Query psy17891
Match_columns 163
No_of_seqs 115 out of 767
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 16:48:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17891.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17891hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3473|consensus 100.0 6.2E-28 1.4E-32 176.9 10.2 109 55-163 4-112 (112)
2 smart00512 Skp1 Found in Skp1 99.9 3E-27 6.6E-32 173.0 10.3 95 68-163 2-104 (104)
3 KOG1724|consensus 99.9 6.8E-25 1.5E-29 173.8 9.5 96 66-163 3-112 (162)
4 PF03931 Skp1_POZ: Skp1 family 99.8 3.8E-21 8.3E-26 129.5 5.7 62 68-133 1-62 (62)
5 COG5201 SKP1 SCF ubiquitin lig 99.8 3.6E-18 7.8E-23 131.4 8.5 91 68-162 2-106 (158)
6 PF00651 BTB: BTB/POZ domain; 98.2 7.6E-06 1.6E-10 58.2 6.7 84 68-163 11-96 (111)
7 smart00225 BTB Broad-Complex, 98.1 1.6E-05 3.4E-10 53.0 6.4 77 74-163 5-82 (90)
8 PHA02713 hypothetical protein; 97.9 1.6E-05 3.5E-10 73.3 5.5 79 69-162 27-107 (557)
9 PHA03098 kelch-like protein; P 97.2 0.0014 3E-08 59.2 8.1 76 70-162 12-89 (534)
10 PHA02790 Kelch-like protein; P 97.1 0.00059 1.3E-08 61.7 4.2 75 74-162 27-104 (480)
11 KOG4441|consensus 96.8 0.0031 6.6E-08 58.8 6.7 80 70-163 39-119 (571)
12 PF01466 Skp1: Skp1 family, di 92.5 0.073 1.6E-06 37.0 1.6 19 145-163 10-28 (78)
13 KOG4350|consensus 88.6 1 2.2E-05 41.5 5.6 97 36-160 30-127 (620)
14 KOG4682|consensus 68.9 6.8 0.00015 36.0 4.0 112 25-162 36-154 (488)
15 smart00067 GHA Glycoprotein ho 54.2 7.9 0.00017 27.8 1.4 17 4-20 11-27 (87)
16 PF15446 zf-PHD-like: PHD/FYVE 48.0 10 0.00022 30.8 1.3 16 5-22 11-26 (175)
17 smart00831 Cation_ATPase_N Cat 43.7 19 0.00042 23.1 1.9 29 17-45 9-37 (64)
18 PF07928 Vps54: Vps54-like pro 42.5 8.3 0.00018 29.7 0.0 47 76-132 1-47 (135)
19 KOG2716|consensus 42.4 1.3E+02 0.0028 25.4 7.1 84 66-160 3-87 (230)
20 PF05321 HHA: Haemolysin expre 37.3 51 0.0011 22.1 3.2 29 117-159 8-36 (57)
21 PF00690 Cation_ATPase_N: Cati 34.8 26 0.00057 23.0 1.5 29 17-45 19-47 (69)
22 PLN02959 aminoacyl-tRNA ligase 34.3 60 0.0013 33.0 4.5 82 5-89 236-339 (1084)
23 PF14122 YokU: YokU-like prote 33.7 30 0.00065 25.1 1.7 31 9-44 31-66 (87)
24 KOG0511|consensus 32.0 1E+02 0.0022 28.6 5.1 61 73-135 296-360 (516)
25 PLN02373 soluble inorganic pyr 25.2 1E+02 0.0022 25.2 3.7 46 113-159 130-175 (188)
26 cd00412 pyrophosphatase Inorga 24.3 1.3E+02 0.0027 23.8 4.0 46 113-159 108-154 (155)
27 KOG0783|consensus 24.1 58 0.0013 33.0 2.4 66 63-130 706-772 (1267)
28 TIGR02603 CxxCH_TIGR02603 puta 22.5 3.3E+02 0.0071 20.2 5.8 63 54-129 66-131 (133)
29 COG4565 CitB Response regulato 21.8 93 0.002 26.3 2.9 27 108-135 146-173 (224)
30 KOG2075|consensus 21.6 2.2E+02 0.0047 26.9 5.4 51 78-130 129-180 (521)
31 PF00236 Hormone_6: Glycoprote 21.3 27 0.00059 25.6 -0.3 16 4-19 20-35 (96)
32 PF08154 NLE: NLE (NUC135) dom 20.8 1.5E+02 0.0033 19.6 3.3 29 69-97 3-39 (65)
33 PF02214 BTB_2: BTB/POZ domain 20.4 54 0.0012 22.6 1.0 77 76-162 6-85 (94)
No 1
>KOG3473|consensus
Probab=99.95 E-value=6.2e-28 Score=176.86 Aligned_cols=109 Identities=72% Similarity=1.240 Sum_probs=104.2
Q ss_pred CCccCCCCCCCCCceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccC
Q psy17891 55 EDKQHGGCEGPNAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRY 134 (163)
Q Consensus 55 ~~~~~~~~~~~~s~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~ 134 (163)
..+.+|||.++++++|+|+|+||++|.|.+++|..|++||.||.+.+.+.++..++|.+++|+|.+|+||++|+.|+..|
T Consensus 4 ~~~~~~g~egp~~~yVkLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~rY 83 (112)
T KOG3473|consen 4 QPKPYGGCEGPDSMYVKLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVRY 83 (112)
T ss_pred CCcccCCccCcchhheEeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheeee
Confidence 34789999999999999999999999999999999999999999998888888999999999999999999999999999
Q ss_pred CCCCCCCCCCCCChHHHHHHHHhhcccCC
Q psy17891 135 TNSSTEIPEFPIAPAIALELLMAANFLDC 163 (163)
Q Consensus 135 ~~~~~~i~ewdid~e~LfeLL~AAnyLd~ 163 (163)
.....+||+|+|++++.+|||.|||||+|
T Consensus 84 ~~~s~eiPeF~IppemaleLL~aAn~Lec 112 (112)
T KOG3473|consen 84 TNSSTEIPEFDIPPEMALELLMAANYLEC 112 (112)
T ss_pred ccccccCCCCCCCHHHHHHHHHHhhhhcC
Confidence 87778899999999999999999999998
No 2
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=99.95 E-value=3e-27 Score=173.01 Aligned_cols=95 Identities=42% Similarity=0.560 Sum_probs=84.2
Q ss_pred ceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCC---CCCCCC
Q psy17891 68 MYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSS---TEIPEF 144 (163)
Q Consensus 68 ~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~---~~i~ew 144 (163)
.+|+|+|+||++|.|++++|++|++|++|+++.+...+ ...+||||+|+|.+|++|++||+||+.++... ..+++|
T Consensus 2 ~~v~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~-~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~~~~~~~~~~~w 80 (104)
T smart00512 2 KYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDE-NNNPIPLPNVTSKILSKVIEYCEHHVDDPPSVADKDDIPTW 80 (104)
T ss_pred CeEEEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccC-CCCCccCCCcCHHHHHHHHHHHHHcccCCCCccccccccHH
Confidence 68999999999999999999999999999998765433 23699999999999999999999999986543 347899
Q ss_pred C-----CChHHHHHHHHhhcccCC
Q psy17891 145 P-----IAPAIALELLMAANFLDC 163 (163)
Q Consensus 145 d-----id~e~LfeLL~AAnyLd~ 163 (163)
| ++++.||+||.|||||+.
