Query 024341
Match_columns 269
No_of_seqs 207 out of 423
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 03:51:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024341.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024341hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3149 Transcription initiati 100.0 3.8E-43 8.2E-48 320.3 18.3 228 33-260 5-247 (249)
2 COG5033 TFG3 Transcription ini 100.0 1.7E-38 3.6E-43 282.5 8.9 200 34-256 4-218 (225)
3 PF03366 YEATS: YEATS family; 100.0 1.2E-35 2.7E-40 231.2 8.3 82 64-145 1-82 (84)
4 PF04102 SlyX: SlyX; InterPro 52.6 24 0.00051 26.4 3.9 37 227-263 18-54 (69)
5 PLN00172 ubiquitin conjugating 51.7 37 0.00081 28.7 5.4 35 62-96 28-62 (147)
6 TIGR02449 conserved hypothetic 47.5 22 0.00048 26.9 3.0 19 229-247 41-59 (65)
7 PF09154 DUF1939: Domain of un 45.0 12 0.00026 27.4 1.2 14 106-119 36-49 (57)
8 PRK02119 hypothetical protein; 39.0 34 0.00073 26.1 2.9 37 227-263 23-59 (73)
9 smart00212 UBCc Ubiquitin-conj 37.7 1.1E+02 0.0025 25.1 6.1 35 62-96 26-60 (145)
10 PRK02793 phi X174 lysis protei 37.0 37 0.00081 25.7 2.9 37 227-263 22-58 (72)
11 PF05524 PEP-utilisers_N: PEP- 36.5 69 0.0015 25.6 4.5 30 224-253 32-61 (123)
12 PF14723 SSFA2_C: Sperm-specif 36.5 60 0.0013 29.2 4.4 31 223-253 141-171 (179)
13 PRK04325 hypothetical protein; 35.7 40 0.00087 25.7 2.8 36 227-262 23-58 (74)
14 PRK00846 hypothetical protein; 35.5 35 0.00076 26.6 2.5 37 227-263 27-63 (77)
15 PRK04406 hypothetical protein; 33.6 54 0.0012 25.2 3.3 36 227-262 25-60 (75)
16 PF04380 BMFP: Membrane fusoge 32.7 95 0.0021 23.8 4.5 31 226-256 49-79 (79)
17 PF04201 TPD52: Tumour protein 32.3 24 0.00051 31.3 1.2 39 227-265 29-67 (162)
18 PF14193 DUF4315: Domain of un 32.0 49 0.0011 26.1 2.8 29 229-257 3-31 (83)
19 PRK00736 hypothetical protein; 30.3 54 0.0012 24.6 2.7 35 227-261 19-53 (68)
20 PF02370 M: M protein repeat; 28.9 90 0.002 18.8 2.9 20 234-253 1-20 (21)
21 KOG1760 Molecular chaperone Pr 28.8 33 0.00072 29.3 1.5 46 217-262 71-116 (131)
22 PRK00295 hypothetical protein; 28.4 57 0.0012 24.5 2.6 35 227-261 19-53 (68)
23 PF04568 IATP: Mitochondrial A 27.9 1.1E+02 0.0024 24.9 4.3 29 227-255 69-97 (100)
24 PF04977 DivIC: Septum formati 27.4 31 0.00067 25.2 1.0 27 227-253 24-50 (80)
25 PF07820 TraC: TraC-like prote 25.3 65 0.0014 26.1 2.5 20 236-255 4-23 (92)
26 PF07334 IFP_35_N: Interferon- 24.5 21 0.00045 27.9 -0.4 22 228-249 8-29 (76)
27 cd00195 UBCc Ubiquitin-conjuga 24.1 2.3E+02 0.0049 23.2 5.7 34 63-96 27-60 (141)
28 PF05377 FlaC_arch: Flagella a 24.0 1.6E+02 0.0034 21.8 4.1 29 227-255 7-35 (55)
29 PRK14127 cell division protein 23.8 1.4E+02 0.003 24.7 4.2 32 228-259 38-69 (109)
