWVSLTPQGQCRLAPLIPLIQDSSGLY-DYLVKMLFKLHS---QVP-PDTLEGHR- 225 (980)
T ss_pred HH--HHHHHHHHHHHHHHHHhhhccccccCCCcceehhHHHHHHHhhhhHH-HHHHHHHHHHHc---CCC-HHHhhhHH-
Confidence 43 88999999999999 4543 222222234488899999999999888 778888888877 566 88888888
Q ss_pred HHHHHHhHHHHHHHHHhhhhcCccccc
Q 019032 261 LKKFEDCKERLSLLFVNRKKNDGLWHL 287 (347)
Q Consensus 261 yKrf~~q~E~L~~~f~~r~~~~~~w~~ 287 (347)
-||..|.++|..||..|..-.=|=+|
T Consensus 226 -dRf~~qf~rLk~FY~~~S~lqYfk~L 251 (980)
T KOG0980|consen 226 -DRFHTQFERLKQFYADCSNLQYFKRL 251 (980)
T ss_pred -HHHHHHHHHHHHHHHhcchhHHHHHH
Confidence 89999999999999998765555555
No 6
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=99.28 E-value=1.8e-11 Score=103.93 Aligned_cols=117 Identities=17% Similarity=0.144 Sum_probs=92.0
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHHhhcCCcchHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRL--HGTRDTFVALKCLYTIHNIITKDSFILKD 109 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL--~~T~~w~ValK~LIviH~lireG~~~f~d 109 (347)
+++++-|.+||+.++ .||..+++..|..+|+++ .....++..|.+|| .+.++|.+++|||.+||.|++.|++.|.+
T Consensus 2 s~~e~~v~eAT~~d~-~gp~~~~l~eIa~~t~~~-~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~~~~~ 79 (125)
T PF01417_consen 2 SELELKVREATSNDP-WGPPGKLLAEIAQLTYNS-KDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSERFVD 79 (125)
T ss_dssp -HHHHHHHHHTSSSS-SS--HHHHHHHHHHTTSC-HHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-HHHHH
T ss_pred CHHHHHHHHHcCCCC-CCcCHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCHHHHH
Confidence 468999999999996 899999999999999988 66789999999999 35689999999999999999999999888
Q ss_pred HHhhcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHhH
Q 019032 110 QLSIFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNLT 155 (347)
Q Consensus 110 ~l~~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~ 155 (347)
.+..+.. .+-.|.+|.. .++.+.+.+.-||..|+-+-+.+.
T Consensus 80 ~~~~~~~----~I~~l~~f~~-~d~~g~d~~~~VR~~A~~i~~lL~ 120 (125)
T PF01417_consen 80 ELRDHID----IIRELQDFQY-VDPKGKDQGQNVREKAKEILELLN 120 (125)
T ss_dssp HHHHTHH----HHHGGGG----BBTTSTBHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHH----HHhhcceeec-cCCCCccHHHHHHHHHHHHHHHhC
Confidence 8853211 2334778866 344567778889999999888775
No 7
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.19 E-value=5.1e-11 Score=99.36 Aligned_cols=112 Identities=18% Similarity=0.168 Sum_probs=89.5
Q ss_pred HHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHHhhc
Q 019032 35 RRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQLSIF 114 (347)
Q Consensus 35 ~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l~~y 114 (347)
+..|.|||+++. .+|+.+++..|...++..+..+.+++++|.+||+. ++|.|++|+|.++|.++..|++.|.+++..
T Consensus 2 ~~~v~~AT~~~~-~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~-~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~- 78 (115)
T cd00197 2 EKTVEKATSNEN-MGPDWPLIMEICDLINETNVGPKEAVDAIKKRINN-KNPHVVLKALTLLEYCVKNCGERFHQEVAS- 78 (115)
T ss_pred hHHHHHHcCCCC-CCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHHHHHccHHHHHHHHH-
Confidence 467899999985 89999999999999988777778999999999996 599999999999999999999999988842
Q ss_pred ccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHHHh
Q 019032 115 PTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQNL 154 (347)
Q Consensus 115 ~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl 154 (347)
+ .-..++..| +..+..+.+.+..||.++.+|.+-.