T Consensus 81 D~~F~~~d~~~l~dLl~AAnyL~I 104 (104)
T smart00512 81 DAEFLKIDQETLFELILAANYLDI 104 (104)
T ss_pred HHHHHcCCHHHHHHHHHHHHhhCC
Confidence 6 999999999999999984
No 3
>KOG1724|consensus
Probab=99.92 E-value=6.8e-25 Score=173.82 Aligned_cols=96 Identities=33% Similarity=0.446 Sum_probs=82.7
Q ss_pred CCceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCC--------
Q psy17891 66 NAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNS-------- 137 (163)
Q Consensus 66 ~s~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~-------- 137 (163)
.+++|+|+|+||++|.|+.++|++|.+|++++.+.+...++ .+||||+|+|.||++||+||+||+++++.
T Consensus 3 ~~~~ikL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~~--~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~~~~~~~~ 80 (162)
T KOG1724|consen 3 SKKKIKLESSDGEIFEVEEEVARQSQTISAHMIEDGCADEN--DPIPLPNVTSKILKKVIEWCKKHKDDDPANPEDKELP 80 (162)
T ss_pred CCCeEEEEccCCceeehhHHHHHHhHHHHHHHHHcCCCccC--CccccCccCHHHHHHHHHHHHHccccccccccccccc
Confidence 56789999999999999999999999999999876643221 58999999999999999999999987431
Q ss_pred -CCCCCCCC-----CChHHHHHHHHhhcccCC
Q psy17891 138 -STEIPEFP-----IAPAIALELLMAANFLDC 163 (163)
Q Consensus 138 -~~~i~ewd-----id~e~LfeLL~AAnyLd~ 163 (163)
..++++|| +++..||+|+.|||||+.
T Consensus 81 ~~~~i~~WD~~Flk~d~~tLfdli~AAnyLdi 112 (162)
T KOG1724|consen 81 EETDIPEWDAEFLKVDQGTLFDLILAANYLDI 112 (162)
T ss_pred ccCCccHHHHHHHhcCHHHHHHHHHHhhhccc
Confidence 23388996 899999999999999983
No 4
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=99.84 E-value=3.8e-21 Score=129.55 Aligned_cols=62 Identities=44% Similarity=0.567 Sum_probs=54.9
Q ss_pred ceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhcc
Q psy17891 68 MYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVR 133 (163)
Q Consensus 68 ~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~ 133 (163)
++|+|+|+||++|.|++++|++|++|++||++.+.. +.+||||+|++++|+||++||+||++
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~----~~~Ipl~~v~~~~L~kViewc~~H~~ 62 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDE----DEPIPLPNVSSRILKKVIEWCEHHKN 62 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCC----GTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhhccc----ccccccCccCHHHHHHHHHHHHhcCC
Confidence 479999999999999999999999999999987653 22899999999999999999999973
No 5
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=3.6e-18 Score=131.42 Aligned_cols=91 Identities=27% Similarity=0.276 Sum_probs=77.2
Q ss_pred ceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCC---------C
Q psy17891 68 MYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNS---------S 138 (163)
Q Consensus 68 ~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~---------~ 138 (163)
.+|.|+|.||++|+|+..+|..|-+|++|+.+.+. ..-+||+|+|+|.+|.+|++||+||...... .
