Query 020080
Match_columns 331
No_of_seqs 109 out of 119
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 06:51:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020080hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14295 PAN_4: PAN domain; PD 98.3 2.4E-07 5.2E-12 64.6 1.7 51 227-294 1-51 (51)
2 cd01100 APPLE_Factor_XI_like S 95.3 0.019 4.1E-07 43.8 3.3 56 218-297 2-58 (73)
3 smart00223 APPLE APPLE domain. 94.5 0.055 1.2E-06 43.1 4.1 53 223-296 5-57 (79)
4 PF15027 DUF4525: Domain of un 70.0 25 0.00054 31.5 7.6 84 18-122 7-99 (138)
5 PF00024 PAN_1: PAN domain Thi 67.2 3.6 7.8E-05 30.2 1.6 50 225-298 8-58 (79)
6 PF05250 UPF0193: Uncharacteri 67.1 9.7 0.00021 36.1 4.8 39 84-122 155-195 (212)
7 COG5064 SRP1 Karyopherin (impo 65.2 9.9 0.00021 39.4 4.7 78 58-140 19-98 (526)
8 CHL00118 atpG ATP synthase CF0 61.4 88 0.0019 27.3 9.4 25 18-43 19-43 (156)
9 KOG4603 TBP-1 interacting prot 54.1 41 0.00088 31.7 6.3 67 76-142 85-173 (201)
10 PRK13454 F0F1 ATP synthase sub 51.9 59 0.0013 29.3 6.9 20 23-42 32-51 (181)
11 PF00430 ATP-synt_B: ATP synth 50.5 1.4E+02 0.003 24.4 8.4 22 24-45 1-22 (132)
12 PF14719 PID_2: Phosphotyrosin 46.7 31 0.00068 31.9 4.4 46 107-160 104-151 (182)
13 cd01111 HTH_MerD Helix-Turn-He 45.4 1.6E+02 0.0035 24.4 8.1 34 56-89 35-69 (107)
14 PRK08476 F0F1 ATP synthase sub 42.2 1.3E+02 0.0028 26.1 7.3 21 23-43 8-28 (141)
15 PF14446 Prok-RING_1: Prokaryo 38.8 14 0.00031 28.2 0.8 20 269-296 21-40 (54)
16 PF12037 DUF3523: Domain of un 38.8 3.9E+02 0.0084 26.5 10.7 106 60-183 131-242 (276)
17 PRK10236 hypothetical protein; 34.8 57 0.0012 31.6 4.3 72 108-181 60-132 (237)
18 PRK14471 F0F1 ATP synthase sub 34.2 3.2E+02 0.0069 23.8 8.6 21 23-43 9-29 (164)
19 PF14226 DIOX_N: non-haem diox 33.8 54 0.0012 26.2 3.4 41 64-110 11-63 (116)
20 PF07106 TBPIP: Tat binding pr 32.9 2.2E+02 0.0047 25.0 7.4 65 59-126 69-140 (169)
21 PF09216 Pfg27: Pfg27; InterP 32.8 75 0.0016 29.6 4.5 36 87-126 58-93 (186)
22 PF13591 MerR_2: MerR HTH fami 32.8 1.6E+02 0.0036 23.3 6.0 39 56-94 34-80 (84)
23 PRK13453 F0F1 ATP synthase sub 32.4 2.5E+02 0.0055 25.0 7.8 21 23-43 19-39 (173)
24 PF12004 DUF3498: Domain of un 30.1 17 0.00037 38.3 0.0 46 81-126 437-482 (495)
25 PF00540 Gag_p17: gag gene pro 29.3 57 0.0012 29.3 3.1 33 26-70 74-106 (140)
26 KOG0498 K+-channel ERG and rel 29.1 2E+02 0.0043 32.1 7.8 93 23-122 324-428 (727)
27 PF12669 P12: Virus attachment 29.1 46 0.001 25.3 2.2 20 24-43 1-21 (58)
28 KOG2470 Similar to IMP-GMP spe 28.3 92 0.002 32.6 4.7 35 105-143 394-428 (510)
29 PF10186 Atg14: UV radiation r 27.8 4.8E+02 0.01 24.0 10.3 25 167-191 138-162 (302)
30 COG3109 ProQ Activator of osmo 26.3 83 0.0018 29.8 3.7 32 105-137 33-64 (208)
31 PTZ00186 heat shock 70 kDa pre 26.2 5.1E+02 0.011 28.2 10.1 64 58-121 526-595 (657)
32 PRK14475 F0F1 ATP synthase sub 25.9 3.8E+02 0.0082 23.6 7.7 23 23-45 9-34 (167)
33 PRK13428 F0F1 ATP synthase sub 25.6 3.7E+02 0.008 27.8 8.5 21 23-43 2-22 (445)
34 KOG3170 Conserved phosducin-li 25.2 53 0.0011 31.7 2.3 58 118-176 55-114 (240)
35 PRK13455 F0F1 ATP synthase sub 23.8 5.2E+02 0.011 23.0 8.8 24 18-42 23-46 (184)
36 KOG0977 Nuclear envelope prote 23.8 2.3E+02 0.0049 30.7 6.8 55 108-163 241-297 (546)
37 KOG4752 Ribosomal protein L41 23.2 70 0.0015 21.1 1.9 13 135-147 3-15 (26)
38 KOG0994 Extracellular matrix g 23.0 2.7E+02 0.0058 33.4 7.4 54 64-122 1463-1528(1758)
39 PF06303 MatP: Organiser of ma 23.0 59 0.0013 29.6 2.0 64 59-122 62-127 (148)
40 COG4741 Predicted secreted end 22.8 2.8E+02 0.006 25.9 6.3 14 134-147 64-77 (175)
41 PF15079 DUF4546: Domain of un 22.5 1.5E+02 0.0033 27.9 4.6 24 138-180 63-86 (205)
42 PF07304 SRA1: Steroid recepto 22.4 1.1E+02 0.0024 27.3 3.7 18 105-122 61-78 (157)
43 PF06286 Coleoptericin: Coleop 22.4 79 0.0017 28.4 2.7 69 23-91 4-75 (143)
44 PF00038 Filament: Intermediat 22.3 1.7E+02 0.0036 27.7 5.1 67 104-171 157-225 (312)
45 COG5134 Uncharacterized conser 21.3 1.5E+02 0.0033 28.9 4.5 35 109-147 155-189 (272)
46 PF10925 DUF2680: Protein of u 20.8 3.2E+02 0.0069 21.0 5.4 55 128-184 3-57 (59)
47 PLN03192 Voltage-dependent pot 20.8 3.1E+02 0.0068 30.0 7.3 51 65-115 315-372 (823)
48 PRK14473 F0F1 ATP synthase sub 20.7 5.7E+02 0.012 22.3 7.7 24 20-43 6-29 (164)
49 PTZ00438 gamete antigen 27/25- 20.6 1.5E+02 0.0032 29.9 4.4 27 100-126 241-267 (374)
50 cd02987 Phd_like_Phd Phosducin 20.6 1.5E+02 0.0031 26.6 4.1 32 112-148 23-54 (175)
51 TIGR03042 PS_II_psbQ_bact phot 20.5 4.6E+02 0.0099 23.6 7.1 68 58-133 29-97 (142)
52 cd00483 HPPK 7,8-dihydro-6-hyd 20.4 49 0.0011 28.3 1.0 63 29-97 13-82 (128)
53 PRK05431 seryl-tRNA synthetase 20.4 7.7E+02 0.017 25.3 9.6 15 189-203 102-116 (425)
54 PRK08475 F0F1 ATP synthase sub 20.3 5E+02 0.011 23.1 7.4 21 23-43 23-43 (167)
No 1
>PF14295 PAN_4: PAN domain; PDB: 2YIL_E 2YIP_C 2YIO_A.
Probab=98.32 E-value=2.4e-07 Score=64.64 Aligned_cols=51 Identities=33% Similarity=0.682 Sum_probs=18.7
Q ss_pred cccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCcccccc
Q 020080 227 TDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLK 294 (331)
Q Consensus 227 tdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK 294 (331)
|||.|..+... .....|+++|+++|.+ ..+|+.|+|.+. ++.+ ..+.||||
T Consensus 1 ~d~~G~dl~~~-~~~~~s~~~C~~~C~~--------~~~C~~~~~~~~--~~~~------~~~~C~LK 51 (51)
T PF14295_consen 1 TDYPGGDLRSF-PVTASSPEECQAACAA--------DPGCQAFTFNPP--GCPS------SSGRCYLK 51 (51)
T ss_dssp ------------------HHHHHHHHHT--------STT--EEEEETT--EE----------------
T ss_pred Ccccccccccc-cccCCCHHHHHHHccC--------CCCCCEEEEECC--Cccc------ccccccCC
Confidence 68899988776 3488999999999997 468999999996 2322 46899998
No 2
>cd01100 APPLE_Factor_XI_like Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or protein-carbohydrate interactions.