30 PRK13848 conjugal transfer pro 23.6 65 0.0014 26.3 2.2 18 237-254 6-23 (98)
31 PF05103 DivIVA: DivIVA protei 23.4 1.4E+02 0.003 23.9 4.2 34 228-261 26-59 (131)
32 PF07106 TBPIP: Tat binding pr 23.2 49 0.0011 28.3 1.5 38 226-263 71-108 (169)
33 PF01920 Prefoldin_2: Prefoldi 21.8 32 0.0007 26.4 0.2 41 217-257 52-92 (106)
34 PF04977 DivIC: Septum formati 21.7 2E+02 0.0043 20.8 4.4 36 227-262 17-52 (80)
35 PF04568 IATP: Mitochondrial A 21.3 1.4E+02 0.003 24.4 3.7 32 219-250 64-99 (100)
36 PF10458 Val_tRNA-synt_C: Valy 21.3 1.8E+02 0.0039 21.3 4.1 27 226-252 3-29 (66)
No 1
>KOG3149 consensus Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=3.8e-43 Score=320.29 Aligned_cols=228 Identities=37% Similarity=0.566 Sum_probs=188.3
Q ss_pred ccceeeceEEEEEEEEccceEEcCCCCCCCCceeEEEEEeCCCCCCcccceeeEEEEeCCCCCCCcceeecCCcEEEEee
Q 024341 33 AIKRLKDVEICVPIVYGTMAFHLGRKASESQSHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNNPTRVVESPPFELQECG 112 (269)
Q Consensus 33 ~~kR~k~~~I~~pIvyGn~A~~l~kk~~~~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~G 112 (269)
+.+|++.++|+++|+|||.|++++++.++.+||.|+|||||.++||++.||+||+|+||+||+||+|+|++|||+|+|+|
T Consensus 5 ~~~~~~~~~~~~~iv~G~~a~~~~~~~~~~~th~w~v~v~~~~~ed~~~~V~KV~f~LH~sf~~P~Rvv~~pPf~i~EtG 84 (249)
T KOG3149|consen 5 SIKRTKECTISVPIVPGNRAAILGKRLPDGFTHIWEVYVRGPGKEDISAFVDKVVFKLHESFPNPRRVVESPPFEITETG 84 (249)
T ss_pred CcceeeeeeEEeeeecCccccccCCCCCcccceeeEEEecCcCccccceeeeeeeeecccccccccccccCCCceEEeec
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeEEEEEEEEEeeCCCCCCeEEEEeeecCCCCCC---C-----------CCCCCCCeeEEeee-EEEecCCCHHHHHHH
Q 024341 113 WGEFEIAISLFFHSDVCDKPLDLYHHLKLYPEAES---G-----------PKSTKKPVVMESYN-EIVFPEPAEGFFARV 177 (269)
Q Consensus 113 WGEF~I~IkI~F~~d~~ekp~~l~H~L~L~p~~~~---~-----------~~~~~~pvv~e~yd-eIvF~nPse~f~~~L 177 (269)
||+|+|.|+|||.++.++++++++|+|.|++++.. . ....+.+++++.|+ +++|++|+++++..+
T Consensus 85 wgeF~i~i~i~f~d~~~~~~v~~~~~l~l~~~~~p~~~~~~~~~~~~~~~~~~~r~~v~~~~~~~e~~f~~~~~~~~~~~ 164 (249)
T KOG3149|consen 85 WGEFEIQIEIFFTDDANEKKVTLYHDLKLHSYGAPPVPHEESTKKTFVNPTISLRIPVVREGVDVEIVFPDPTESTSIEA 164 (249)
T ss_pred cccceEEEEEEeccCCCCceeeeeeeEEeeccCCCCccchhhhcccccccchhcccccccccccceeecCCCCccccccc
Confidence 99999999999999999999999999999987431 1 12346799999999 999999999999999
Q ss_pred hcCCCccCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 024341 178 LNHPAVVVPRLPAGFVLPTPVPIDSVHGKGRGDTKNHPLSHWFMNFSEADELLKIASARQQVQAHIIKLRRELNMMNGLP 257 (269)
Q Consensus 178 ~~~~~~~~~~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~E~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 257 (269)
...+..+....+....+.............+.++++.-...++-...|..+.++++.+.+.++.++.++++++..++++.
T Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~e~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (249)
T KOG3149|consen 165 SSRPVGPGSNLAAVTDLKQVKSKTLPSLLSKESSKDVKTEKSSERPNEIDEVDRLEKKIKELKKEINKVRKDIEKLEGEI 244 (249)
T ss_pred CCCCCcCCccccccccccccccccCcccccccccccccccccccccccchhhhhhhhhhhhhhhHHHHHHHhhhhccccc
Confidence 98876543333222222211111111122233344444455666777999999999999999999999999999999886
Q ss_pred CCC
Q 024341 258 PPP 260 (269)
Q Consensus 258 ~~~ 260 (269)
.-.
T Consensus 245 ~~~ 247 (249)
T KOG3149|consen 245 DLQ 247 (249)
T ss_pred ccc
Confidence 544
No 2
>COG5033 TFG3 Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=1.7e-38 Score=282.50 Aligned_cols=200 Identities=30% Similarity=0.490 Sum_probs=166.7
Q ss_pred cceeeceEEEEEEEEccceEEcCCC--CCCCCceeEEEEEeCCCCCCcccceeeEEEEeCCCCCCCcceeecCCcEEEEe
Q 024341 34 IKRLKDVEICVPIVYGTMAFHLGRK--ASESQSHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNNPTRVVESPPFELQEC 111 (269)
Q Consensus 34 ~kR~k~~~I~~pIvyGn~A~~l~kk--~~~~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~ 111 (269)
.+|+.++.++++|++| .|..++.. .+-.+||-|.||||++++||+++||+||+|+|||||+||+|++++|||+|.|+
T Consensus 4 ~krt~r~~t~r~Iipg-ea~~~~~e~~~P~r~th~w~v~v~~~g~E~~~~iv~KVifkLH~Tf~NP~Rti~~pPFeI~Et 82 (225)
T COG5033 4 VKRTERLKTQRVIIPG-EAKPLGNEERFPVRHTHIWLVFVRAPGKEDIATIVKKVIFKLHPTFSNPTRTIESPPFEIKET 82 (225)
T ss_pred ceeeEeeeeeceeccC-ccccCCccccCCchhhEEEEEEEeCCCCcchhhhhheeeEEeccccCCCcccccCCCcEEEec
Confidence 6899999999999999 99999864 77889999999999999999999999999999999999999999999999999
Q ss_pred eEeeEEEEEEEEEeeCCCCCCeEEEEeeecCCCCCCCCC-------------CCCCCeeEEeeeEEEecCCCHHHHHHHh
Q 024341 112 GWGEFEIAISLFFHSDVCDKPLDLYHHLKLYPEAESGPK-------------STKKPVVMESYNEIVFPEPAEGFFARVL 178 (269)
Q Consensus 112 GWGEF~I~IkI~F~~d~~ekp~~l~H~L~L~p~~~~~~~-------------~~~~pvv~e~ydeIvF~nPse~f~~~L~ 178 (269)
|||||+|.|+|||.+.++++.+..+|++.++++....+. +..+.|-+.++++++|++|...++++|.