T Consensus 2 s~i~l~s~dge~F~vd~~iAerSiLikN~l~d~~~----~n~p~p~pnVrSsvl~kv~ew~ehh~~s~sede~d~~~rks 77 (158)
T COG5201 2 SMIELESIDGEIFRVDENIAERSILIKNMLCDSTA----CNYPIPAPNVRSSVLMKVQEWMEHHTSSLSEDENDLEIRKS 77 (158)
T ss_pred CceEEEecCCcEEEehHHHHHHHHHHHHHhccccc----cCCCCcccchhHHHHHHHHHHHHhccccCCCccChHhhhcc
Confidence 47999999999999999999999999999987653 3457999999999999999999999885321 1
Q ss_pred CCCCCCC-----CChHHHHHHHHhhcccC
Q psy17891 139 TEIPEFP-----IAPAIALELLMAANFLD 162 (163)
Q Consensus 139 ~~i~ewd-----id~e~LfeLL~AAnyLd 162 (163)
.++..|| +|+++||++.+|||||+
T Consensus 78 ~p~D~wdr~Fm~vDqemL~eI~laaNYL~ 106 (158)
T COG5201 78 KPSDFWDRFFMEVDQEMLLEICLAANYLE 106 (158)
T ss_pred CCccHHHHHHHHhhHHHHHHHHHhhcccc
Confidence 2233564 89999999999999997
No 6
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=98.16 E-value=7.6e-06 Score=58.18 Aligned_cols=84 Identities=21% Similarity=0.265 Sum_probs=63.9
Q ss_pred ceEEEEcCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCC
Q psy17891 68 MYVKLISSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPI 146 (163)
Q Consensus 68 ~~V~L~SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdi 146 (163)
..++|+..||..|.|++.+ +.+|..+++|+..... .+.....|++++++...++.+++||.... +.+
T Consensus 11 ~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~l~~~Y~~~-----------~~~ 78 (111)
T PF00651_consen 11 SDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGSKF-KESTVPEISLPDVSPEAFEAFLEYMYTGE-----------IEI 78 (111)
T ss_dssp --EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTTTS-TTSSEEEEEETTSCHHHHHHHHHHHHHSE-----------EEE
T ss_pred CCEEEEECCCEEEeechhhhhccchhhhhccccccc-ccccccccccccccccccccccccccCCc-----------ccC
Confidence 4588888999999999999 5779999999997621 12233478999999999999999995421 123
Q ss_pred C-hHHHHHHHHhhcccCC
Q psy17891 147 A-PAIALELLMAANFLDC 163 (163)
Q Consensus 147 d-~e~LfeLL~AAnyLd~ 163 (163)
+ .+.+.+|+.+|++|++
T Consensus 79 ~~~~~~~~ll~lA~~~~~ 96 (111)
T PF00651_consen 79 NSDENVEELLELADKLQI 96 (111)
T ss_dssp E-TTTHHHHHHHHHHTTB
T ss_pred CHHHHHHHHHHHHHHhCc
Confidence 3 6678999999998874
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=98.06 E-value=1.6e-05 Score=53.00 Aligned_cols=77 Identities=19% Similarity=0.283 Sum_probs=60.9
Q ss_pred cCCCCEEEecHHHHH-HHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHH
Q psy17891 74 SSDGHEFIVKREHAL-MSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIAL 152 (163)
Q Consensus 74 SsDG~~F~V~~~aA~-qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~Lf 152 (163)
..+|+.|.+++.++. .|..++.|+..... +.....|++++++...++.+++|+..-. ..++.+.+.
T Consensus 5 ~v~~~~~~~h~~iL~~~s~~f~~~~~~~~~--~~~~~~i~l~~~~~~~f~~~l~~ly~~~-----------~~~~~~~~~ 71 (90)
T smart00225 5 VVGGKKFKAHKAVLAACSPYFKALFSGDFK--ESKKSEIYLDDVSPEDFRALLEFLYTGK-----------LDLPEENVE 71 (90)
T ss_pred EECCEEEehHHHHHhhcCHHHHHHHcCCCc--cCCCCEEEecCCCHHHHHHHHHeecCce-----------eecCHHHHH
Confidence 457799999999965 58999999986432 2235688999999999999999988631 244556899
Q ss_pred HHHHhhcccCC
Q psy17891 153 ELLMAANFLDC 163 (163)
Q Consensus 153 eLL~AAnyLd~ 163 (163)
+|+.+|+|+++
T Consensus 72 ~l~~~a~~~~~ 82 (90)
T smart00225 72 ELLELADYLQI 82 (90)
T ss_pred HHHHHHHHHCc
Confidence 99999999875
No 8
>PHA02713 hypothetical protein; Provisional
Probab=97.90 E-value=1.6e-05 Score=73.26 Aligned_cols=79 Identities=16% Similarity=0.309 Sum_probs=65.1
Q ss_pred eEEEEcCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCC-CCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCC
Q psy17891 69 YVKLISSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAE-NETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPI 146 (163)
Q Consensus 69 ~V~L~SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E-~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdi 146 (163)
.|+|+..+|++|.+++.+ |..|..++.|+... ..| .....|.|.+|+..+|+.||+|+... .+
T Consensus 27 DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~~--~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt~-------------~i 91 (557)
T PHA02713 27 DVIITIGDGEEIKAHKTILAAGSKYFRTLFTTP--MIIRDLVTRVNLQMFDKDAVKNIVQYLYNR-------------HI 91 (557)
T ss_pred CEEEEeCCCCEEeehHHHHhhcCHHHHHHhcCC--chhhccCceEEeccCCHHHHHHHHHHhcCC-------------CC
Confidence 388888779999999999 56899999999742 233 23567899999999999999998862 14
Q ss_pred ChHHHHHHHHhhcccC
Q psy17891 147 APAIALELLMAANFLD 162 (163)
Q Consensus 147 d~e~LfeLL~AAnyLd 162 (163)
+.+.+.+||.||++|+
T Consensus 92 ~~~nv~~ll~aA~~lq 107 (557)
T PHA02713 92 SSMNVIDVLKCADYLL 107 (557)
T ss_pred CHHHHHHHHHHHHHHC
Confidence 6778999999999987
No 9
>PHA03098 kelch-like protein; Provisional
Probab=97.22 E-value=0.0014 Score=59.18 Aligned_cols=76 Identities=22% Similarity=0.215 Sum_probs=60.4
Q ss_pred EEEE-cCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCC
Q psy17891 70 VKLI-SSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIA 147 (163)
Q Consensus 70 V~L~-SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid 147 (163)
|+|+ +.+|++|.+++.+ |..|..++.|+.+.-. ...|.|+. +..+|+.|++|+..-+ -.++
T Consensus 12 v~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~~~-----~~~i~l~~-~~~~~~~~l~y~Ytg~-----------~~i~ 74 (534)
T PHA03098 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFK-----ENEINLNI-DYDSFNEVIKYIYTGK-----------INIT 74 (534)
T ss_pred EEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCCCC-----CceEEecC-CHHHHHHHHHHhcCCc-----------eEEc
Confidence 4444 5789999999999 5569999999975321 45788988 9999999999988621 1456
Q ss_pred hHHHHHHHHhhcccC
Q psy17891 148 PAIALELLMAANFLD 162 (163)
Q Consensus 148 ~e~LfeLL~AAnyLd 162 (163)
.+.+.+|+.||++|+
T Consensus 75 ~~~~~~ll~~A~~l~ 89 (534)
T PHA03098 75 SNNVKDILSIANYLI 89 (534)
T ss_pred HHHHHHHHHHHHHhC
Confidence 778999999999986
No 10
>PHA02790 Kelch-like protein; Provisional
Probab=97.08 E-value=0.00059 Score=61.70 Aligned_cols=75 Identities=17% Similarity=0.229 Sum_probs=57.7
Q ss_pred cCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCCCCcccccc--cCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHH
Q psy17891 74 SSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINF--REIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAI 150 (163)
Q Consensus 74 SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpL--p~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~ 150 (163)
-.-|++|.++|.+ |..|..++.|+... ..|... .|.+ .+|+..+|+.||+|+.- .+-.++.+.