Probab=95.26 E-value=0.019 Score=43.78 Aligned_cols=56 Identities=30% Similarity=0.622 Sum_probs=42.9
Q ss_pred CCcccccc-ccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCcccccccc
Q 020080 218 PPECHAEL-HTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLKYA 296 (331)
Q Consensus 218 ~~~C~~e~-htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK~~ 296 (331)
+..|+... +++|.|.-+. .....++++|+++|..+ ..|..|.|=. ..+.||||..
T Consensus 2 ~~~C~~~~~~~~~~g~d~~---~~~~~s~~~Cq~~C~~~--------~~C~afT~~~-------------~~~~C~lk~~ 57 (73)
T cd01100 2 PSSCFRQGSNVDFRGGDLS---TVFASSAEQCQAACTAD--------PGCLAFTYNT-------------KSKKCFLKSS 57 (73)
T ss_pred CcccccccCCCccccCCcc---eeecCCHHHHHHHcCCC--------CCceEEEEEC-------------CCCeEEcccC
Confidence 45677765 9999996553 23478999999999984 6899999943 2479999987
Q ss_pred C
Q 020080 297 E 297 (331)
Q Consensus 297 ~ 297 (331)
.
T Consensus 58 ~ 58 (73)
T cd01100 58 E 58 (73)
T ss_pred C
Confidence 4
No 3
>smart00223 APPLE APPLE domain. Four-fold repeat in plasma kallikrein and coagulation factor XI. Factor XI apple 3 mediates binding to platelets. Factor XI apple 1 binds high-molecular-mass kininogen. Apple 4 in factor XI mediates dimer formation and binds to factor XIIa. Mutations in apple 4 cause factor XI deficiency, an inherited bleeding disorder.
Probab=94.51 E-value=0.055 Score=43.08 Aligned_cols=53 Identities=25% Similarity=0.446 Sum_probs=42.3
Q ss_pred cccccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCcccccccc
Q 020080 223 AELHTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLKYA 296 (331)
Q Consensus 223 ~e~htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK~~ 296 (331)
+..++||.|.-+. .-...++.+|+..|..+ ..|-.|.|=...... ..||||..
T Consensus 5 ~~~~~df~G~Dl~---~~~~~~~~~Cq~~Ct~~--------~~C~~FTf~~~~~~~----------~~C~LK~s 57 (79)
T smart00223 5 IYKNVDFRGSDIN---TVYVPSAQVCQKRCTSH--------PRCLFFTFSTNEPPE----------EKCLLKDS 57 (79)
T ss_pred hccCccccCceee---eeecCCHHHHHHhhcCC--------CCccEEEeeCCCCCC----------CEeEeCcC
Confidence 3578999988663 44679999999999975 589999999986432 17999987
No 4
>PF15027 DUF4525: Domain of unknown function (DUF4525)
Probab=69.99 E-value=25 Score=31.47 Aligned_cols=84 Identities=19% Similarity=0.280 Sum_probs=47.3
Q ss_pred eeeccchhhHHHHHHHHHHHHHHhhhhcccccccCCccccccCHHHHHHHHHHHHHHhccCcHHHHHH-HHHHHHhhhcc
Q 020080 18 CSYKKTTLIICFINIVIALYVLRSIYASIYVFSRNDLKVVKYTPDQIRNMEESVRIRSDNEPMALVKL-VNGLKQEFSRD 96 (331)
Q Consensus 18 cSyKraTv~vC~~Ni~~aL~vL~sl~ss~~~~s~~~~~~~~y~~~Qlr~ieES~riRra~ePveLIkr-VKei~~E~~~e 96 (331)
.|-.+.-+++-+|-++-.|++||--+ ..+.+. ++++||. + =++|-|| ||.|-.|-..-
T Consensus 7 ~~Sqkl~~~Lv~fGfiWGlmLLh~t~------qq~~~~----ss~~LR~-----Q------ILdLSkrYVKaLAeEn~~~ 65 (138)
T PF15027_consen 7 LSSQKLGFLLVVFGFIWGLMLLHYTF------QQPRHQ----SSAELRE-----Q------ILDLSKRYVKALAEENKNV 65 (138)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHhee------cCCCcc----ChHHHHH-----H------HHHHHHHHHHHHHHHcCCC
Confidence 34456777888889999999998633 111111 4444442 0 1233322 55554443221
Q ss_pred ----cc-cccccHHHHhHHH---HHHHHHhhhcc
Q 020080 97 ----ES-VFELPRAVKLRMI---DEILRRLQSSD 122 (331)
Q Consensus 97 ----~~-~~~lp~~~kQk~a---~ei~qRL~dl~ 122 (331)
.. .+..=.|+|.++| ++|+|||..|.
T Consensus 66 ~dgp~~~smagYaDLKktiAVLLddiLqRl~kLE 99 (138)
T PF15027_consen 66 VDGPYGASMAGYADLKKTIAVLLDDILQRLVKLE 99 (138)
T ss_pred CCCCcchhhHHHHHHhhhhhhhhhHHHHHHHHHH
Confidence 11 2222238899887 69999998884
No 5
>PF00024 PAN_1: PAN domain This Prosite entry concerns apple domains, a subset of PAN domains; InterPro: IPR003014 PAN domains have significant functional versatility fulfilling diverse biological functions by mediating protein-protein or protein-carbohydrate interactions []. These domains contain a hair-pin loop like structure, similar to knottins, but the pattern of disulphide bonds differs It has been shown that, the N-terminal N domains of members of the plasminogen/hepatocyte growth factor family, the apple domains of the plasma prekallikrein/coagulation factor XI family, and domains of various nematode proteins belong to the same module superfamily, the PAN module []. PAN contains a conserved core of three disulphide bridges. In some members of the family there is an additional fourth disulphide bridge that links the N and C termini of the domain.; PDB: 1GP9_C 2QJ2_B 1GMO_H 1NK1_B 3MKP_B 1BHT_B 3HN4_A 1GMN_A 3HMS_A 3HMT_B ....
Probab=67.23 E-value=3.6 Score=30.15 Aligned_cols=50 Identities=22% Similarity=0.560 Sum_probs=35.9
Q ss_pred cccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCC-CceeEECCCCCCCCCCCccCCCCccccccccCC
Q 020080 225 LHTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMK-CNIWVYCPAETGCHSPDKYEHKYQECWLKYAEK 298 (331)
Q Consensus 225 ~htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~-CNvWV~C~~~~GC~spd~y~~~~geCWLK~~~~ 298 (331)
.+..+.|.++ ..+.+.|..+|.+.|... .. |-.|.|-... +.|=|+....
T Consensus 8 ~~~~l~~~~~---~~~~v~s~~~C~~~C~~~--------~~~C~s~~y~~~~-------------~~C~L~~~~~ 58 (79)
T PF00024_consen 8 PGYRLSGHSI---KEINVPSLEECAQLCLNE--------PRRCKSFNYDPSS-------------KTCYLSSSDR 58 (79)
T ss_dssp EEEEEESCEE---EEEEESSHHHHHHHHHHS--------TT-ESEEEEETTT-------------TEEEEECSSS
T ss_pred CCEEEeCCcc---eEEcCCCHHHHHhhcCcC--------cccCCeEEEECCC-------------CEEEEcCCCC
Confidence 4555666544 233678999999999983 34 9999998873 6888886643
No 6
>PF05250 UPF0193: Uncharacterised protein family (UPF0193); InterPro: IPR007914 This family of proteins is functionally uncharacterised.
Probab=67.07 E-value=9.7 Score=36.09 Aligned_cols=39 Identities=21% Similarity=0.354 Sum_probs=29.3
Q ss_pred HHHHHHH--HhhhcccccccccHHHHhHHHHHHHHHhhhcc
Q 020080 84 KLVNGLK--QEFSRDESVFELPRAVKLRMIDEILRRLQSSD 122 (331)
Q Consensus 84 krVKei~--~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~ 122 (331)
+.|+||+ .||..+-..-..-+.-+.-|-.||+|||+.|.