T Consensus 83 GWGEF~i~I~iff~~~age~~~~fyl~f~~~~Y~v~~~v~~~~~~~~l~~elsk~geve~~~~~~~~~nep~i~~~k~~~ 162 (225)
T COG5033 83 GWGEFDIQIKIFFAEKAGEKTIHFYLHFGDEPYAVDEPVDIPVNRPDLTSELSKSGEVESVYKREKRFNEPNIQALKLLN 162 (225)
T ss_pred ccccceEEEEEEEecCCCceEeehhhhcccccccccccccccccccchhhhhhhcCcccceeeeeecccCchhHHHHhhh
Confidence 999999999999999999988888888777777421111 2234566778999999999999999998
Q ss_pred cCCCccCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 024341 179 NHPAVVVPRLPAGFVLPTPVPIDSVHGKGRGDTKNHPLSHWFMNFSEADELLKIASARQQVQAHIIKLRRELNMMNGL 256 (269)
Q Consensus 179 ~~~~~~~~~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~E~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~ 256 (269)
..+. ..++.|+.. + +. ...|+.+.++++++++..+.+++...|+.++.....+.++
T Consensus 163 ~~~~------~~a~gl~~~----------~--ed----d~~~v~Ql~~d~~~~v~~~ie~~~~~id~y~~~~~~L~~~ 218 (225)
T COG5033 163 GAKM------KLAIGLHKL----------R--ED----DLVFVVQLVQDPIMAVLNLIEKGEFKIDLYKLPSDLLHKL 218 (225)
T ss_pred cCcc------cccccCccc----------c--cc----cceeeEecCcCHHHHHHhccccCceEeeehhCchhhhhhc
Confidence 8552 112223211 0 11 3678999999999999999999999999888776665543
No 3
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=100.00 E-value=1.2e-35 Score=231.23 Aligned_cols=82 Identities=55% Similarity=1.053 Sum_probs=70.3
Q ss_pred ceeEEEEEeCCCCCCcccceeeEEEEeCCCCCCCcceeecCCcEEEEeeEeeEEEEEEEEEeeCCCCCCeEEEEeeecCC
Q 024341 64 SHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNNPTRVVESPPFELQECGWGEFEIAISLFFHSDVCDKPLDLYHHLKLYP 143 (269)
Q Consensus 64 tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~GWGEF~I~IkI~F~~d~~ekp~~l~H~L~L~p 143 (269)
||+|+||||+++++|++++|+||+|+|||||+||+|++++|||+|+|+|||||+|.|+|+|+++++++|+++.|+|+|++
T Consensus 1 th~W~v~Vr~~~~~d~~~~i~kV~f~LHpsF~~p~r~v~~pPFevte~GWGeF~i~I~i~f~~~~~~~~~~~~h~L~l~~ 80 (84)
T PF03366_consen 1 THKWTVYVRGLDNEDLSYFIKKVTFKLHPSFPNPVRVVTKPPFEVTETGWGEFEIPIKIHFKDPSNEKPVTIQHDLKLHQ 80 (84)
T ss_dssp -EEEEEEEEECCCT--TTTEEEEEEES-TTSSS-EEECSSTTEEEEEEESS--EEEEEEECCCGGCTCEEEEEEE--SSS
T ss_pred CcEEEEEEEeCCCCCccceEEEEEEECCCCCCCCceEecCCCCEEEEeEeccEEEEEEEEEeCCCCCCcEEEEEEEEcCC
Confidence 79999999999999999999999999999999999999999999999999999999999999777899999999999987
Q ss_pred CC
Q 024341 144 EA 145 (269)
Q Consensus 144 ~~ 145 (269)
++
T Consensus 81 ~~ 82 (84)
T PF03366_consen 81 DG 82 (84)
T ss_dssp CE
T ss_pred CC
Confidence 54
No 4
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=52.58 E-value=24 Score=26.40 Aligned_cols=37 Identities=16% Similarity=0.244 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPA 263 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 263 (269)
+.++.|+.+-..=+.+|++|+++++.+..++..+...
T Consensus 18 ~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 54 (69)
T PF04102_consen 18 DTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELEDP 54 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 5688889888888999999999999999999988743
No 5
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=51.74 E-value=37 Score=28.72 Aligned_cols=35 Identities=14% Similarity=0.280 Sum_probs=26.0
Q ss_pred CCceeEEEEEeCCCCCCcccceeeEEEEeCCCCCC
Q 024341 62 SQSHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNN 96 (269)
Q Consensus 62 ~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~n 96 (269)
++.+.|.+.+.|+.+..-..-+=++.+.+.+.|+.