T Consensus 79 --~--~~~~~l~~~-~~~~~~~~~~~~~Vr~k~~~l~~~w 113 (115)
T cd00197 79 --N--DFAVELLKF-DKSKLLGDDVSTNVREKAIELVQLW 113 (115)
T ss_pred --h--HHHHHHHHh-hccccccCCCChHHHHHHHHHHHHH
Confidence 1 112334444 2122233456789999999998753
No 8
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=98.95 E-value=2.2e-09 Score=91.48 Aligned_cols=114 Identities=15% Similarity=0.103 Sum_probs=86.9
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCC-CChHHHHHHHHHHHHHhhcCCcchHHHHh
Q 019032 34 IRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGT-RDTFVALKCLYTIHNIITKDSFILKDQLS 112 (347)
Q Consensus 34 l~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T-~~w~ValK~LIviH~lireG~~~f~d~l~ 112 (347)
.++-|..||+.++ .+|..+++.+|-.+|.+. .....++..|-+||.+. ++|.++||||++++.|+++|++.+.+.+.
T Consensus 2 ~e~~vreATs~d~-wGp~~~~m~eIa~~t~~~-~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse~vv~~~r 79 (123)
T cd03571 2 AELKVREATSNDP-WGPSGTLMAEIARATYNY-VEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSERVVDDAR 79 (123)
T ss_pred HHHHHHHHcCCCC-CCCCHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 5677899999997 999999999999999986 44589999999999854 69999999999999999999998777774
Q ss_pred hcccCCCCccee-cCCCCCCCCCCcchhhHHHHHHHHHHHHHhH
Q 019032 113 IFPTLGGRNFLN-LSEFHDDSDPESWELSAWIRWYATVLEQNLT 155 (347)
Q Consensus 113 ~y~s~~g~~~L~-Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl~ 155 (347)
. +...+. |..|.-. +..+-|.+..||.=|.-+-+-+.
T Consensus 80 ~-----~~~~i~~L~~F~~~-d~~g~d~G~~VR~ka~~i~~Ll~ 117 (123)
T cd03571 80 E-----NLYIIRTLKDFQYI-DENGKDQGINVREKAKEILELLE 117 (123)
T ss_pred H-----hHHHHHhhccceee-CCCCCchhHHHHHHHHHHHHHhC
Confidence 2 212233 5666431 11334677788877766655544
No 9
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=98.10 E-value=9.9e-06 Score=68.98 Aligned_cols=113 Identities=19% Similarity=0.211 Sum_probs=86.9
Q ss_pred HHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHHhhccc
Q 019032 37 AILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQLSIFPT 116 (347)
Q Consensus 37 AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l~~y~s 116 (347)
.|.+||+-++..||-..| .+|-..|..+...+.++++.|.+||++ ++-.|-+|||=+|-.+++.|++.|+..+..++.
T Consensus 5 ll~~ATsdd~~p~pgy~~-~Eia~~t~~s~~~~~ei~d~L~kRL~~-~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~~~ 82 (122)
T cd03572 5 LLSKATSDDDEPTPGYLY-EEIAKLTRKSVGSCQELLEYLLKRLKR-SSPHVKLKVLKIIKHLCEKGNSDFKRELQRNSA 82 (122)
T ss_pred HHHHHhcCCCCCCchHHH-HHHHHHHHcCHHHHHHHHHHHHHHhcC-CCCcchHHHHHHHHHHHhhCCHHHHHHHHHhHH
Confidence 477899988745555554 578888988878888999999999997 577788999999999999999999888864432
Q ss_pred CCCCcceecCCCCCCCCC-CcchhhHHHHHHHHHHHHHhH
Q 019032 117 LGGRNFLNLSEFHDDSDP-ESWELSAWIRWYATVLEQNLT 155 (347)
Q Consensus 117 ~~g~~~L~Ls~F~d~ss~-~~~~~s~~VR~Ya~YL~eRl~ 155 (347)
.+-.+.+|++.-++ .+.+.+..||.=|+=|-+-+.