T Consensus 155 elv~EI~ER~efL~eMe~LG~gk~yr~~I~~EIsqrlrele 195 (212)
T PF05250_consen 155 ELVQEIEERREFLAEMEALGQGKKYRGIILTEISQRLRELE 195 (212)
T ss_pred HHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHH
Confidence 4566765 46666555555666789999999999999994
No 7
>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]
Probab=65.24 E-value=9.9 Score=39.35 Aligned_cols=78 Identities=19% Similarity=0.233 Sum_probs=52.8
Q ss_pred ccCHHHHHHHHHH--HHHHhccCcHHHHHHHHHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcccCCChhHHHHHHH
Q 020080 58 KYTPDQIRNMEES--VRIRSDNEPMALVKLVNGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSDVKGNVSAQREAVE 135 (331)
Q Consensus 58 ~y~~~Qlr~ieES--~riRra~ePveLIkrVKei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~~~sn~~~qrealE 135 (331)
+|+.|++|+++|. ++||+...---|-|| +.| ++.++...+-.-.++|+.-.|+-|-+++|. +.++.+|-+|+-
T Consensus 19 ~f~adelRr~ReeQQvElRkqKreE~LnKr-RNl---~dv~e~a~ss~i~meqq~~~elp~lt~~l~-SdDie~q~qav~ 93 (526)
T COG5064 19 RFSADELRRRREEQQVELRKQKREELLNKR-RNL---ADVSEEAESSFIPMEQQFYSELPQLTQQLF-SDDIEQQLQAVY 93 (526)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccc---ccccchhhhccCchhHHhhhhhHHHHHHHh-hhHHHHHHHHHH
Confidence 4899999999886 566766554333333 333 233333222224568888889999999994 678888889999
Q ss_pred HHHHH
Q 020080 136 SWRRE 140 (331)
Q Consensus 136 ~WRke 140 (331)
+.|+-
T Consensus 94 kFR~~ 98 (526)
T COG5064 94 KFRKL 98 (526)
T ss_pred HHHHH
Confidence 88763
No 8
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=61.45 E-value=88 Score=27.33 Aligned_cols=25 Identities=16% Similarity=0.369 Sum_probs=21.1
Q ss_pred eeeccchhhHHHHHHHHHHHHHHhhh
Q 020080 18 CSYKKTTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 18 cSyKraTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.++. .|+++-++|.++.+|+|.-++
T Consensus 19 ~~~n-~t~~~~~inFliL~~lL~k~l 43 (156)
T CHL00118 19 FDFN-ATLPLMALQFLLLMVLLNIIL 43 (156)
T ss_pred cccc-hHHHHHHHHHHHHHHHHHHHH
Confidence 5665 899999999999999997755
No 9
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=54.13 E-value=41 Score=31.66 Aligned_cols=67 Identities=27% Similarity=0.375 Sum_probs=39.3
Q ss_pred ccCcHHHHHHHHHHHHhhhccc-ccccccHHHH-----------hHHHHHHHHHhhhcccCCC--hhHHHH--------H
Q 020080 76 DNEPMALVKLVNGLKQEFSRDE-SVFELPRAVK-----------LRMIDEILRRLQSSDVKGN--VSAQRE--------A 133 (331)
Q Consensus 76 a~ePveLIkrVKei~~E~~~e~-~~~~lp~~~k-----------Qk~a~ei~qRL~dl~~~sn--~~~qre--------a 133 (331)
.++-+.|-+.|.+++++.+.=+ +..+|+..+. .|....-.+||++|++..| .-+-++ +
T Consensus 85 d~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~y~~~ 164 (201)
T KOG4603|consen 85 DGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREYQKY 164 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHH
Confidence 3455678888888888765422 2333433321 1334456789999998877 112222 5
Q ss_pred HHHHHHHHH
Q 020080 134 VESWRREKL 142 (331)
Q Consensus 134 lE~WRkeKL 142 (331)
.-+|||+|=
T Consensus 165 ~~~wrk~kr 173 (201)
T KOG4603|consen 165 CKEWRKRKR 173 (201)
T ss_pred HHHHHHHHH
Confidence 667887764
No 10
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=51.93 E-value=59 Score=29.33 Aligned_cols=20 Identities=15% Similarity=0.441 Sum_probs=12.0
Q ss_pred chhhHHHHHHHHHHHHHHhh
Q 020080 23 TTLIICFINIVIALYVLRSI 42 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl 42 (331)
.+++..++|+++.+|+|.-+
T Consensus 32 ~q~~~~lI~F~iL~~ll~k~ 51 (181)
T PRK13454 32 NQIFWLLVTLVAIYFVLTRV 51 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 35555666776666666443
No 11
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 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. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=50.52 E-value=1.4e+02 Score=24.44 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=18.5
Q ss_pred hhhHHHHHHHHHHHHHHhhhhc
Q 020080 24 TLIICFINIVIALYVLRSIYAS 45 (331)
Q Consensus 24 Tv~vC~~Ni~~aL~vL~sl~ss 45 (331)
||++-++|.++.+|+|.-++-+
T Consensus 1 tl~~~~i~Flil~~~l~~~~~~ 22 (132)
T PF00430_consen 1 TLFWQLINFLILFFLLNKFLYK 22 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHTHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHH
Confidence 7889999999999999886643
No 12
>PF14719 PID_2: Phosphotyrosine interaction domain (PTB/PID)
Probab=46.69 E-value=31 Score=31.91 Aligned_cols=46 Identities=20% Similarity=0.137 Sum_probs=30.0
Q ss_pred HhHHHHHHHHHhhhcccCCChhHHHHHHHHHHHHHHHHHHhhhhcc--cCccccch
Q 020080 107 KLRMIDEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQLSIGR--QGINSTIL 160 (331)
Q Consensus 107 kQk~a~ei~qRL~dl~~~sn~~~qrealE~WRkeKLe~ak~r~~~k--~gsns~~~ 160 (331)
|...|.+|.-+|..- -+.|+++|+++|..+-+++.+.. ..++.+++
T Consensus 104 k~~~Akama~~L~~a--------f~~Af~~~kr~k~~~~~~~l~~~~s~~~~p~~p 151 (182)
T PF14719_consen 104 KEEKAKAMARALYQA--------FRSAFQEFKRDKRSRQNARLSLGNSVYSNPTMP 151 (182)
T ss_pred CHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhhchhccccCCCCCh
Confidence 455666777666543 24799999999999766654434 23355544
No 13
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=45.43 E-value=1.6e+02 Score=24.35 Aligned_cols=34 Identities=0% Similarity=-0.159 Sum_probs=28.1
Q ss_pred cc-ccCHHHHHHHHHHHHHHhccCcHHHHHHHHHH
Q 020080 56 VV-KYTPDQIRNMEESVRIRSDNEPMALVKLVNGL 89 (331)
Q Consensus 56 ~~-~y~~~Qlr~ieES~riRra~ePveLIkrVKei 89 (331)
+. .|++++++++.--...|..=-|++-|+.+-++
T Consensus 35 g~R~Y~~~~l~~l~~I~~lr~~G~~l~~I~~~l~~ 69 (107)
T cd01111 35 GYGLFDDCALQRLRFVRAAFEAGIGLDELARLCRA 69 (107)
T ss_pred CCeecCHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 44 49999999999999999988898888666554
No 14
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=42.19 E-value=1.3e+02 Score=26.07 Aligned_cols=21 Identities=14% Similarity=0.365 Sum_probs=18.1
Q ss_pred chhhHHHHHHHHHHHHHHhhh
Q 020080 23 TTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.|+++-++|.++.+|+|.-++
T Consensus 8 ~~~~~qli~Flil~~~l~kfl 28 (141)
T PRK08476 8 YLMLATFVVFLLLIVILNSWL 28 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999999997765
No 15
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.81 E-value=14 Score=28.21 Aligned_cols=20 Identities=40% Similarity=1.044 Sum_probs=15.9
Q ss_pred eEECCCCCCCCCCCccCCCCcccccccc
Q 020080 269 WVYCPAETGCHSPDKYEHKYQECWLKYA 296 (331)
Q Consensus 269 WV~C~~~~GC~spd~y~~~~geCWLK~~ 296 (331)
=|.||+ |++| -|++||.+..