T Consensus 27 ~~~~~~~~~HR~VLAa~S~YFraMF~~~--~~Es~~-~v~~~~~~v~~~~l~~lldy~YT-----------g~l~it~~n 92 (480)
T PHA02790 27 EAIGGNIIVNSTILKKLSPYFRTHLRQK--YTKNKD-PVTRVCLDLDIHSLTSIVIYSYT-----------GKVYIDSHN 92 (480)
T ss_pred EEcCcEEeeehhhhhhcCHHHHHHhcCC--cccccc-ceEEEecCcCHHHHHHHHHhhee-----------eeEEEeccc
Confidence 3557899999999 77799999999742 334433 3444 38999999999999854 223566778
Q ss_pred HHHHHHhhcccC
Q psy17891 151 ALELLMAANFLD 162 (163)
Q Consensus 151 LfeLL~AAnyLd 162 (163)
+.+|+.||++|+
T Consensus 93 V~~ll~aA~~Lq 104 (480)
T PHA02790 93 VVNLLRASILTS 104 (480)
T ss_pred HHHHHHHHHHhC
Confidence 999999999997
No 11
>KOG4441|consensus
Probab=96.82 E-value=0.0031 Score=58.77 Aligned_cols=80 Identities=29% Similarity=0.332 Sum_probs=65.4
Q ss_pred EEEEcCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCCh
Q psy17891 70 VKLISSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAP 148 (163)
Q Consensus 70 V~L~SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~ 148 (163)
|.|.-.+ ++|..+|.+ |..|..++.|+.. +..|.....|.|..|+..+|..+++|+....- .+..
T Consensus 39 v~L~v~~-~~~~aHR~VLAa~S~YFraMFt~--~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~~i-----------~i~~ 104 (571)
T KOG4441|consen 39 VTLLVGD-REFPAHRVVLAACSPYFRAMFTS--GLKESKQKEINLEGVDPETLELLLDYAYTGKL-----------EISE 104 (571)
T ss_pred EEEEECC-eeechHHHHHHhccHHHHHHhcC--CcccccceEEEEecCCHHHHHHHHHHhhcceE-----------Eech
Confidence 5565555 999999999 7889999999985 34466778899999999999999999876332 4678
Q ss_pred HHHHHHHHhhcccCC
Q psy17891 149 AIALELLMAANFLDC 163 (163)
Q Consensus 149 e~LfeLL~AAnyLd~ 163 (163)
+.+-+|+.||++|++
T Consensus 105 ~nVq~ll~aA~~lQi 119 (571)
T KOG4441|consen 105 DNVQELLEAASLLQI 119 (571)
T ss_pred HhHHHHHHHHHHhhh
Confidence 889999999998873
No 12
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=92.51 E-value=0.073 Score=36.97 Aligned_cols=19 Identities=37% Similarity=0.506 Sum_probs=15.2
Q ss_pred CCChHHHHHHHHhhcccCC
Q psy17891 145 PIAPAIALELLMAANFLDC 163 (163)
Q Consensus 145 did~e~LfeLL~AAnyLd~ 163 (163)
+++.+.|++|+.||+||+.
T Consensus 10 ~~~~~~L~~l~~AA~yL~I 28 (78)
T PF01466_consen 10 DVDNDELFDLLNAANYLDI 28 (78)
T ss_dssp -S-HHHHHHHHHHHHHHT-
T ss_pred HcCHHHHHHHHHHHHHHcc
Confidence 5688999999999999984
No 13
>KOG4350|consensus
Probab=88.63 E-value=1 Score=41.50 Aligned_cols=97 Identities=22% Similarity=0.240 Sum_probs=70.7
Q ss_pred CCccccccceeeceecCCCCCccCCCCCCCCCceEEEEcCCCCEEEecHHH-HHHHHHHHHHHcCCCCCCCCCccccccc
Q psy17891 36 PFLEQTGRYFYLGTYIGKDEDKQHGGCEGPNAMYVKLISSDGHEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINFR 114 (163)
Q Consensus 36 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~s~~V~L~SsDG~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpLp 114 (163)
.|-+.+.++|+.-.|- .|+++-.| .+|...+-+ |..|..+|.||= +++.|.....|||.
T Consensus 30 ~fS~~~~~l~~~e~y~-----------------DVtfvve~-~rfpAHRvILAaRs~yFRAlLY--gGm~Es~q~~ipLq 89 (620)
T KOG4350|consen 30 NFSQSFDELFTSEDYS-----------------DVTFVVED-TRFPAHRVILAARSSYFRALLY--GGMQESHQQLIPLQ 89 (620)
T ss_pred chhHHHHHHhhcCccc-----------------ceEEEEec-cccchhhhhHHHHHHHHHHHHh--hhhhhhhhcccccc
Confidence 4667777787774443 37787777 899999988 778999999995 34556667889999
Q ss_pred CCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHHHHHHhhcc
Q psy17891 115 EIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALELLMAANF 160 (163)
Q Consensus 115 ~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~LfeLL~AAny 160 (163)
.-++..++.++.|+.--+-.-. .++.+.++|.|.-|+-
T Consensus 90 ~t~~eAF~~lLrYiYtg~~~l~--------~~~ed~lld~LslAh~ 127 (620)
T KOG4350|consen 90 ETNSEAFRALLRYIYTGKIDLA--------GVEEDILLDYLSLAHR 127 (620)
T ss_pred cccHHHHHHHHHHHhhcceecc--------cchHHHHHHHHHHHHh
Confidence 8889999999999875322110 3566667777766653
No 14
>KOG4682|consensus
Probab=68.89 E-value=6.8 Score=36.01 Aligned_cols=112 Identities=29% Similarity=0.320 Sum_probs=80.5
Q ss_pred hHHHhhhCCCCC---CccccccceeeceecCCCCCccCCCCCCCCCceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCC
Q psy17891 25 EEEEDRIGESQP---FLEQTGRYFYLGTYIGKDEDKQHGGCEGPNAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPG 101 (163)
Q Consensus 25 ~~~~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~s~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~ 101 (163)
.++..+.-|-|| =+.|+..|||..-|- .+.||+ |.| ..=|.+.++++--+.||+.+.+|+++.-
T Consensus 36 K~~~a~~de~qpkr~~ll~t~kyiyq~lf~-----------q~enSD-v~l-~alg~eWrlHk~yL~QS~yf~smf~Gtw 102 (488)
T KOG4682|consen 36 KADSADGDEAQPKRKKLLQTQKYIYQNLFL-----------QGENSD-VIL-EALGFEWRLHKPYLFQSEYFKSMFSGTW 102 (488)
T ss_pred cccccccchhchhHHHHHHHHHHHHHHHHh-----------cCCCcc-eeh-hhccceeeeeeeeeeccHHHHHHhcccc
Confidence 344455666677 567888888774443 244554 443 4668999999999999999999998642
Q ss_pred CCCCCCcc----cccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHHHHHHhhcccC
Q psy17891 102 QFAENETN----EINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALELLMAANFLD 162 (163)
Q Consensus 102 ~~~E~~~~----~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~LfeLL~AAnyLd 162 (163)
.|...+ .||=|+|+...|.-++-=+.+ .+-.|+.+.+..++.||.+|.