T Consensus 28 ~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP~ 62 (147)
T PLN00172 28 ENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPF 62 (147)
T ss_pred CChheEEEEEECCCCCCCCCCEEEEEEECCcccCC
Confidence 57999999999987655433344677888888873
No 6
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=47.52 E-value=22 Score=26.89 Aligned_cols=19 Identities=47% Similarity=0.564 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 024341 229 LLKIASARQQVQAHIIKLR 247 (269)
Q Consensus 229 l~~l~~a~~~V~~~i~~lk 247 (269)
++++..|+.+|.++|..|+
T Consensus 41 ~ekne~Ar~rvEamI~RLk 59 (65)
T TIGR02449 41 LEKNEQARQKVEAMITRLK 59 (65)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 6789999999999999876
No 7
>PF09154 DUF1939: Domain of unknown function (DUF1939); InterPro: IPR015237 This entry represents a C-terminal domain associated with prokaryotic alpha-amylases. It adopts a secondary structure consisting of an eight-stranded antiparallel beta-sheet containing a Greek key motif. Its exact function has not, as yet, been determined []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 1MXD_A 1MWO_A 1MXG_A 1W9X_A 2DIE_A 1VJS_A 1BPL_B 1BLI_A 1OB0_A 1E3Z_A ....
Probab=44.97 E-value=12 Score=27.36 Aligned_cols=14 Identities=43% Similarity=1.070 Sum_probs=10.2
Q ss_pred cEEEEeeEeeEEEE
Q 024341 106 FELQECGWGEFEIA 119 (269)
Q Consensus 106 FeVtE~GWGEF~I~ 119 (269)
-.+.|.|||+|.++
T Consensus 36 vtid~dG~~~f~v~ 49 (57)
T PF09154_consen 36 VTIDEDGWGEFPVP 49 (57)
T ss_dssp EEE-TTSEEEEEE-
T ss_pred EEECCCeEEEEEEC
Confidence 35789999999986
No 8
>PRK02119 hypothetical protein; Provisional
Probab=39.01 E-value=34 Score=26.11 Aligned_cols=37 Identities=22% Similarity=0.170 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPA 263 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 263 (269)
+.++.|+.+..+=+++|+.|+++|+.+..++..+.++
T Consensus 23 ~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~~~ 59 (73)
T PRK02119 23 NLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQPS 59 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 5688888888888889999999998887666555433
No 9
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=37.70 E-value=1.1e+02 Score=25.09 Aligned_cols=35 Identities=14% Similarity=0.256 Sum_probs=24.6
Q ss_pred CCceeEEEEEeCCCCCCcccceeeEEEEeCCCCCC
Q 024341 62 SQSHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNN 96 (269)
Q Consensus 62 ~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~n 96 (269)
+....|.+.+.|+.+..-..-+=++++.|.+.|+.
T Consensus 26 ~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~ 60 (145)
T smart00212 26 DNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPF 60 (145)
T ss_pred CChheEEEEEEcCCCCCcCCcEEEEEEECCcccCC
Confidence 37889999999875543322233788888898874
No 10
>PRK02793 phi X174 lysis protein; Provisional
Probab=37.05 E-value=37 Score=25.74 Aligned_cols=37 Identities=14% Similarity=0.227 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPA 263 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 263 (269)
+.++.|+.+..+-+.+|..|+++|+.+..++..+..+
T Consensus 22 ~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 58 (72)
T PRK02793 22 ITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 5678888888888888888888888887666655543
No 11
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=36.53 E-value=69 Score=25.65 Aligned_cols=30 Identities=10% Similarity=0.168 Sum_probs=25.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024341 224 SEADELLKIASARQQVQAHIIKLRRELNMM 253 (269)
Q Consensus 224 ~E~~El~~l~~a~~~V~~~i~~lk~~l~~~ 253 (269)
.-..|+.||..|..++.+++..+.+++...