T Consensus 83 ----~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~if 118 (122)
T cd03572 83 ----QIRECANYKGPPDPLKGDSLNEKVREEAQELIKAIF 118 (122)
T ss_pred ----HHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHHHh
Confidence 23457778875555 667788899977765554443
No 10
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=98.05 E-value=9.7e-06 Score=79.47 Aligned_cols=130 Identities=17% Similarity=0.088 Sum_probs=93.8
Q ss_pred HhhhccccchhhhcccCCCCchhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcC-CCCChHHH
Q 019032 11 NGVLKDKASLIKTTLSTKRQTSFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLH-GTRDTFVA 89 (347)
Q Consensus 11 ~G~lKD~asi~~A~v~~~~~~~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~-~T~~w~Va 89 (347)
+..+|.+|+-.+-.+ ++.++.|.-||+-+. -.|..+++..|-.+|++... ..+++.-|-+|+. .-++|.+|
T Consensus 5 ~~~l~Rqakn~v~~y------~~~e~kVrdAT~nd~-wGPs~~lm~eIA~~ty~~~e-~~eIm~vi~kRl~d~gknWR~V 76 (336)
T KOG2056|consen 5 FRDLKRQAKNFIKNY------SEAELKVRDATSNDP-WGPSGTLMAEIAQATYNFVE-YQEIMDVLWKRLNDSGKNWRHV 76 (336)
T ss_pred HHHHHHHHHHHHhcc------hHHHHHHHhcccccc-CCCchHHHHHHHHHhcCHHH-HHHHHHHHHHHHhhccchHHHH
Confidence 345566665433333 368999999999997 78999999999999998744 4899999999998 44799999
Q ss_pred HHHHHHHHHHhhcCCcchHHHHhhcccCCCCccee-cCCCCCCCCCCcchhhHHHHHHHHHHHHHh
Q 019032 90 LKCLYTIHNIITKDSFILKDQLSIFPTLGGRNFLN-LSEFHDDSDPESWELSAWIRWYATVLEQNL 154 (347)
Q Consensus 90 lK~LIviH~lireG~~~f~d~l~~y~s~~g~~~L~-Ls~F~d~ss~~~~~~s~~VR~Ya~YL~eRl 154 (347)
||||.||-.||..|++.+.+.+. ++.-... |..|.-- ++.+.+....||.=|+=|-+.|
T Consensus 77 yKaLtlleyLl~~GSErv~~~~r-----en~~~I~tL~~Fq~i-D~~G~dqG~nVRkkak~l~~LL 136 (336)
T KOG2056|consen 77 YKALTLLEYLLKNGSERVVDETR-----ENIYTIETLKDFQYI-DEDGKDQGLNVRKKAKELLSLL 136 (336)
T ss_pred HHHHHHHHHHHhcCcHHHHHHHH-----hhhHHHHHHhhceee-CCCCccchHHHHHHHHHHHHHh
Confidence 99999999999999998877773 2222223 4556422 1123445566887666554333
No 11
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=95.65 E-value=0.041 Score=47.52 Aligned_cols=78 Identities=22% Similarity=0.181 Sum_probs=64.9
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+.++..|.|||++.. .-|+--.+-.|.-..+.......+++++|.+||.. ++.-|++-||.++.-++..|.+.|..++
T Consensus 4 ~~~~~li~kATs~~~-~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~-~~~~vq~~aL~lld~lvkNcg~~f~~ev 81 (140)
T PF00790_consen 4 SSITELIEKATSESL-PSPDWSLILEICDLINSSPDGAKEAARALRKRLKH-GNPNVQLLALTLLDALVKNCGPRFHREV 81 (140)
T ss_dssp SHHHHHHHHHT-TTS-SS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred ChHHHHHHHHhCcCC-CCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 368999999999985 66787777777777776666668999999999996 8999999999999999999988888777
No 12
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=95.63 E-value=0.055 Score=47.31 Aligned_cols=75 Identities=19% Similarity=0.228 Sum_probs=64.6
Q ss_pred HHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 35 RRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 35 ~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+..|.|||+... .-|+--.+-.|--..+.......+++++|.+||+. +|..|++.+|.++=-++..+...|..++
T Consensus 2 e~~iekATse~l-~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~-~n~~v~l~AL~LLe~~vkNCG~~fh~ev 76 (144)
T cd03568 2 DDLVEKATDEKL-TSENWGLILDVCDKVKSDENGAKDCLKAIMKRLNH-KDPNVQLRALTLLDACAENCGKRFHQEV 76 (144)
T ss_pred hHHHHHHcCccC-CCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHHHHHH
Confidence 557999999985 77888888777777766666678999999999995 7999999999999999999998888777
No 13
>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=95.60 E-value=0.061 Score=46.85 Aligned_cols=76 Identities=12% Similarity=0.125 Sum_probs=66.6
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 34 IRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 34 l~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
++..|.|||+..- .-|+--++-.|--..+..+....+++++|.+||+ .+|.-|++-+|-++--++..+.+.|..++
T Consensus 2 ~~~~iekAT~~~l-~~~dw~~ileicD~In~~~~~~k~a~rai~krl~-~~n~~v~l~AL~LLe~~vkNCG~~fh~ev 77 (139)