T Consensus 21 iVvCp~---Cgap-----yHR~C~~~~g 40 (54)
T PF14446_consen 21 IVVCPE---CGAP-----YHRDCWEKAG 40 (54)
T ss_pred EEECCC---CCCc-----ccHHHHhhCC
Confidence 378886 9987 5899998854
No 16
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=38.78 E-value=3.9e+02 Score=26.55 Aligned_cols=106 Identities=18% Similarity=0.174 Sum_probs=66.3
Q ss_pred CHHHHHHHHHH----HHHHhccCcHHHHHHHHHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcccCCChh--HHHHH
Q 020080 60 TPDQIRNMEES----VRIRSDNEPMALVKLVNGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSDVKGNVS--AQREA 133 (331)
Q Consensus 60 ~~~Qlr~ieES----~riRra~ePveLIkrVKei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~~~sn~~--~qrea 133 (331)
+.+.++.-||| +.+||+.+=-=|-.+.+-++.|+..+.+ ..+.|+..|.=-|.+.=+.|-|+. ..+.=
T Consensus 131 n~e~lk~QEes~~rqE~~Rr~Te~~i~~~r~~t~~~eaeL~~e------~~~~k~~AEa~gra~~eReN~Di~l~~l~~k 204 (276)
T PF12037_consen 131 NEELLKMQEESVIRQEQMRRATEEQILAQRRQTEEEEAELRRE------TERAKAEAEAEGRAKEERENEDINLEQLRLK 204 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhHhHHHHHHHHH
Confidence 45677777777 6788888765555555666666655433 345667777666777766666633 33333
Q ss_pred HHHHHHHHHHHHHhhhhcccCccccchHHHHHHHHHHHhhhHHHHHhhhc
Q 020080 134 VESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSEEIG 183 (331)
Q Consensus 134 lE~WRkeKLe~ak~r~~~k~gsns~~~~~e~~~l~~~~e~~w~~~~e~~g 183 (331)
.++=|+..|+-++.- .++ -+--.++|=+||+.|..-+|
T Consensus 205 a~e~R~t~lesI~t~----------f~~--lg~G~~~lltD~~kl~~~vg 242 (276)
T PF12037_consen 205 AEEERETVLESINTT----------FSH--LGEGFRALLTDRDKLTTTVG 242 (276)
T ss_pred HHHHHHHHHHHHHHH----------HHH--HHHHHHHHHhCHHHHHHHHH
Confidence 566677777776662 222 22234577788888877665
No 17
>PRK10236 hypothetical protein; Provisional
Probab=34.81 E-value=57 Score=31.63 Aligned_cols=72 Identities=21% Similarity=0.162 Sum_probs=46.0
Q ss_pred hHHHHHHHHHhhhcccCCChhHHHHHHHHHHHHHHHHHHhhhhcc-cCccccchHHHHHHHHHHHhhhHHHHHhh
Q 020080 108 LRMIDEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQLSIGR-QGINSTILQEEARMLVRVLESDWAALSEE 181 (331)
Q Consensus 108 Qk~a~ei~qRL~dl~~~sn~~~qrealE~WRkeKLe~ak~r~~~k-~gsns~~~~~e~~~l~~~~e~~w~~~~e~ 181 (331)
++-.+.|.+||+-|+.|+-+.-.|+-=.++|. =|.+|=+.--.+ +...|+.. =|+.+|.+.++.-|+.+.+|
T Consensus 60 ~~yw~~Ia~elq~fGgnt~~n~lRG~Gv~Yre-IL~DVc~~LKV~y~~~~st~~-iE~~il~kll~~a~~kms~e 132 (237)
T PRK10236 60 RRNWQLIAGELQHFGGDSIANKLRGHGKLYRA-ILLDVSKRLKLKADKEMSTFE-IEQQLLEQFLRNTWKKMDEE 132 (237)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHhcCCccHHH-HHHHHHHHcCCCCCCCCCHHH-HHHHHHHHHHHHHHHHCCHH
Confidence 45567999999999977766566642226654 344433323333 33344444 48899999999999876554
No 18
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=34.18 E-value=3.2e+02 Score=23.83 Aligned_cols=21 Identities=19% Similarity=0.143 Sum_probs=18.1
Q ss_pred chhhHHHHHHHHHHHHHHhhh
Q 020080 23 TTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.|++.-++|.++.+|+|.-++
T Consensus 9 ~~~~~~~i~Flil~~ll~~~l 29 (164)
T PRK14471 9 GLFFWQTILFLILLLLLAKFA 29 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 589999999999999996655
No 19
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=33.76 E-value=54 Score=26.16 Aligned_cols=41 Identities=27% Similarity=0.336 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhccC------------cHHHHHHHHHHHHhhhcccccccccHHHHhHH
Q 020080 64 IRNMEESVRIRSDNE------------PMALVKLVNGLKQEFSRDESVFELPRAVKLRM 110 (331)
Q Consensus 64 lr~ieES~riRra~e------------PveLIkrVKei~~E~~~e~~~~~lp~~~kQk~ 110 (331)
-.+-+...+|+.|.+ |.+||++|.++-++|- .||.+.|++.
T Consensus 11 ~~~~~~~~~l~~A~~~~GFf~l~nhGi~~~l~~~~~~~~~~fF------~lp~e~K~~~ 63 (116)
T PF14226_consen 11 ADREEVAEQLRDACEEWGFFYLVNHGIPQELIDRVFAAAREFF------ALPLEEKQKY 63 (116)
T ss_dssp HHHHHHHHHHHHHHHHTSEEEEESSSSSHHHHHHHHHHHHHHH------CSHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHhCCEEEEecccccchhhHHHHHHHHHHH------HhhHHHHHHh
Confidence 345556666666664 7799999999999987 5888999887
No 20
>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=32.85 E-value=2.2e+02 Score=25.03 Aligned_cols=65 Identities=17% Similarity=0.324 Sum_probs=33.5
Q ss_pred cCHHHHHHHHHHH-HHHhccCcHHHHHHHHHHHHhhhcccccccccHHHHhHH------HHHHHHHhhhcccCCC
Q 020080 59 YTPDQIRNMEESV-RIRSDNEPMALVKLVNGLKQEFSRDESVFELPRAVKLRM------IDEILRRLQSSDVKGN 126 (331)
Q Consensus 59 y~~~Qlr~ieES~-riRra~ePveLIkrVKei~~E~~~e~~~~~lp~~~kQk~------a~ei~qRL~dl~~~sn 126 (331)
.+++++..|..-+ ++|..+ -+|=..+|.++.|+..=... -.-.+++..+ ..++-.||..|++++.
T Consensus 69 ~s~eel~~ld~ei~~L~~el--~~l~~~~k~l~~eL~~L~~~-~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~ 140 (169)
T PF07106_consen 69 PSPEELAELDAEIKELREEL--AELKKEVKSLEAELASLSSE-PTNEELREEIEELEEEIEELEEKLEKLRSGSK 140 (169)
T ss_pred CCchhHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 5788888887553 222222 24445556666555542221 1112222222 3467778888887554
No 21
>PF09216 Pfg27: Pfg27; InterPro: IPR015299 Members of this family are essential for gametocytogenesis in Plasmodium falciparum. They contain a fold composed of two pseudo dyad-related repeats of the helix-turn-helix motif, serving as a platform for RNA and Src homology-3 (SH3) binding []. ; PDB: 1N81_A.
Probab=32.84 E-value=75 Score=29.62 Aligned_cols=36 Identities=19% Similarity=0.248 Sum_probs=24.5
Q ss_pred HHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcccCCC
Q 020080 87 NGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSDVKGN 126 (331)
Q Consensus 87 Kei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~~~sn 126 (331)
.|=|++.. -..||.++|-.+|.-||.||+|+...-.
T Consensus 58 ~knqn~~~----~f~lp~ei~dsmalRISdRLr~ycfdk~ 93 (186)
T PF09216_consen 58 YKNQNKYN----NFRLPFEIRDSMALRISDRLRDYCFDKE 93 (186)
T ss_dssp HHHHHHTT---------HHHHHHHHHHHHHHHHHHHSSS-
T ss_pred HHhhhhhh----hhcCcHHHHHHHHHHHHHHHHHHHccch
Confidence 44455443 2579999999999999999999987655
No 22
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=32.83 E-value=1.6e+02 Score=23.29 Aligned_cols=39 Identities=13% Similarity=0.299 Sum_probs=31.9
Q ss_pred ccccCHHHHHHHHHHHHHHhccC--------cHHHHHHHHHHHHhhh
Q 020080 56 VVKYTPDQIRNMEESVRIRSDNE--------PMALVKLVNGLKQEFS 94 (331)
Q Consensus 56 ~~~y~~~Qlr~ieES~riRra~e--------PveLIkrVKei~~E~~ 94 (331)
...|+++++.+++-..|+++.++ =++|+++|..|++|..
T Consensus 34 ~~~f~~~~l~rl~~~~rL~~Dl~in~~gi~lil~LLd~i~~L~~el~ 80 (84)
T PF13591_consen 34 EWYFSEEDLARLRRIRRLHRDLGINLEGIALILDLLDRIEQLRRELR 80 (84)
T ss_pred eeeECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 44599999999999999999876 2577888888887764
No 23
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=32.42 E-value=2.5e+02 Score=24.95 Aligned_cols=21 Identities=19% Similarity=0.452 Sum_probs=18.3
Q ss_pred chhhHHHHHHHHHHHHHHhhh
Q 020080 23 TTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.|+++-++|+++.+|+|.-++
T Consensus 19 ~t~~~~iInFliL~~lL~~~l 39 (173)
T PRK13453 19 GTVIVTVLTFIVLLALLKKFA 39 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999997655
No 24
>PF12004 DUF3498: Domain of unknown function (DUF3498); InterPro: IPR021887 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 433 to 538 amino acids in length. This domain is found associated with PF00616 from PFAM, PF00168 from PFAM. This domain has two conserved sequence motifs: DLQ and PLSFQNP. ; PDB: 3BXJ_B.