T Consensus 103 --~es~~~iIqleI~Dp~Id~~al~~a~gsLY~-----------dEveI~l~dv~gvlAaA~~lq 154 (488)
T KOG4682|consen 103 --KESSMNIIQLEIPDPNIDVVALQVAFGSLYR-----------DEVEIKLSDVVGVLAAACLLQ 154 (488)
T ss_pred --ChhhCceEEEEcCCCcccHHHHHHHHhhhhh-----------hheeccHHHHHHHHHHHHHHH
Confidence 233333 456679999999999876654 223578999999999999874
No 15
>smart00067 GHA Glycoprotein hormone alpha chain homologues. Also called gonadotropins. Glycoprotein hormones consist of two glycosylated chains (alpha and beta) of similar topology.
Probab=54.23 E-value=7.9 Score=27.78 Aligned_cols=17 Identities=24% Similarity=0.475 Sum_probs=15.0
Q ss_pred cCCCCCCCCceeecCCC
Q psy17891 4 DRFNRGDKPTIYCEGLN 20 (163)
Q Consensus 4 ~~~~~~~~~~~~~~~~~ 20 (163)
.+|.|-+.|..||.||=
T Consensus 11 ~~FS~~~~PiyQC~GCC 27 (87)
T smart00067 11 KIFSKPGAPIYQCMGCC 27 (87)
T ss_pred cccCCCCCceeEeccee
Confidence 57889899999999994
No 16
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=48.04 E-value=10 Score=30.76 Aligned_cols=16 Identities=50% Similarity=1.049 Sum_probs=12.7
Q ss_pred CCCCCCCCceeecCCCch
Q psy17891 5 RFNRGDKPTIYCEGLNSS 22 (163)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~ 22 (163)
-.++| |-|||.|||++
T Consensus 11 ~~~kG--~Lv~CQGCs~s 26 (175)
T PF15446_consen 11 DRNKG--PLVYCQGCSSS 26 (175)
T ss_pred CccCC--CeEEcCccChH
Confidence 34566 99999999876
No 17
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=43.65 E-value=19 Score=23.09 Aligned_cols=29 Identities=21% Similarity=0.240 Sum_probs=23.0
Q ss_pred cCCCchhhhHHHhhhCCCCCCccccccce
Q psy17891 17 EGLNSSEIEEEEDRIGESQPFLEQTGRYF 45 (163)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~f 45 (163)
.|+|.+|+++...++|.|..-......+|
T Consensus 9 ~GLs~~~v~~r~~~~G~N~l~~~~~~s~~ 37 (64)
T smart00831 9 SGLSSEEAARRLERYGPNELPPPKKRSPL 37 (64)
T ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCHH
Confidence 39999999999999999987555444444
No 18
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=42.50 E-value=8.3 Score=29.67 Aligned_cols=47 Identities=17% Similarity=0.273 Sum_probs=0.0
Q ss_pred CCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhc
Q psy17891 76 DGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKV 132 (163)
Q Consensus 76 DG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~ 132 (163)
||+.|.|...+....+.|.+.+.-. .-+|.+...++.+++++++...
T Consensus 1 d~e~f~vv~s~l~ll~~l~~Y~~~~----------~~~P~~a~di~~~l~elLk~fN 47 (135)
T PF07928_consen 1 DNEKFVVVGSALLLLKMLSDYLQLA----------SNFPSLAPDILSRLLELLKLFN 47 (135)
T ss_dssp ---------------------------------------------------------
T ss_pred CCCceecHHHHHHHHHHHHHHHHHH----------HHCchhHHHHHHHHHHHHHHHH
Confidence 7889999999988888887777643 2366688999999999987654
No 19
>KOG2716|consensus
Probab=42.42 E-value=1.3e+02 Score=25.39 Aligned_cols=84 Identities=21% Similarity=0.270 Sum_probs=55.4
Q ss_pred CCceEEEEcCCCCEEEecHHHH-HHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCC
Q psy17891 66 NAMYVKLISSDGHEFIVKREHA-LMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEF 144 (163)
Q Consensus 66 ~s~~V~L~SsDG~~F~V~~~aA-~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ew 144 (163)
.+..|+| ---|.+|.-++..+ +..+.++.|++..-.-.-+.+..|=+ +=+.+....|+.||+-=. ..+|+
T Consensus 3 ~~~~vkL-nvGG~~F~Tsk~TLtk~dg~fk~m~e~~i~~~~d~s~~IFI-DRSpKHF~~ILNfmRdGd------v~LPe- 73 (230)
T KOG2716|consen 3 MSETVKL-NVGGTIFKTSKSTLTKFDGFFKTMLETDIPVEKDESGCIFI-DRSPKHFDTILNFMRDGD------VDLPE- 73 (230)
T ss_pred ccceEEE-ecCCeEEEeehhhhhhhhhHHHHHhhcCCccccCCcCcEEe-cCChhHHHHHHHhhhccc------ccCcc-
Confidence 3455665 34678999998884 67889999998642212233455644 688999999999998311 11343
Q ss_pred CCChHHHHHHHHhhcc
Q psy17891 145 PIAPAIALELLMAANF 160 (163)
Q Consensus 145 did~e~LfeLL~AAny 160 (163)
....|-||+.=|.|
T Consensus 74 --~~kel~El~~EA~f 87 (230)
T KOG2716|consen 74 --SEKELKELLREAEF 87 (230)
T ss_pred --chHHHHHHHHHHHH
Confidence 45567777776665
No 20
>PF05321 HHA: Haemolysin expression modulating protein; InterPro: IPR007985 This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of the Hha/YmoA/RmoA family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer []. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature []. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer []. The HHA family of proteins display striking similarity to the oligomerization domain of the H-NS proteins.; PDB: 1JW2_A 2K5S_A 2JQT_A.