T cd03567 2 LEAWLNKATNPSN-REEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQ-SPQEKEALQALTVLEACMKNCGERFHSEV 77 (139)
T ss_pred HHHHHHHHcCccC-CCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHHHHHcCHHHHHHH
Confidence 6778999999985 7899999988888887766666899999999999 47999999999999999999888887777
No 14
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=95.44 E-value=0.083 Score=46.03 Aligned_cols=78 Identities=18% Similarity=0.185 Sum_probs=67.0
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+.++..|-|||+... .-|+--.+-.|.-..+..+....+++++|.+||.. +|.-|++-+|-++--++..+...|..++
T Consensus 3 ~~~~~~I~kATs~~l-~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~-~n~~vql~AL~LLe~~vkNCG~~fh~ev 80 (142)
T cd03569 3 SEFDELIEKATSELL-GEPDLASILEICDMIRSKDVQPKYAMRALKKRLLS-KNPNVQLYALLLLESCVKNCGTHFHDEV 80 (142)
T ss_pred chHHHHHHHHcCccc-CccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHCCHHHHHHH
Confidence 368999999999875 77888888888777776666678999999999985 8999999999999999999877777666
No 15
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=95.43 E-value=0.085 Score=45.93 Aligned_cols=77 Identities=13% Similarity=0.117 Sum_probs=65.9
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 34 IRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 34 l~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
++..|-|||+... .-|+--.+-.|--..+.......+++++|.+||+..+|.-|++-+|.++=-++..+...|..++
T Consensus 2 ~~~~IekATse~l-~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~ei 78 (141)
T cd03565 2 VGQLIEKATDGSL-QSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLV 78 (141)
T ss_pred HhHHHHHHcCcCC-CCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHH
Confidence 4567999999985 7788888888877777766667899999999998557899999999999999999998888777
No 16
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=94.94 E-value=0.13 Score=44.08 Aligned_cols=75 Identities=17% Similarity=0.145 Sum_probs=63.5
Q ss_pred HHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 35 RRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 35 ~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+..|.|||+..- .-|+--.+-.|.-..+..+....+++++|.+||.. +|..|++.+|.++=-++..+.+.|..++
T Consensus 2 ~~~i~kATs~~l-~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~-~n~~v~l~AL~lLe~~vkNcg~~f~~ev 76 (133)
T smart00288 2 ERLIDKATSPSL-LEEDWELILEICDLINSTPDGPKDAVRLLKKRLNN-KNPHVALLALTLLDACVKNCGSKFHLEV 76 (133)
T ss_pred hhHHHHHcCcCC-CCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHCCHHHHHHH
Confidence 456899999884 67888888888777776666678999999999995 8999999999999999999877776666
No 17
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=94.79 E-value=0.15 Score=43.61 Aligned_cols=75 Identities=15% Similarity=0.046 Sum_probs=64.7
Q ss_pred HHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 35 RRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 35 ~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+..|.|||+... .-|+---+-.|--..+..+....+++++|.+||.. +|..|++-+|.++=-++..+.+.|..++
T Consensus 2 ~~~I~kATs~~~-~~~D~~~il~icd~I~~~~~~~k~a~raL~krl~~-~n~~vql~AL~lLd~~vkNcg~~f~~~i 76 (133)
T cd03561 2 TSLIERATSPSL-EEPDWALNLELCDLINLKPNGPKEAARAIRKKIKY-GNPHVQLLALTLLELLVKNCGKPFHLQV 76 (133)
T ss_pred hHHHHHHcCccc-CCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHhCChHHHHHH
Confidence 346899999874 77888888888888877777778999999999995 7999999999999999999988887666
No 18
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=93.46 E-value=0.11 Score=51.17 Aligned_cols=117 Identities=13% Similarity=0.003 Sum_probs=80.8
Q ss_pred CchhHHHHHHhcCCCCCCCCCchhhHHHHHHhcCCC-CccHHHHHHHHHHhcC--CCCChHHHHHHHHHHHHHhhcCCcc
Q 019032 30 QTSFIRRAILRATTHGSSSPPSINRIDAVISSGNGS-RPRACACIQALMDRLH--GTRDTFVALKCLYTIHNIITKDSFI 106 (347)
Q Consensus 30 ~~~dl~~AIvKATthd~~apPK~KhV~~Il~~t~~s-~~~~~~~v~~L~~RL~--~T~~w~ValK~LIviH~lireG~~~ 106 (347)
+-++++--|..||+.|+ -.|.---+-+|-.+|... ...++++...|..|+- +-.+|.-|+|+||++--||+.|++.