Probab=30.13 E-value=17 Score=38.34 Aligned_cols=46 Identities=17% Similarity=0.330 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcccCCC
Q 020080 81 ALVKLVNGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSDVKGN 126 (331)
Q Consensus 81 eLIkrVKei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~~~sn 126 (331)
.+|.|+.-.|.|+.+|...+.+..+.||+|+++=-+|+..|++-|.
T Consensus 437 sII~RL~~vEeELrre~~~m~~~~~~kqrii~aQ~~~i~~Ldaan~ 482 (495)
T PF12004_consen 437 SIISRLMAVEEELRREHAEMQAVLDHKQRIIDAQEKRIAALDAANS 482 (495)
T ss_dssp ----------------------------------------------
T ss_pred HHHhhhhhhhhhhhhhHHHHhcccccchHHHHHhhhhccccccccc
Confidence 4788999999999999998889999999999999999999986554
No 25
>PF00540 Gag_p17: gag gene protein p17 (matrix protein); InterPro: IPR000071 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from immunodeficiency lentiviruses, such as Human immunodeficiency virus (HIV) and Simian immunodeficiency virus (SIV-cpz) []. The structure of the HIV protein consists of 5 alpha helices, a short 3.10 helix and a 3-stranded mixed beta-sheet [].; GO: 0005198 structural molecule activity; PDB: 2JMG_A 1L6N_A 2NV3_A 1ED1_A 1ECW_A 2C7U_C 2H3F_A 1HIW_S 2H3V_A 2H3I_A ....
Probab=29.33 E-value=57 Score=29.33 Aligned_cols=33 Identities=27% Similarity=0.401 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHHHHHhhhhcccccccCCccccccCHHHHHHHHHH
Q 020080 26 IICFINIVIALYVLRSIYASIYVFSRNDLKVVKYTPDQIRNMEES 70 (331)
Q Consensus 26 ~vC~~Ni~~aL~vL~sl~ss~~~~s~~~~~~~~y~~~Qlr~ieES 70 (331)
+--+||+|++||.+|.=. -|+.|.|=+.+|||-
T Consensus 74 LkSL~NtvavLyCVH~~i------------~VkDTkEAl~kvee~ 106 (140)
T PF00540_consen 74 LKSLFNTVAVLYCVHQRI------------EVKDTKEALDKVEEE 106 (140)
T ss_dssp HHHHHHHHHHHHHHHTT---------------SBHHHHHHHHHHH
T ss_pred cchhhhccceeEEEecCc------------ccccHHHHHHHHHHH
Confidence 456899999999999733 455677777777664
No 26
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=29.14 E-value=2e+02 Score=32.05 Aligned_cols=93 Identities=14% Similarity=0.211 Sum_probs=56.1
Q ss_pred chhhHHHHHHHHHHHHHHhhhhcccccccCCccccccCHHHHHHHHHHH-HHHhccCcHHHHHHHHHHHHhhhcc-----
Q 020080 23 TTLIICFINIVIALYVLRSIYASIYVFSRNDLKVVKYTPDQIRNMEESV-RIRSDNEPMALVKLVNGLKQEFSRD----- 96 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ss~~~~s~~~~~~~~y~~~Qlr~ieES~-riRra~ePveLIkrVKei~~E~~~e----- 96 (331)
.+|++|++|++...|+.-+..+ ++.+...+ +.+==.+|+..+ =||+-..|-+|=+||.+-+|=-...
T Consensus 324 Fsi~~mi~GllL~A~lIGNmt~--~iqs~tsR-----~~~~r~k~rd~e~~m~~~~LP~~LRqRi~~y~q~kw~~t~Gvd 396 (727)
T KOG0498|consen 324 FSIFIMLFGLLLFAYLIGNMTA--LLQSLTSR-----TEEMRDKMRDAEQWMSRRQLPPDLRQRIRRYEQYKWLATRGVD 396 (727)
T ss_pred HHHHHHHHhHHHHHHHHhhHHH--hHHHHhHH-----HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHhhccCcC
Confidence 4788889998877776655332 22221101 111112333333 3778889999999999988755544
Q ss_pred --cccccccHHHHhHHH----HHHHHHhhhcc
Q 020080 97 --ESVFELPRAVKLRMI----DEILRRLQSSD 122 (331)
Q Consensus 97 --~~~~~lp~~~kQk~a----~ei~qRL~dl~ 122 (331)
+--..||++++..|+ .+|++|.-=|.
T Consensus 397 ee~lL~~LP~~LR~dI~~hL~~~lv~~vpLF~ 428 (727)
T KOG0498|consen 397 EEELLQSLPKDLRRDIKRHLCLDLVRKVPLFA 428 (727)
T ss_pred HHHHHHhCCHHHHHHHHHHHhHHHHhhCchhh
Confidence 124578888877776 45666655554
No 27
>PF12669 P12: Virus attachment protein p12 family
Probab=29.14 E-value=46 Score=25.31 Aligned_cols=20 Identities=35% Similarity=0.494 Sum_probs=13.1
Q ss_pred hhhHHHHHHHHHHHHH-Hhhh
Q 020080 24 TLIICFINIVIALYVL-RSIY 43 (331)
Q Consensus 24 Tv~vC~~Ni~~aL~vL-~sl~ 43 (331)
||||-++=+++++|++ |.++
T Consensus 1 tiII~~Ii~~~~~~v~~r~~~ 21 (58)
T PF12669_consen 1 TIIIGIIILAAVAYVAIRKFI 21 (58)
T ss_pred CeeHHHHHHHHHHHHHHHHHH
Confidence 5667766666666664 7766
No 28
>KOG2470 consensus Similar to IMP-GMP specific 5'-nucleotidase [Nucleotide transport and metabolism]
Probab=28.30 E-value=92 Score=32.57 Aligned_cols=35 Identities=23% Similarity=0.541 Sum_probs=27.3
Q ss_pred HHHhHHHHHHHHHhhhcccCCChhHHHHHHHHHHHHHHH
Q 020080 105 AVKLRMIDEILRRLQSSDVKGNVSAQREAVESWRREKLE 143 (331)
Q Consensus 105 ~~kQk~a~ei~qRL~dl~~~sn~~~qrealE~WRkeKLe 143 (331)
..++.+..+|+.|.++-+ +.+.|. .|.+|.+|+-|
T Consensus 394 ~~w~q~lt~Ller~q~~r---seasq~-~L~ew~~eRq~ 428 (510)
T KOG2470|consen 394 QTWLQILTGLLERMQAQR---SEASQS-VLDEWMKERQE 428 (510)
T ss_pred HHHHHHHHHHHHHHHhhh---hHHHHH-HHHHHHHHHHH
Confidence 467888899999999844 456666 99999998754
No 29
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=27.76 E-value=4.8e+02 Score=23.95 Aligned_cols=25 Identities=24% Similarity=0.279 Sum_probs=18.0
Q ss_pred HHHHHhhhHHHHHhhhcccccceee
Q 020080 167 LVRVLESDWAALSEEIGLWIPTEII 191 (331)
Q Consensus 167 l~~~~e~~w~~~~e~~g~~~p~~~~ 191 (331)
|...+..-=..+..++-.|.|.+-+
T Consensus 138 l~~~l~~~r~~l~~~l~~ifpI~~~ 162 (302)
T PF10186_consen 138 LQSQLARRRRQLIQELSEIFPIEQV 162 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHhCceee
Confidence 4455555566778888889999766
No 30
>COG3109 ProQ Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]
Probab=26.31 E-value=83 Score=29.76 Aligned_cols=32 Identities=19% Similarity=0.425 Sum_probs=27.2
Q ss_pred HHHhHHHHHHHHHhhhcccCCChhHHHHHHHHH
Q 020080 105 AVKLRMIDEILRRLQSSDVKGNVSAQREAVESW 137 (331)
Q Consensus 105 ~~kQk~a~ei~qRL~dl~~~sn~~~qrealE~W 137 (331)
.+|+-|-.|+.+||.|+. +-..+++|+||--|
T Consensus 33 PLKiGifQDl~e~lq~d~-~vSktQLrqAlr~y 64 (208)
T COG3109 33 PLKIGIFQDLAERLQDDE-NVSKTQLRQALRLY 64 (208)
T ss_pred chhhhHHHHHHHHHhccc-cccHHHHHHHHHHH
Confidence 789999999999999995 56677889898654
No 31
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=26.19 E-value=5.1e+02 Score=28.16 Aligned_cols=64 Identities=14% Similarity=0.109 Sum_probs=30.0
Q ss_pred ccCHHHHHHHHHHHH-HHhccCc-HHHHHHHHHHHHhhhccccc----ccccHHHHhHHHHHHHHHhhhc
Q 020080 58 KYTPDQIRNMEESVR-IRSDNEP-MALVKLVNGLKQEFSRDESV----FELPRAVKLRMIDEILRRLQSS 121 (331)
Q Consensus 58 ~y~~~Qlr~ieES~r-iRra~eP-veLIkrVKei~~E~~~e~~~----~~lp~~~kQk~a~ei~qRL~dl 121 (331)
.++++||++|.+..+ -+.+-++ -++++...+.+.-+++-+.. ..++.+-|+++-..|.+--+-|
T Consensus 526 ~ls~~~i~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 595 (657)
T PTZ00186 526 GLSKEQIEQMIRDSEQHAEADRVKRELVEVRNNAETQLTTAERQLGEWKYVSDAEKENVKTLVAELRKAM 595 (657)
T ss_pred cCCHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHHHHH
Confidence 489999988854433 3222222 23333444444444433221 1355565555544443333334
No 32
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=25.87 E-value=3.8e+02 Score=23.62 Aligned_cols=23 Identities=9% Similarity=0.073 Sum_probs=14.0
Q ss_pred chhhHHHHHHHHHHHHH---Hhhhhc
Q 020080 23 TTLIICFINIVIALYVL---RSIYAS 45 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL---~sl~ss 45 (331)