Probab=37.26 E-value=51 Score=22.08 Aligned_cols=29 Identities=24% Similarity=0.160 Sum_probs=20.6
Q ss_pred CHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHHHHHHhhc
Q psy17891 117 PSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALELLMAAN 159 (163)
Q Consensus 117 ss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~LfeLL~AAn 159 (163)
+..+|+||++..++. ++.+.+..+..||+
T Consensus 8 s~dtLEkv~e~~~~~--------------L~~~e~~~f~~AaD 36 (57)
T PF05321_consen 8 SLDTLEKVIEHNRYK--------------LTDDELEAFNSAAD 36 (57)
T ss_dssp -HHHHHHHHHHHHHH--------------S-HHHHHHHHHHHH
T ss_pred CHhhHHHHHHHhhCc--------------CCHHHHHHHHHHHH
Confidence 347999999998873 35667777777775
No 21
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 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. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=34.80 E-value=26 Score=23.02 Aligned_cols=29 Identities=24% Similarity=0.415 Sum_probs=22.4
Q ss_pred cCCCchhhhHHHhhhCCCCCCccccccce
Q psy17891 17 EGLNSSEIEEEEDRIGESQPFLEQTGRYF 45 (163)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~f 45 (163)
.|+++.|+.+...++|.|..-......+|
T Consensus 19 ~GLs~~ev~~r~~~~G~N~l~~~~~~s~~ 47 (69)
T PF00690_consen 19 QGLSSEEVEERRKKYGPNELPEPKKKSLW 47 (69)
T ss_dssp SBBTHHHHHHHHHHHSSSSTTTTTSSSHH
T ss_pred CCCCHHHHHHHHHhcccccccccccCcHH
Confidence 59999999999999999988444443333
No 22
>PLN02959 aminoacyl-tRNA ligase
Probab=34.26 E-value=60 Score=33.02 Aligned_cols=82 Identities=18% Similarity=0.135 Sum_probs=48.8
Q ss_pred CCCCCCCCceeecCCCchhhhHHHhhhCCCCCCcccccc----------------------ceeeceecCCCCCccCCCC
Q psy17891 5 RFNRGDKPTIYCEGLNSSEIEEEEDRIGESQPFLEQTGR----------------------YFYLGTYIGKDEDKQHGGC 62 (163)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------~f~~~~~~~~~~~~~~~~~ 62 (163)
..-||.+|++||--|... +-+|++..||-+ -+|.+. +|-.-|-+|.---...+=+
T Consensus 236 ~I~~g~rpv~wcp~~~t~-ladhe~~~~e~~--~~~~y~~ikf~v~~~~~~~~~~~~~~~~~l~~aTtrPeTl~g~ta~~ 312 (1084)
T PLN02959 236 KIVKDKRYTIYSPLDGQP-CADHDRASGEGV--GPQEYVLIKMEVLPPFPGKLKALEGKKVFLAAATLRPETMYGQTNCW 312 (1084)
T ss_pred CEEecCeeeeeCCCCCCC-chhhHHhcCCCC--CcceeEEEEEeecCcchhhhhhcCCCCeEEEEEeCccchhhhheeEE
Confidence 456899999999999432 556666667611 111221 3333344442100111112
Q ss_pred CCCCCceEEEEcCCCCEEEecHHHHHH
Q psy17891 63 EGPNAMYVKLISSDGHEFIVKREHALM 89 (163)
Q Consensus 63 ~~~~s~~V~L~SsDG~~F~V~~~aA~q 89 (163)
-.|+..|+.+...+|..+.|++++|..
T Consensus 313 VnP~~~Y~~~~~~~~e~~i~s~~~~~~ 339 (1084)
T PLN02959 313 VLPDGKYGAYEINDTEVFILTARAALN 339 (1084)
T ss_pred ECCCCeEEEEEecCCeEEEEehhhhhh
Confidence 345667888888889999999998763
No 23
>PF14122 YokU: YokU-like protein
Probab=33.72 E-value=30 Score=25.07 Aligned_cols=31 Identities=39% Similarity=0.591 Sum_probs=18.6
Q ss_pred CCCCceeecCC-----CchhhhHHHhhhCCCCCCccccccc
Q psy17891 9 GDKPTIYCEGL-----NSSEIEEEEDRIGESQPFLEQTGRY 44 (163)
Q Consensus 9 ~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (163)
-+.|.|.|.+| +-+=|.|-|| |.||-+...+
T Consensus 31 ~~tP~i~C~~CgmvYq~d~vi~EIEd-----ql~Lidtk~l 66 (87)
T PF14122_consen 31 TDTPAIICSNCGMVYQDDEVIKEIED-----QLFLIDTKKL 66 (87)
T ss_pred cCCceeeecCCCcEEehhHHHHHHhh-----heEEEecccC
Confidence 46899999999 3333444444 4555554433
No 24
>KOG0511|consensus
Probab=32.02 E-value=1e+02 Score=28.56 Aligned_cols=61 Identities=11% Similarity=0.148 Sum_probs=44.6
Q ss_pred EcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCC-cc---cccccCCCHHHHHHHHHHHhhhccCC
Q psy17891 73 ISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENE-TN---EINFREIPSHVLQKVCMYFTYKVRYT 135 (163)
Q Consensus 73 ~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~-~~---~IpLp~Vss~iLkkVIewce~h~~~~ 135 (163)
++-...++.+++.++.....++.|+.+. +.|.. .. ...||+....+.+.++.|+.-|+.+.