T Consensus 20 NY~e~e~~VREATNdDP-WGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER 98 (499)
T KOG2057|consen 20 NYPEAEMDVREATNDDP-WGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSER 98 (499)
T ss_pred cchHHHHHHHhhccCCC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHH
Confidence 44578888999999997 778888888888888752 1334778888888864 2358999999999999999999998
Q ss_pred hHHHHhhcccCCCCcceecCCCCCCCCCCcchhhHHHHHHHHHHHH
Q 019032 107 LKDQLSIFPTLGGRNFLNLSEFHDDSDPESWELSAWIRWYATVLEQ 152 (347)
Q Consensus 107 f~d~l~~y~s~~g~~~L~Ls~F~d~ss~~~~~~s~~VR~Ya~YL~e 152 (347)
|.++-.-++.. - +-|.--+|.|.. +-|..-.||.-++-|.|
T Consensus 99 ~VqeAREh~Yd-L-R~LEnYhfiDEh---GKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 99 FVQEAREHAYD-L-RRLENYHFIDEH---GKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHHHHHH-H-Hhhhhccchhhh---CccccccHHHHHHHHHH
Confidence 87665422111 1 113333466653 23456677766655543
No 19
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=82.50 E-value=4.9 Score=40.82 Aligned_cols=77 Identities=18% Similarity=0.291 Sum_probs=54.0
Q ss_pred hhHHHHHHhcCCCCCCCCCchhhHHHHH-HhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHH
Q 019032 32 SFIRRAILRATTHGSSSPPSINRIDAVI-SSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQ 110 (347)
Q Consensus 32 ~dl~~AIvKATthd~~apPK~KhV~~Il-~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~ 110 (347)
..++-.|.|||..-- +.=+=-+|-.+- ..++++ .....|+.+|++||+ +++.-|++-+|-++--+.......|+.+
T Consensus 7 n~~e~~v~KAT~e~n-T~enW~~IlDvCD~v~~~~-~~~kd~lk~i~KRln-~~dphV~L~AlTLlda~~~NCg~~~r~E 83 (462)
T KOG2199|consen 7 NPFEQDVEKATDEKN-TSENWSLILDVCDKVGSDP-DGGKDCLKAIMKRLN-HKDPHVVLQALTLLDACVANCGKRFRLE 83 (462)
T ss_pred chHHHHHHHhcCccc-ccccHHHHHHHHHhhcCCC-cccHHHHHHHHHHhc-CCCcchHHHHHHHHHHHHHhcchHHHHH
Confidence 358999999998763 433333433222 233444 444899999999998 5799999999999988877665555555
Q ss_pred H
Q 019032 111 L 111 (347)
Q Consensus 111 l 111 (347)
+
T Consensus 84 V 84 (462)
T KOG2199|consen 84 V 84 (462)
T ss_pred H
Confidence 4
No 20
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.90 E-value=31 Score=36.02 Aligned_cols=76 Identities=17% Similarity=0.206 Sum_probs=58.5
Q ss_pred HHHHHHhcCCCCCCCCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHhhcCCcchHHHH
Q 019032 34 IRRAILRATTHGSSSPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLYTIHNIITKDSFILKDQL 111 (347)
Q Consensus 34 l~~AIvKATthd~~apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LIviH~lireG~~~f~d~l 111 (347)
+...|-|||+-.. .-|+=-..-.|--..+...+...+.|.+|-+|++. ++-.|++=+|-++-.++......|..++
T Consensus 2 v~~~IdkAT~~~l-~~pDWa~NleIcD~IN~~~~~~~eAvralkKRi~~-k~s~vq~lALtlLE~cvkNCG~~fh~~V 77 (470)
T KOG1087|consen 2 VGKLIDKATSESL-AEPDWALNLEICDLINSTEGGPKEAVRALKKRLNS-KNSKVQLLALTLLETCVKNCGYSFHLQV 77 (470)
T ss_pred hHHHHHHhhcccc-cCccHHHHHHHHHHHhcCccCcHHHHHHHHHHhcc-CCcHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 4568999999975 77887777677777776666678999999999996 4457888899999988887655554333
No 21
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=38.18 E-value=31 Score=24.35 Aligned_cols=45 Identities=13% Similarity=0.014 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhHHHHHHHHHhhh
Q 019032 232 QREISLRVVELDERMTSLSVDQLTLFMSALKKFEDCKERLSLLFVNRK 279 (347)
Q Consensus 232 negIi~lLe~~fEr~~~ms~~da~~aL~iyKrf~~q~E~L~~~f~~r~ 279 (347)