T Consensus 32 ~~~~E~~rl~~Al~~~~~eL~~l~~~~~~~ 61 (123)
T PF05524_consen 32 DIEAEIERLEQALEKAREELEQLAERAESK 61 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345799999999999999999999986543
No 12
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=36.46 E-value=60 Score=29.16 Aligned_cols=31 Identities=23% Similarity=0.235 Sum_probs=27.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024341 223 FSEADELLKIASARQQVQAHIIKLRRELNMM 253 (269)
Q Consensus 223 ~~E~~El~~l~~a~~~V~~~i~~lk~~l~~~ 253 (269)
..|..|.+.|..-|..|.+|+++|..||...
T Consensus 141 eeER~EaeQLQsLR~avRqElqELE~QL~DR 171 (179)
T PF14723_consen 141 EEEREEAEQLQSLRSAVRQELQELEFQLEDR 171 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3488999999999999999999999888753
No 13
>PRK04325 hypothetical protein; Provisional
Probab=35.75 E-value=40 Score=25.72 Aligned_cols=36 Identities=17% Similarity=0.195 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNP 262 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 262 (269)
+.++.|+.+..+=+.+|..|+++|+.+-.++..+..
T Consensus 23 ~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~ 58 (74)
T PRK04325 23 DLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANP 58 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 567888888888888999999998888766655543
No 14
>PRK00846 hypothetical protein; Provisional
Probab=35.51 E-value=35 Score=26.61 Aligned_cols=37 Identities=5% Similarity=-0.059 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPA 263 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 263 (269)
+.++.|+.+..+-+.+|++|+.+++.+-.++..+.++
T Consensus 27 ~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s 63 (77)
T PRK00846 27 QALTELSEALADARLTGARNAELIRHLLEDLGKVRST 63 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 5677888888888888888888888777666666544
No 15
>PRK04406 hypothetical protein; Provisional
Probab=33.65 E-value=54 Score=25.17 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNP 262 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 262 (269)
+.++.|+.+...=+.+|..|+++|+.+..++..+..
T Consensus 25 ~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~~ 60 (75)
T PRK04406 25 QTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMDS 60 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 567788888888888888888888888666655543
No 16
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=32.67 E-value=95 Score=23.83 Aligned_cols=31 Identities=10% Similarity=0.141 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 024341 226 ADELLKIASARQQVQAHIIKLRRELNMMNGL 256 (269)
Q Consensus 226 ~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~ 256 (269)
.+|++-..+.-.+.++.|+.|..++..+|.+
T Consensus 49 REEFd~q~~~L~~~r~kl~~LEarl~~LE~~ 79 (79)
T PF04380_consen 49 REEFDAQKAVLARTREKLEALEARLAALEAQ 79 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6889999988899999999999999888753
No 17
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=32.31 E-value=24 Score=31.25 Aligned_cols=39 Identities=21% Similarity=0.173 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPASG 265 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~~ 265 (269)
+|-+.|..-..||.+||.-||+-|..++.....||+.-|
T Consensus 29 eE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLG 67 (162)
T PF04201_consen 29 EEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLG 67 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHC
Confidence 556677788999999999999999999998888876543
No 18
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=31.97 E-value=49 Score=26.06 Aligned_cols=29 Identities=21% Similarity=0.304 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 024341 229 LLKIASARQQVQAHIIKLRRELNMMNGLP 257 (269)
Q Consensus 229 l~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 257 (269)
|+||.+=..|+.+.|+++..+|+.++.+.
T Consensus 3 leKi~~eieK~k~Kiae~Q~rlK~Le~qk 31 (83)
T PF14193_consen 3 LEKIRAEIEKTKEKIAELQARLKELEAQK 31 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888888888888888888888887554
No 19
>PRK00736 hypothetical protein; Provisional
Probab=30.25 E-value=54 Score=24.60 Aligned_cols=35 Identities=6% Similarity=0.118 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPN 261 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 261 (269)
+.++.|+.+..+=+.+|..|+++|+.+..++..+.