.|++.-++|+++.+++| +.+|-|
T Consensus 9 ~~~~w~~i~f~il~~iL~~~k~l~~p 34 (167)
T PRK14475 9 NPEFWVGAGLLIFFGILIALKVLPKA 34 (167)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 35555667877777666 445544
No 33
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=25.56 E-value=3.7e+02 Score=27.78 Aligned_cols=21 Identities=14% Similarity=0.343 Sum_probs=17.6
Q ss_pred chhhHHHHHHHHHHHHHHhhh
Q 020080 23 TTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.||+.-++|+++.+|+|.-++
T Consensus 2 ~t~i~qlInFlIl~~lL~kfl 22 (445)
T PRK13428 2 STFIGQLIGFAVIVFLVWRFV 22 (445)
T ss_pred cHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999986654
No 34
>KOG3170 consensus Conserved phosducin-like protein [Signal transduction mechanisms]
Probab=25.21 E-value=53 Score=31.74 Aligned_cols=58 Identities=17% Similarity=0.278 Sum_probs=37.6
Q ss_pred hhhcccCCChhHHHHHHHHHHHHHHHHHHhhhh-cccCccccchHHH-HHHHHHHHhhhHH
Q 020080 118 LQSSDVKGNVSAQREAVESWRREKLEEAKQLSI-GRQGINSTILQEE-ARMLVRVLESDWA 176 (331)
Q Consensus 118 L~dl~~~sn~~~qrealE~WRkeKLe~ak~r~~-~k~gsns~~~~~e-~~~l~~~~e~~w~ 176 (331)
|-+|.+--|....| +||..|+++|.+.|..+. .|-|+..-||..| .+-+-+|.+..|.
T Consensus 55 LeelEDded~dDer-fLE~YR~kRl~E~r~~~~k~kfG~V~~ISg~dyv~EVT~As~gvwV 114 (240)
T KOG3170|consen 55 LEELEDDEDSDDER-FLEMYRIKRLAEWRATAEKAKFGEVFPISGPDYVKEVTKASEGVWV 114 (240)
T ss_pred HHHhhhcccccHHH-HHHHHHHHHHHHHHHHHHHhcccceeeccchHHHHHHHhccCccEE
Confidence 34444444444555 899999999999988443 3368888888754 3445566664443
No 35
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=23.84 E-value=5.2e+02 Score=23.01 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=18.0
Q ss_pred eeeccchhhHHHHHHHHHHHHHHhh
Q 020080 18 CSYKKTTLIICFINIVIALYVLRSI 42 (331)
Q Consensus 18 cSyKraTv~vC~~Ni~~aL~vL~sl 42 (331)
..+..+++ +-++|+++.+++|.-+
T Consensus 23 ~~~~~t~~-~~~inflil~~iL~~f 46 (184)
T PRK13455 23 FSLSNTDF-VVTLAFLLFIGILVYF 46 (184)
T ss_pred CCCcchHH-HHHHHHHHHHHHHHHH
Confidence 56665555 5689999999999665
No 36
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=23.80 E-value=2.3e+02 Score=30.67 Aligned_cols=55 Identities=20% Similarity=0.364 Sum_probs=36.6
Q ss_pred hHHHHHHHHHhhhcccCCC--hhHHHHHHHHHHHHHHHHHHhhhhcccCccccchHHH
Q 020080 108 LRMIDEILRRLQSSDVKGN--VSAQREAVESWRREKLEEAKQLSIGRQGINSTILQEE 163 (331)
Q Consensus 108 Qk~a~ei~qRL~dl~~~sn--~~~qrealE~WRkeKLe~ak~r~~~k~gsns~~~~~e 163 (331)
.---.+|.+=|+|+++.-+ ...-|+.+|.|=+.|+.++|. ..+.+........||
T Consensus 241 ~~F~~eL~~Ai~eiRaqye~~~~~nR~diE~~Y~~kI~~i~~-~~~~~~~~~~~~rEE 297 (546)
T KOG0977|consen 241 EYFKNELALAIREIRAQYEAISRQNRKDIESWYKRKIQEIRT-SAERANVEQNYAREE 297 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh-hhccccchhHHHHHH
Confidence 3345667777888876544 445577899999999999996 444444444444444
No 37
>KOG4752 consensus Ribosomal protein L41 [Translation, ribosomal structure and biogenesis]
Probab=23.22 E-value=70 Score=21.09 Aligned_cols=13 Identities=23% Similarity=0.838 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHh
Q 020080 135 ESWRREKLEEAKQ 147 (331)
Q Consensus 135 E~WRkeKLe~ak~ 147 (331)
+.|||.+|.+.|.
T Consensus 3 ~kwrkkrmrrlkr 15 (26)
T KOG4752|consen 3 AKWRKKRMRRLKR 15 (26)
T ss_pred hHHHHHHHHHHHH
Confidence 5799998887654
No 38
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=23.04 E-value=2.7e+02 Score=33.39 Aligned_cols=54 Identities=26% Similarity=0.268 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhccCcHHHHHHHHHHHH----------hhhcccccccc--cHHHHhHHHHHHHHHhhhcc
Q 020080 64 IRNMEESVRIRSDNEPMALVKLVNGLKQ----------EFSRDESVFEL--PRAVKLRMIDEILRRLQSSD 122 (331)
Q Consensus 64 lr~ieES~riRra~ePveLIkrVKei~~----------E~~~e~~~~~l--p~~~kQk~a~ei~qRL~dl~ 122 (331)
..+|++|++.=+ .||+.|+++.. |+..+.-..++ ..+--|.++.+|-.|+.+|.
T Consensus 1463 ~~q~~~s~~el~-----~Li~~v~~Flt~~~adp~si~~vA~~vL~l~lp~tpeqi~~L~~~I~e~v~sL~ 1528 (1758)
T KOG0994|consen 1463 RSQMEESNRELR-----NLIQQVRDFLTQPDADPDSIEEVAEEVLALELPLTPEQIQQLTGEIQERVASLP 1528 (1758)
T ss_pred HHHHHHHHHHHH-----HHHHHHHHHhcCCCCCHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhcc
Confidence 456777765433 57888876532 22222222233 34446788999999999995
No 39
>PF06303 MatP: Organiser of macrodomain of Terminus of chromosome; InterPro: IPR009390 Many bacteria have circular genomes that are large in comparison to their cellular dimensions; this imposes the necessity for compaction of the chromosome during cellular growth, replication, transcription, and segregation. Compaction of chromosomes results in the formation of structures called nucleoids. Nucleoids can be generated by a number of different processes: they include unrestrained DNA supercoiling, formation of a chromatin-like structure through the interaction of DNA binding proteins, condensation by structural maintenance of chromosomes (SMC)-like proteins, and macromolecular crowding []. Chromosome replication and segregation are intimately linked and tightly controlled to ensure that daughter cells each receive a complete copy of the genome. Chromosomes have replication origin (Ori) and termination (Ter) regions that are diametrically opposed. During the process of chromosome replication and cell division the Ori and Ter regions form two macrodomains (MDs), the Ori MD is centred on migS, a 25 bp sequence, that acts as the cis-acting site for the bipolar positioning of oriC []. The Ter MD is centred on dif (deletion-induced filamentation), which is a resolvase site that reduces chromosome multimers to monomers []. The Ori and Ter MDs are insulated from one and other by non-structural regions and other nucleoids. Chromosome replication initiates bidirectionally from oriC. Within the Ori MD with sister chromatids being located in separate cell halves and with the Ter macrodomain anchored to the cell pole. Cell division occurs with the completion of replication of the Ter region and the subsequent separation of the two sister chromatids [, ]. This entry contains MatP (YcbG), which is a component of the MatP/MatS site-specific system that organises the Ter macrodomain (MD) in Escherichia coli (strain K12) and related enterobacteria during replication of the chromosome. In E. coli there are 23 matS sequences, located in the Ter region which is centred on dif. The matS consensus is a palindromic sequence 5'-GTGAC[AG][CT]GTCAC, which is the recognition sequence for MatP. MatP binds to the matS sequences; and is critical for Ter MD formation. Inactivation of matP causes severe defects in chromosome segregation and cell division revealing its role as a major organiser of the Ter MD [].