+...+..|+.+|+ .-.+++..+.-.|=+.+.-..+.|..+|.||+
T Consensus 8 t~~q~~~L~~~f~---~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR 52 (57)
T PF00046_consen 8 TKEQLKVLEEYFQ---ENPYPSKEEREELAKELGLTERQVKNWFQNRR 52 (57)
T ss_dssp SHHHHHHHHHHHH---HSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHH---HhccccccccccccccccccccccccCHHHhH
Confidence 4566788999998 45667777777777888888999999999944
No 22
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=36.18 E-value=2.7e+02 Score=24.11 Aligned_cols=62 Identities=21% Similarity=0.203 Sum_probs=40.5
Q ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHhhccCCC---HHHHHHHHHHHHHHHHhHHHHHHHHHh--hhhc
Q 019032 220 IVRLVSEDYRL-IQREISLRVVELDERMTSLS---VDQLTLFMSALKKFEDCKERLSLLFVN--RKKN 281 (347)
Q Consensus 220 a~~Ll~edY~~-~negIi~lLe~~fEr~~~ms---~~da~~aL~iyKrf~~q~E~L~~~f~~--r~~~ 281 (347)
++.++...|+. +-.++-..+..++.++-+.+ ...-+.+|+++++++++-.-++++|.| |..+
T Consensus 96 i~~~l~~~~~~~Lk~ele~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~~~p~~l~~lf~NYDCd~~ 163 (168)
T PF12783_consen 96 IFLTLLSRFRSHLKLELEVFLSHIILRILESDNSSLWQKELALEILRELCKDPQFLVDLFVNYDCDLN 163 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHhChhHHHHHHHHcCCCCC
Confidence 33344444443 22344444555555443333 467788999999999999999999999 6543
No 23
>KOG1961 consensus Vacuolar sorting protein VPS52/suppressor of actin Sac2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=33.25 E-value=6.7e+02 Score=27.35 Aligned_cols=64 Identities=22% Similarity=0.200 Sum_probs=43.3
Q ss_pred ccc-HHHHHHHHHH-----HHH--HHH-HHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhHHHHHHHHHh-hh
Q 019032 212 QRN-NLVYEIVRLV-----SED--YRL-IQREISLRVVELDERMTSLSVDQLTLFMSALKKFEDCKERLSLLFVN-RK 279 (347)
Q Consensus 212 ~~N-~li~~a~~Ll-----~ed--Y~~-~negIi~lLe~~fEr~~~ms~~da~~aL~iyKrf~~q~E~L~~~f~~-r~ 279 (347)
.|| +++++...=+ +++ |.. +|+-.-+.+|++. .-..++-...++.++......+-|++=|.. +|
T Consensus 538 iNNYdlil~vL~e~~~~~~k~~~~f~e~ln~~~~~fveell----~~hf~~~i~fvk~~e~~~~~~~~LV~~F~~~wk 611 (683)
T KOG1961|consen 538 INNYDLILGVLMEAEPDLSKEQEHFQELLNSNTSNFVEELL----VPHFGDLIKFVKERETAENRVETLVADFGSNWK 611 (683)
T ss_pred eccHHHHHHHHHhhccccchHHHHHHHHHHhhHHHHHHHhc----cCCcCchHHHHHHHhhhhhHHHHHHHHHhhhhH
Confidence 377 5666555433 222 433 5555666666655 477888899999999988888899988866 55
No 24
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=23.31 E-value=1.6e+02 Score=20.39 Aligned_cols=44 Identities=14% Similarity=0.037 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhHHHHHHHHHhhh
Q 019032 233 REISLRVVELDERMTSLSVDQLTLFMSALKKFEDCKERLSLLFVNRK 279 (347)
Q Consensus 233 egIi~lLe~~fEr~~~ms~~da~~aL~iyKrf~~q~E~L~~~f~~r~ 279 (347)
+..+.+|+.+|+. -.+++..+--+|=+...-....|..+|.+|+
T Consensus 9 ~~~~~~Le~~f~~---~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR 52 (59)
T cd00086 9 PEQLEELEKEFEK---NPYPSREEREELAKELGLTERQVKIWFQNRR 52 (59)
T ss_pred HHHHHHHHHHHHh---CCCCCHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence 4567788999984 5566666666676777788889999999944
No 25
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=23.03 E-value=85 Score=24.70 Aligned_cols=28 Identities=4% Similarity=0.067 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHHHHHHHhHHHHHHHHHh
Q 019032 250 SVDQLTLFMSALKKFEDCKERLSLLFVN 277 (347)
Q Consensus 250 s~~da~~aL~iyKrf~~q~E~L~~~f~~ 277 (347)
++++..+||+.|+.+..+...+.+-|+.