T Consensus 296 ql~~~~RyP~hla~i~R~eyfk~mf~g~--f~e~s~n~~~p~lslp~~~~~vveI~lr~lY~d~tdi 360 (516)
T KOG0511|consen 296 QLPEEDRYPAHLARILRVEYFKSMFVGD--FIESSVNDTRPGLSLPSLADVVVEIDLRNLYCDQTDI 360 (516)
T ss_pred cccccccccHHHHHHHHHHHHHHHhccc--hhhhcCCccccccccchHHHHHHHHHHHHhhcccccc
Confidence 3345566889999999999999999743 32311 22 33588888999999999998877653
No 25
>PLN02373 soluble inorganic pyrophosphatase
Probab=25.20 E-value=1e+02 Score=25.18 Aligned_cols=46 Identities=20% Similarity=0.419 Sum_probs=32.6
Q ss_pred ccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHHHHHHhhc
Q psy17891 113 FREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALELLMAAN 159 (163)
Q Consensus 113 Lp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~LfeLL~AAn 159 (163)
|..++...|+.|.+|.++++.-+.+...+..| .+.+.+.++|.+|.
T Consensus 130 l~Dl~~~~l~~I~~fF~~YK~legK~v~v~g~-~~~~~A~~~I~~~~ 175 (188)
T PLN02373 130 IKELPPHRLAEIRRFFEDYKKNENKEVAVNDF-LPAEAAIEAIQYSM 175 (188)
T ss_pred hHHCCHHHHHHHHHHHHHhcccCCCeEEeCCc-cCHHHHHHHHHHHH
Confidence 34567899999999999988755433223344 46778888887764
No 26
>cd00412 pyrophosphatase Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers.
Probab=24.31 E-value=1.3e+02 Score=23.80 Aligned_cols=46 Identities=13% Similarity=0.332 Sum_probs=33.0
Q ss_pred ccCCCHHHHHHHHHHHhhhccCCC-CCCCCCCCCCChHHHHHHHHhhc
Q psy17891 113 FREIPSHVLQKVCMYFTYKVRYTN-SSTEIPEFPIAPAIALELLMAAN 159 (163)
Q Consensus 113 Lp~Vss~iLkkVIewce~h~~~~~-~~~~i~ewdid~e~LfeLL~AAn 159 (163)
|..++...|+.|-+|.+.++.-+. +...+..| .+.+.+.++|..|.
T Consensus 108 l~Dl~~~~l~~I~~fF~~YK~le~~k~~~~~g~-~~~~~A~~~I~~~~ 154 (155)
T cd00412 108 ISDVPPHLLDEIKHFFEHYKDLEGKKEVKVAGW-KDKEEALKIIKESI 154 (155)
T ss_pred hHHCCHHHHHHHHHHHHHhcccCCCCceEECcC-cCHHHHHHHHHHHh
Confidence 445779999999999999887653 22223444 46778888888764
No 27
>KOG0783|consensus
Probab=24.05 E-value=58 Score=32.97 Aligned_cols=66 Identities=12% Similarity=0.085 Sum_probs=45.6
Q ss_pred CCCCCceEEEEcCCCCEEEecHHHH-HHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhh
Q psy17891 63 EGPNAMYVKLISSDGHEFIVKREHA-LMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTY 130 (163)
Q Consensus 63 ~~~~s~~V~L~SsDG~~F~V~~~aA-~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~ 130 (163)
..+.+..+.++-.||++|...+.++ ..+..+..|+.-.-. |...-++.+-.+++..|+-|++|+..
T Consensus 706 dh~e~~d~~i~~KDGkvl~aHkc~L~aRlEYF~smf~~~w~--E~sS~t~~~~p~~~e~m~ivLdylYs 772 (1267)
T KOG0783|consen 706 DHEETMDTVIKLKDGKVLKAHKCFLSARLEYFSSMFQFVWM--ESSSITVNLSPLTVEHMSIVLDYLYS 772 (1267)
T ss_pred CCccceeEEEEecCCcCcccceeEeeeHHHHHHHHHHHHHh--hhccceeecCcchHHHHHHHHHHHHc
Confidence 3445566777778999999998884 447888888864322 22233444445679999999999874
No 28
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=22.45 E-value=3.3e+02 Score=20.24 Aligned_cols=63 Identities=19% Similarity=0.128 Sum_probs=39.4
Q ss_pred CCCccCCCCCCCCCceEEEEcCCCCEEEecHHHHHHHHHHHHHHcCCCCCCCCCccccc---ccCCCHHHHHHHHHHHh
Q psy17891 54 DEDKQHGGCEGPNAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEIN---FREIPSHVLQKVCMYFT 129 (163)
Q Consensus 54 ~~~~~~~~~~~~~s~~V~L~SsDG~~F~V~~~aA~qS~~Ir~mle~~~~~~E~~~~~Ip---Lp~Vss~iLkkVIewce 129 (163)
.-+...|-....+...++|...+|+++.|.++-+. .+.... ....| +...+..-|.-++.|+.