Probab=23.03 E-value=59 Score=29.58 Aligned_cols=64 Identities=9% Similarity=0.193 Sum_probs=35.5
Q ss_pred cCHHHHHHHHHHHHHHhccC--cHHHHHHHHHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcc
Q 020080 59 YTPDQIRNMEESVRIRSDNE--PMALVKLVNGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSD 122 (331)
Q Consensus 59 y~~~Qlr~ieES~riRra~e--PveLIkrVKei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~ 122 (331)
.+|+|..+|+-+||.||.=- -=..-.+.|-|..++..=..-..+.+...-++++-|.++|.+-.
T Consensus 62 m~~~l~nklkQaIRArRkR~fnae~~~t~kKSIDLey~vW~rLS~lA~~~g~TLSEtI~~li~e~e 127 (148)
T PF06303_consen 62 MNPELWNKLKQAIRARRKRHFNAEHQHTRKKSIDLEYRVWQRLSALAQRRGMTLSETIEYLIEEAE 127 (148)
T ss_pred CCHHHHHHHHHHHHHHHHhhccccccCCCcceeeecHHHHHHHHHHHHHcCCcHHHHHHHHHHhHH
Confidence 79999999999999998521 00001112333333332222223333444567777777777654
No 40
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=22.84 E-value=2.8e+02 Score=25.87 Aligned_cols=14 Identities=36% Similarity=0.871 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHh
Q 020080 134 VESWRREKLEEAKQ 147 (331)
Q Consensus 134 lE~WRkeKLe~ak~ 147 (331)
|.+|-++|+|+||+
T Consensus 64 l~E~iekkieeaR~ 77 (175)
T COG4741 64 LKEWIEKKIEEARE 77 (175)
T ss_pred HHHHHHHHHHHHHH
Confidence 89999999999999
No 41
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=22.50 E-value=1.5e+02 Score=27.92 Aligned_cols=24 Identities=38% Similarity=0.652 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhhhcccCccccchHHHHHHHHHHHhhhHHHHHh
Q 020080 138 RREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSE 180 (331)
Q Consensus 138 RkeKLe~ak~r~~~k~gsns~~~~~e~~~l~~~~e~~w~~~~e 180 (331)
-+||||++|| ++..+..|++.|.|
T Consensus 63 LkEKmeEIKQ-------------------IKdiMDKDFDKL~E 86 (205)
T PF15079_consen 63 LKEKMEEIKQ-------------------IKDIMDKDFDKLHE 86 (205)
T ss_pred HHHHHHHHHH-------------------HHHHHhhhHHHHHH
Confidence 4899999999 77788888888877
No 42
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=22.44 E-value=1.1e+02 Score=27.30 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=12.9
Q ss_pred HHHhHHHHHHHHHhhhcc
Q 020080 105 AVKLRMIDEILRRLQSSD 122 (331)
Q Consensus 105 ~~kQk~a~ei~qRL~dl~ 122 (331)
.++-++.+|+.+||.=|-
T Consensus 61 ~~~kr~~~D~~KRL~iLf 78 (157)
T PF07304_consen 61 SIKKRVVDDIEKRLNILF 78 (157)
T ss_dssp TS-HHHHHHHHHHHHHHH
T ss_pred ccchhHHHHHHHHHHHHH
Confidence 344466789999998874
No 43
>PF06286 Coleoptericin: Coleoptericin; InterPro: IPR009382 This family consists of several insect coleoptericin, acaloleptin, holotricin and rhinocerosin proteins which are all known to be antibacterial proteins []. These all appear to be short, glycine-rich molecules, inducible by infection.; GO: 0042742 defense response to bacterium, 0005576 extracellular region
Probab=22.37 E-value=79 Score=28.37 Aligned_cols=69 Identities=13% Similarity=0.149 Sum_probs=34.2
Q ss_pred chhhHHHHHHHHHHHHHHhhhhcccccccCC---ccccccCHHHHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 020080 23 TTLIICFINIVIALYVLRSIYASIYVFSRND---LKVVKYTPDQIRNMEESVRIRSDNEPMALVKLVNGLKQ 91 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ss~~~~s~~~---~~~~~y~~~Qlr~ieES~riRra~ePveLIkrVKei~~ 91 (331)
..|+.|||-|.+|+.|=-..|-.-|-....- |.+-..++.+++--..--.---+-+|+++|+.-+-||-
T Consensus 4 l~i~~~lia~saay~vP~~yy~~~y~~~~~~~~~r~~~~~~PaE~~~~~~~~de~~~em~~~~ir~rRSLQp 75 (143)
T PF06286_consen 4 LYIIFGLIALSAAYAVPEEYYEPDYPPDAQYRLRRSEPQDSPAELNEYVDITDEPEAEMPYEYIRERRSLQP 75 (143)
T ss_pred EeeehhHHHHHHhhcccHhhcCCCCCcchhhhhhcccccCChHHhhhccccccCcchhhhHHHHHHHhccCC
Confidence 4578899999987666665666533332111 22223555555433300000112245666655555554
No 44
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=22.30 E-value=1.7e+02 Score=27.71 Aligned_cols=67 Identities=22% Similarity=0.260 Sum_probs=40.0
Q ss_pred HHHHhHHHHHHHHHhhhcccCC--ChhHHHHHHHHHHHHHHHHHHhhhhcccCccccchHHHHHHHHHHH
Q 020080 104 RAVKLRMIDEILRRLQSSDVKG--NVSAQREAVESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVL 171 (331)
Q Consensus 104 ~~~kQk~a~ei~qRL~dl~~~s--n~~~qrealE~WRkeKLe~ak~r~~~k~gsns~~~~~e~~~l~~~~ 171 (331)
.++++.-..||..-|++++.-- .+..-++-++.|=+.|++++++ ...++.....-..+|...+.+.+
T Consensus 157 ~e~~~~~~~dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~-~~~~~~~~~~~~~~E~~~~r~~~ 225 (312)
T PF00038_consen 157 VEVDQFRSSDLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQ-QSEKSSEELESAKEELKELRRQI 225 (312)
T ss_dssp ----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eeecccccccchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccc-cccccccccchhHhHHHHHHhhh
Confidence 3455555677888888887433 2555666799999999999998 66665665555566655554443
No 45
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=21.35 E-value=1.5e+02 Score=28.89 Aligned_cols=35 Identities=43% Similarity=0.516 Sum_probs=28.0
Q ss_pred HHHHHHHHHhhhcccCCChhHHHHHHHHHHHHHHHHHHh
Q 020080 109 RMIDEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQ 147 (331)
Q Consensus 109 k~a~ei~qRL~dl~~~sn~~~qrealE~WRkeKLe~ak~ 147 (331)
.-.|+|-+||-+.-+ .++|++-+|.-|+.|||. +|
T Consensus 155 n~~D~L~Krl~~~~~---~~~~~~~~~~~~~k~~e~-~q 189 (272)
T COG5134 155 NFIDELNKRLWSDPF---VSSQRLRKQFRERKKIEK-KQ 189 (272)
T ss_pred hHHHHHHHHhhcCch---hhhHHHHHHHHHHhhhHH-HH
Confidence 457899999987754 567888899999999994 77
No 46
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=20.83 E-value=3.2e+02 Score=20.97 Aligned_cols=55 Identities=20% Similarity=0.291 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhcccCccccchHHHHHHHHHHHhhhHHHHHhhhcc
Q 020080 128 SAQREAVESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSEEIGL 184 (331)
Q Consensus 128 ~~qrealE~WRkeKLe~ak~r~~~k~gsns~~~~~e~~~l~~~~e~~w~~~~e~~g~ 184 (331)
.+|+.-|++|.+.-++-=|+ ..-+--..-.|+.|.|..++..++.......++ ||
T Consensus 3 ~~Qk~el~~l~~qm~e~kK~-~idk~Ve~G~iTqeqAd~ik~~id~~~~~~~qn-Gf 57 (59)