T Consensus 19 ~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 19 KTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56777888877778888888888888766555444
No 20
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=28.85 E-value=90 Score=18.84 Aligned_cols=20 Identities=30% Similarity=0.368 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q 024341 234 SARQQVQAHIIKLRRELNMM 253 (269)
Q Consensus 234 ~a~~~V~~~i~~lk~~l~~~ 253 (269)
+|+++|.++.++|..+...+
T Consensus 1 ~akk~lEa~~qkLe~e~q~~ 20 (21)
T PF02370_consen 1 EAKKQLEADHQKLEAEKQIS 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHhhc
Confidence 57888888888888877654
No 21
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=28.78 E-value=33 Score=29.31 Aligned_cols=46 Identities=11% Similarity=0.146 Sum_probs=38.2
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 024341 217 SHWFMNFSEADELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNP 262 (269)
Q Consensus 217 ~~~f~~~~E~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 262 (269)
+..|-...-..-.+.|..+...+.++|+.|..++.....++++||.
T Consensus 71 GdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~ 116 (131)
T KOG1760|consen 71 GDVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKK 116 (131)
T ss_pred hhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666778899999999999999999999998888877764
No 22
>PRK00295 hypothetical protein; Provisional
Probab=28.40 E-value=57 Score=24.45 Aligned_cols=35 Identities=11% Similarity=0.067 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPN 261 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 261 (269)
+.++.|+.+..+=+++|..|+++|+.+.+++..+.
T Consensus 19 ~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 19 DTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 56778888888888888888888888766554443
No 23
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=27.87 E-value=1.1e+02 Score=24.93 Aligned_cols=29 Identities=14% Similarity=0.326 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNG 255 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~ 255 (269)
.|.++|..-++++.++|+..+++|..++.
T Consensus 69 ~EkEqL~~Lk~kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 69 KEKEQLKKLKEKLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666677777777777777777664
No 24
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=27.38 E-value=31 Score=25.17 Aligned_cols=27 Identities=11% Similarity=0.316 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMM 253 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~ 253 (269)
.++..|..-..++++++++|+++++.+
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445555555555555555555555554
No 25
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=25.27 E-value=65 Score=26.06 Aligned_cols=20 Identities=20% Similarity=0.360 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHhccC
Q 024341 236 RQQVQAHIIKLRRELNMMNG 255 (269)
Q Consensus 236 ~~~V~~~i~~lk~~l~~~e~ 255 (269)
..++.++|++|+++|+.++.
T Consensus 4 ~s~I~~eIekLqe~lk~~e~ 23 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAET 23 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888887763
No 26
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=24.47 E-value=21 Score=27.89 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 024341 228 ELLKIASARQQVQAHIIKLRRE 249 (269)
Q Consensus 228 El~~l~~a~~~V~~~i~~lk~~ 249 (269)
|-.+|..-.+++.++++++++.
T Consensus 8 En~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 8 ENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3344444444444444444444
No 27
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=24.11 E-value=2.3e+02 Score=23.18 Aligned_cols=34 Identities=12% Similarity=0.207 Sum_probs=22.8
Q ss_pred CceeEEEEEeCCCCCCcccceeeEEEEeCCCCCC
Q 024341 63 QSHRWTVYVRGATNEDIGVVIKRVVFQLHPSFNN 96 (269)
Q Consensus 63 ~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~n 96 (269)
....|.+-+.|+.+.....=+=++.+.+++.|+.
T Consensus 27 ~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~ 60 (141)
T cd00195 27 NLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPF 60 (141)
T ss_pred ChhEEEEEEecCCCCCccCCEEEEEEECCCccCC
Confidence 6788999999884433333344567777777773
No 28
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=24.00 E-value=1.6e+02 Score=21.75 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNG 255 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~ 255 (269)
.++.+|......|+.+++++++.+.+++.
T Consensus 7 n~~~~~~~~i~tvk~en~~i~~~ve~i~e 35 (55)
T PF05377_consen 7 NELPRIESSINTVKKENEEISESVEKIEE 35 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778888888888888888888877764
No 29
>PRK14127 cell division protein GpsB; Provisional
Probab=23.75 E-value=1.4e+02 Score=24.74 Aligned_cols=32 Identities=6% Similarity=0.131 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 024341 228 ELLKIASARQQVQAHIIKLRRELNMMNGLPPP 259 (269)
Q Consensus 228 El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 259 (269)
+++.|..-....+++++.|+.+|..++.+...