T Consensus 24 THP~d~~Al~~y~~~~~~~~~l~~~Ye~ 51 (78)
T PF12652_consen 24 THPDDQEALEYYNEYSKQRKQLKKEYEK 51 (78)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999876644
No 26
>PF11728 DUF939_C: DUF939 C-terminal domain; InterPro: IPR021062 This entry represents a C-terminal domain found in a set of bacterial proteins. The proteins are about 160 amino acids in length and are predicted to be multi-pass membrane proteins. ; PDB: 3KMI_B.
Probab=22.40 E-value=5.5e+02 Score=22.74 Aligned_cols=84 Identities=11% Similarity=0.152 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHhhcCCCcccccccHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHh
Q 019032 190 IEIDALVGFVQEISNVPNSLHLQRNNLVYEIVRLVSEDYRLIQR--EISLRVVELDERMTSLSVDQLTLFMSALKKFEDC 267 (347)
Q Consensus 190 ~~l~~LQ~li~~l~~~p~~~~l~~N~li~~a~~Ll~edY~~~ne--gIi~lLe~~fEr~~~ms~~da~~aL~iyKrf~~q 267 (347)
.|++.|+.+...+...+... .....|...+.-+.+++..-|. ..+..|+.+.+.|.+|+.|.-.+=++.=-.+-..
T Consensus 77 ~Q~~iL~~M~~~l~~i~~~~--~q~~~ia~~~~~~a~~~~e~n~~~~ll~~L~~l~~~fr~~~LP~TReEFE~RA~Lfq~ 154 (167)
T PF11728_consen 77 KQLEILKRMYPNLSKIYMSP--KQAEIIADFLEELAESLHENNTAEELLEELEELKEEFREMPLPKTREEFENRAALFQI 154 (167)
T ss_dssp HHHHHHHHHHHHHTT-SS----HHHHHHHHHHHHHHH----TTHHHHHHHHHHHHHHHHHTS---SSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCH--HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Confidence 45666666666654333332 1445666667677666444333 3344566666666689888877766643334444
Q ss_pred HHHHHHHH
Q 019032 268 KERLSLLF 275 (347)
Q Consensus 268 ~E~L~~~f 275 (347)
..++..|.
T Consensus 155 l~dle~fL 162 (167)
T PF11728_consen 155 LNDLEQFL 162 (167)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 44444443
No 27
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=20.54 E-value=1e+02 Score=23.46 Aligned_cols=45 Identities=18% Similarity=0.152 Sum_probs=31.3
Q ss_pred CCCchhhHHHHHHhcCCCCccHHHHHHHHHHhcCCCCChHHHHHHHH
Q 019032 48 SPPSINRIDAVISSGNGSRPRACACIQALMDRLHGTRDTFVALKCLY 94 (347)
Q Consensus 48 apPK~KhV~~Il~~t~~s~~~~~~~v~~L~~RL~~T~~w~ValK~LI 94 (347)
.|+-+++|+..+..+ .+++.++.|+...+.++.-..|.-+++..|
T Consensus 7 ~~~~~~~i~~~V~sG--~Y~s~SEVir~aLR~le~~e~~~~~Lr~~i 51 (69)
T TIGR02606 7 GEHLESFIRSQVQSG--RYGSASEVVRAALRLLEERETKLQALRDAI 51 (69)
T ss_pred CHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455779999999744 446678999999988875445555444443
Done!