T PF10925_consen 3 DQQKKELKALYKQMLELKKQ-IIDKYVEAGVITQEQADAIKKHIDQRQEYMQQN-GF 57 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHc-CC
Confidence 35676788888877775444 666666677899999999999999988877665 44
No 47
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=20.80 E-value=3.1e+02 Score=30.04 Aligned_cols=51 Identities=14% Similarity=0.243 Sum_probs=32.0
Q ss_pred HHHHHH-HHHHhccCcHHHHHHHHHH-----HHhhhcccc-cccccHHHHhHHHHHHH
Q 020080 65 RNMEES-VRIRSDNEPMALVKLVNGL-----KQEFSRDES-VFELPRAVKLRMIDEIL 115 (331)
Q Consensus 65 r~ieES-~riRra~ePveLIkrVKei-----~~E~~~e~~-~~~lp~~~kQk~a~ei~ 115 (331)
++|... .-+++--.|..|-+||++- +.|...+.+ -..||+.+|.+++.++-
T Consensus 315 ~~~~~~~~ym~~~~lp~~lq~ri~~y~~~~~~~~~~~~~~~l~~Lp~~Lr~~i~~~l~ 372 (823)
T PLN03192 315 NSIEAASNFVGRNRLPPRLKDQILAYMCLRFKAESLNQQQLIDQLPKSICKSICQHLF 372 (823)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhccccHHHHHHHcCHHHHHHHHHHHH
Confidence 344443 4467788899999999883 112111111 34688888888887764
No 48
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=20.68 E-value=5.7e+02 Score=22.25 Aligned_cols=24 Identities=25% Similarity=0.494 Sum_probs=19.8
Q ss_pred eccchhhHHHHHHHHHHHHHHhhh
Q 020080 20 YKKTTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 20 yKraTv~vC~~Ni~~aL~vL~sl~ 43 (331)
+.-.||+.-++|+++.+++|.-++
T Consensus 6 ~~~~~~~~~~inflil~~lL~~fl 29 (164)
T PRK14473 6 INLGLLIAQLINFLLLIFLLRTFL 29 (164)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHH
Confidence 334588999999999999998866
No 49
>PTZ00438 gamete antigen 27/25-like protein; Provisional
Probab=20.63 E-value=1.5e+02 Score=29.93 Aligned_cols=27 Identities=26% Similarity=0.285 Sum_probs=24.4
Q ss_pred ccccHHHHhHHHHHHHHHhhhcccCCC
Q 020080 100 FELPRAVKLRMIDEILRRLQSSDVKGN 126 (331)
Q Consensus 100 ~~lp~~~kQk~a~ei~qRL~dl~~~sn 126 (331)
..||.++|-.+|.-|+.||+|+...-.
T Consensus 241 frLp~eIrDsMalRISDRLr~fCfdk~ 267 (374)
T PTZ00438 241 FRLPFEIRDSMALRISDRLRDFCFSDP 267 (374)
T ss_pred ccccHHHHHHHHHHHHHHHHHHhcCcc
Confidence 579999999999999999999987654
No 50
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=20.61 E-value=1.5e+02 Score=26.56 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=25.1
Q ss_pred HHHHHHhhhcccCCChhHHHHHHHHHHHHHHHHHHhh
Q 020080 112 DEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQL 148 (331)
Q Consensus 112 ~ei~qRL~dl~~~sn~~~qrealE~WRkeKLe~ak~r 148 (331)
++-.++|-++.+.- -+-|+.||.++|++.|+.
T Consensus 23 ~~~~~~~d~~~~~~-----e~~l~~~R~~R~~el~~~ 54 (175)
T cd02987 23 KESEQEDDDDDEDK-----EEFLQQYREQRMQEMHAK 54 (175)
T ss_pred hchhhhhhhhhhhH-----HHHHHHHHHHHHHHHHHh
Confidence 78888888886411 127999999999999984
No 51
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=20.54 E-value=4.6e+02 Score=23.61 Aligned_cols=68 Identities=15% Similarity=0.173 Sum_probs=38.0
Q ss_pred ccCHHHHHHHHHHHHHHhccCcH-HHHHHHHHHHHhhhcccccccccHHHHhHHHHHHHHHhhhcccCCChhHHHHH
Q 020080 58 KYTPDQIRNMEESVRIRSDNEPM-ALVKLVNGLKQEFSRDESVFELPRAVKLRMIDEILRRLQSSDVKGNVSAQREA 133 (331)
Q Consensus 58 ~y~~~Qlr~ieES~riRra~ePv-eLIkrVKei~~E~~~e~~~~~lp~~~kQk~a~ei~qRL~dl~~~sn~~~qrea 133 (331)
.|||+||..|++..+ |+ +.-+|..||+.=...+.= ....+.++..+.+ +-+-|.-+..+-....|++|
T Consensus 29 tysp~~l~~i~~~~~------~i~~~~~r~~eLk~lI~kk~W-~~vrn~irgp~g~-Lr~dl~~l~~sl~p~dqk~a 97 (142)
T TIGR03042 29 TYSPAQLAQIQRQAE------GIEAAKDRLPELASLVAKEDW-VFTRNLIHGPMGE-VRREMTYLNQSLLPKDQKEA 97 (142)
T ss_pred CCCHHHHHHHHHHHH------HHHHHHHhhHHHHHHHhhcch-HHHHHHHhccHHH-HHHHHHHHHHccCHHhHHHH
Confidence 599999998876543 32 233455555544443222 2445555555554 66666666555555555544
No 52
>cd00483 HPPK 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a carrier-mediated active transport system. Most microbes and plants lack this system and must synthesize folates de novo from guanosine triphosphate. One enzyme from this pathway is HPPK which catalyzes pyrophosphoryl transfer from ATP to 6-hydroxymethyl-7,8-dihydropterin (HP). The functional enzyme is a monomer. Mammals lack many of the enzymes in the folate pathway including, HPPK.
Probab=20.42 E-value=49 Score=28.30 Aligned_cols=63 Identities=21% Similarity=0.376 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHhhh-------hcccccccCCccccccCHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhccc
Q 020080 29 FINIVIALYVLRSIY-------ASIYVFSRNDLKVVKYTPDQIRNMEESVRIRSDNEPMALVKLVNGLKQEFSRDE 97 (331)
Q Consensus 29 ~~Ni~~aL~vL~sl~-------ss~~~~s~~~~~~~~y~~~Qlr~ieES~riRra~ePveLIkrVKei~~E~~~e~ 97 (331)
.-||-.|+-.|.... |++|. |.+ +.+ ++|=.++=-...++..+.|.+|.+..|.||+++-|..
T Consensus 13 ~~~l~~A~~~L~~~~~~~~~~~S~~y~--T~p---~g~-~~~~~FlN~v~~~~T~l~p~~Ll~~l~~IE~~~GR~r 82 (128)
T cd00483 13 LANLRAALRALAALPGIEILAVSPLYE--TAP---VGF-TDQPDFLNAVVELETSLSPLELLDALQAIEQRLGRVR 82 (128)
T ss_pred HHHHHHHHHHHHcCCCCCceEECCCEE--eCC---CCC-CCChHHHheEEEEEECCCHHHHHHHHHHHHHHhCCCC
Confidence 347777777776643 22221 211 111 1333455566678899999999999999999999853
No 53
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=20.37 E-value=7.7e+02 Score=25.29 Aligned_cols=15 Identities=27% Similarity=0.419 Sum_probs=11.4
Q ss_pred eeeeccCCCCCCCCC
Q 020080 189 EIIHKEHGDKPKGVE 203 (331)
Q Consensus 189 ~~~~~~~~~k~~~~~ 203 (331)
.+.|+-|++-|.+.+
T Consensus 102 ~iPN~~~~~vP~g~~ 116 (425)
T PRK05431 102 RIPNLPHDSVPVGKD 116 (425)
T ss_pred hCCCCCCccCCCCCC
Confidence 345888888888875
No 54
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=20.33 E-value=5e+02 Score=23.06 Aligned_cols=21 Identities=24% Similarity=0.165 Sum_probs=18.0
Q ss_pred chhhHHHHHHHHHHHHHHhhh
Q 020080 23 TTLIICFINIVIALYVLRSIY 43 (331)
Q Consensus 23 aTv~vC~~Ni~~aL~vL~sl~ 43 (331)
.|++.-++|+++.+++|.-++
T Consensus 23 ~~~~~~~inflil~~lL~~fl 43 (167)
T PRK08475 23 YDIIERTINFLIFVGILWYFA 43 (167)
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 678888999999999988854
Done!