T Consensus 38 dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~ 69 (109)
T PRK14127 38 DYEAFQKEIEELQQENARLKAQVDELTKQVSV 69 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34444455555566666666666666554443
No 30
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=23.60 E-value=65 Score=26.30 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHhcc
Q 024341 237 QQVQAHIIKLRRELNMMN 254 (269)
Q Consensus 237 ~~V~~~i~~lk~~l~~~e 254 (269)
.++.++|++|+++|+.++
T Consensus 6 s~I~~eI~kLqe~lk~~e 23 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAE 23 (98)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 356777888888877766
No 31
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=23.36 E-value=1.4e+02 Score=23.87 Aligned_cols=34 Identities=15% Similarity=0.150 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Q 024341 228 ELLKIASARQQVQAHIIKLRRELNMMNGLPPPPN 261 (269)
Q Consensus 228 El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 261 (269)
=|+.|......+..+++.|+.++..+..++..++
T Consensus 26 fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~ 59 (131)
T PF05103_consen 26 FLDELAEELERLQRENAELKEEIEELQAQLEELR 59 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCCCT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 3678888888889999999999999998887775
No 32
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=23.20 E-value=49 Score=28.28 Aligned_cols=38 Identities=11% Similarity=0.308 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Q 024341 226 ADELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNPA 263 (269)
Q Consensus 226 ~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 263 (269)
.+|+..|+.-...+++++..|+.+++.++.++..|...
T Consensus 71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~ 108 (169)
T PF07106_consen 71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSE 108 (169)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45677888778888888888888888887777666544
No 33
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=21.85 E-value=32 Score=26.41 Aligned_cols=41 Identities=12% Similarity=0.293 Sum_probs=28.6
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 024341 217 SHWFMNFSEADELLKIASARQQVQAHIIKLRRELNMMNGLP 257 (269)
Q Consensus 217 ~~~f~~~~E~~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 257 (269)
+..|-..+-.+-+..|..-...+..+|.+++.+++.++.++
T Consensus 52 G~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l 92 (106)
T PF01920_consen 52 GKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKL 92 (106)
T ss_dssp TTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45577777667777777777777777777777776665443
No 34
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=21.72 E-value=2e+02 Score=20.79 Aligned_cols=36 Identities=11% Similarity=0.129 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 024341 227 DELLKIASARQQVQAHIIKLRRELNMMNGLPPPPNP 262 (269)
Q Consensus 227 ~El~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 262 (269)
-.+.++....+.++.++++++++...++.+++.|+.
T Consensus 17 ~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~ 52 (80)
T PF04977_consen 17 SRYYQLNQEIAELQKEIEELKKENEELKEEIERLKN 52 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 556678888888888888888888888888888743
No 35
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=21.32 E-value=1.4e+02 Score=24.40 Aligned_cols=32 Identities=16% Similarity=0.295 Sum_probs=20.5
Q ss_pred ccccccHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q 024341 219 WFMNFSEADELLKIASARQQ----VQAHIIKLRREL 250 (269)
Q Consensus 219 ~f~~~~E~~El~~l~~a~~~----V~~~i~~lk~~l 250 (269)
.|-+..|.+.|.+|..-..+ .+++|++|.+.+
T Consensus 64 ~Y~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 64 QYFRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34555566667776666666 666666666654
No 36
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=21.26 E-value=1.8e+02 Score=21.26 Aligned_cols=27 Identities=15% Similarity=0.352 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024341 226 ADELLKIASARQQVQAHIIKLRRELNM 252 (269)
Q Consensus 226 ~~El~~l~~a~~~V~~~i~~lk~~l~~ 252 (269)
..|+.||..-..+++.+|+.+..+|..
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 368889999999999999988888763
Done!