T Consensus 66 dG~~~~G~~~~e~~~~~~l~~~~g~~~~i~~~~I~------~~~~~~-------~S~MP~gl~~~Lt~~e~~dL~aYL~ 131 (133)
T TIGR02603 66 DGRILSGIVASETADGVTVKMPGGVEQSVPREEIK------SREALP-------VSLMPEGLEMGLSDQDLADLVAYLK 131 (133)
T ss_pred CCCEEEEEEEecCCCeEEEEcCCCcEEEEEHHHHH------HhhcCC-------CCcCCchhhccCCHHHHHHHHHHHh
Confidence 33334444444566789999999999999886532 222211 11233 33578888999999985
No 29
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=21.81 E-value=93 Score=26.25 Aligned_cols=27 Identities=15% Similarity=0.052 Sum_probs=21.6
Q ss_pred ccccccc-CCCHHHHHHHHHHHhhhccCC
Q psy17891 108 TNEINFR-EIPSHVLQKVCMYFTYKVRYT 135 (163)
Q Consensus 108 ~~~IpLp-~Vss~iLkkVIewce~h~~~~ 135 (163)
..+.+|| ++++.||++|.+|++ +.+.+
T Consensus 146 ~~~~~LPkGi~~~Tl~~i~~~~~-~~~~~ 173 (224)
T COG4565 146 QPPDDLPKGLDELTLQKVREALK-EPDQE 173 (224)
T ss_pred cCcccCCCCcCHHHHHHHHHHHh-CcCCc
Confidence 4567787 799999999999999 54443
No 30
>KOG2075|consensus
Probab=21.62 E-value=2.2e+02 Score=26.92 Aligned_cols=51 Identities=18% Similarity=0.211 Sum_probs=40.1
Q ss_pred CEEEecHHH-HHHHHHHHHHHcCCCCCCCCCcccccccCCCHHHHHHHHHHHhh
Q psy17891 78 HEFIVKREH-ALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTY 130 (163)
Q Consensus 78 ~~F~V~~~a-A~qS~~Ir~mle~~~~~~E~~~~~IpLp~Vss~iLkkVIewce~ 130 (163)
+++..++-+ |.-|.++..|+-.. ..++...+|-+|+|..+.....+.|+.-
T Consensus 129 q~~paHk~vla~gS~VFdaMf~g~--~a~~~s~ei~lpdvepaaFl~~L~flYs 180 (521)
T KOG2075|consen 129 QRIPAHKLVLADGSDVFDAMFYGG--LAEDASLEIRLPDVEPAAFLAFLRFLYS 180 (521)
T ss_pred cccchhhhhhhcchHHHHHHhccC--cccccCceeecCCcChhHhHHHHHHHhc
Confidence 677777877 66699999999643 3344567899999999999999888765
No 31
>PF00236 Hormone_6: Glycoprotein hormone; InterPro: IPR000476 Glycoprotein hormones [, ] (or gonadotropins) are a family of proteins, which include the mammalian hormones follitropin (FSH), lutropin (LSH), thyrotropin (TSH) placental chorionic gonadotropins hCG and eCG [] and chorionic gonadotropin (CG), as well as at least two forms of fish gonadotropins. These hormones are central to the complex endocrine system that regulates normal growth, sexual development, and reproductive function []. The hormones LH, FSH and TSH are secreted by the anterior pituitary gland, while hCG and eCG are secreted by the placenta []. All these hormones consist of two glycosylated chains (alpha and beta). The alpha subunit is common to each protein dimer (well conserved within species, but differing between them []), and a unique beta subunit, which confers biological specificity []. The alpha chains are highly conserved proteins of about 100 amino acid residues which contain ten conserved cysteines all involved in disulphide bonds [], as shown in the following schematic representation. +---------------------------+ +----------+| +-------------|--+ | || | | | xxxxCxCxxxxxxCxCCxxxxxxxxxxxxxCCxxxxxxxxxxCxCxxCx | | | | +------|-----------------+ | | | +----------------------------+ 'C': conserved cysteine involved in a disulphide bond. Intracellular levels of free alpha subunits are greater than those of the mature glycoprotein, implying that hormone assembly is limited by the appearance of the specific beta subunits, and hence that synthesis of alpha and beta is independently regulated [].; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1HD4_A 1QFW_A 1XWD_D 1DZ7_A 1HCN_A 1E9J_A 1HRP_A 1FL7_A.
Probab=21.30 E-value=27 Score=25.63 Aligned_cols=16 Identities=31% Similarity=0.509 Sum_probs=13.9
Q ss_pred cCCCCCCCCceeecCC
Q psy17891 4 DRFNRGDKPTIYCEGL 19 (163)
Q Consensus 4 ~~~~~~~~~~~~~~~~ 19 (163)
.+|.+-+.|..||.||
T Consensus 20 ~~fs~~~~piyQC~GC 35 (96)
T PF00236_consen 20 KFFSRLGAPIYQCMGC 35 (96)
T ss_dssp TTTEBTTBEEEEEEEE
T ss_pred ccccCCCCceeEeeee
Confidence 4688889999999999
No 32
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=20.80 E-value=1.5e+02 Score=19.55 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=18.2
Q ss_pred eEEEEcCCC------CEEEecHHH--HHHHHHHHHHH
Q psy17891 69 YVKLISSDG------HEFIVKREH--ALMSGTIKAML 97 (163)
Q Consensus 69 ~V~L~SsDG------~~F~V~~~a--A~qS~~Ir~ml 97 (163)
.|+++|++| ..+.|+..+ ...|.+|+.++
T Consensus 3 ~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 3 QVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 366777666 344454444 56688888888
No 33
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=20.43 E-value=54 Score=22.55 Aligned_cols=77 Identities=17% Similarity=0.225 Sum_probs=45.5
Q ss_pred CCCEEEecHHHHHH--HHHHHHHHcCC-CCCCCCCcccccccCCCHHHHHHHHHHHhhhccCCCCCCCCCCCCCChHHHH
Q psy17891 76 DGHEFIVKREHALM--SGTIKAMLSGP-GQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIAL 152 (163)
Q Consensus 76 DG~~F~V~~~aA~q--S~~Ir~mle~~-~~~~E~~~~~IpLp~Vss~iLkkVIewce~h~~~~~~~~~i~ewdid~e~Lf 152 (163)
-|+.|.++++.+.. ...+..|+... ..........+-+ +=++...+.|++|+... .. ++. -+...+.
T Consensus 6 GG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~~-~~------l~~--~~~~~~~ 75 (94)
T PF02214_consen 6 GGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRTG-GK------LPI--PDEICLE 75 (94)
T ss_dssp TTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHHT-SS------B-----TTS-HH
T ss_pred CCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhhc-Cc------cCC--CCchhHH
Confidence 48999999999763 34566777643 1111123345544 68999999999999984 11 110 0233466
Q ss_pred HHHHhhcccC
Q psy17891 153 ELLMAANFLD 162 (163)
Q Consensus 153 eLL~AAnyLd 162 (163)
.|+..|.|.+
T Consensus 76 ~l~~Ea~fy~ 85 (94)
T PF02214_consen 76 ELLEEAEFYG 85 (94)
T ss_dssp HHHHHHHHHT
T ss_pred HHHHHHHHcC
Confidence 7777777643
Done!