Query 014130
Match_columns 430
No_of_seqs 200 out of 970
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 02:08:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014130.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014130hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 4.5E-42 9.7E-47 299.9 6.3 127 29-157 1-129 (129)
2 PF08614 ATG16: Autophagy prot 82.7 2.8 6.1E-05 39.6 5.8 48 377-424 131-178 (194)
3 PF05377 FlaC_arch: Flagella a 79.9 3.2 6.9E-05 32.6 4.1 37 378-428 2-38 (55)
4 TIGR03495 phage_LysB phage lys 75.5 7.4 0.00016 35.6 5.9 49 378-426 49-97 (135)
5 PF10224 DUF2205: Predicted co 73.3 8.6 0.00019 32.3 5.3 38 391-428 17-54 (80)
6 PF05266 DUF724: Protein of un 70.1 10 0.00022 36.3 5.7 52 375-426 130-181 (190)
7 PF04728 LPP: Lipoprotein leuc 65.1 17 0.00037 28.7 5.0 40 378-417 12-51 (56)
8 PF04977 DivIC: Septum formati 63.2 10 0.00022 29.9 3.7 27 401-427 21-47 (80)
9 PF00038 Filament: Intermediat 62.2 24 0.00053 35.0 6.9 56 373-428 192-247 (312)
10 PF14197 Cep57_CLD_2: Centroso 61.4 25 0.00053 28.6 5.5 47 378-424 21-67 (69)
11 PF08232 Striatin: Striatin fa 60.0 26 0.00056 31.7 6.0 52 377-428 5-56 (134)
12 PF15003 HAUS2: HAUS augmin-li 59.8 19 0.00041 36.7 5.6 56 373-428 51-107 (277)
13 PF00170 bZIP_1: bZIP transcri 58.2 28 0.00061 27.1 5.3 23 377-399 27-49 (64)
14 PF09755 DUF2046: Uncharacteri 57.3 28 0.00062 36.0 6.5 26 403-428 177-202 (310)
15 PHA01750 hypothetical protein 56.1 43 0.00093 27.5 6.0 49 374-428 25-73 (75)
16 PF08537 NBP1: Fungal Nap bind 55.3 26 0.00056 36.4 5.8 47 375-421 181-227 (323)
17 PF06005 DUF904: Protein of un 54.0 55 0.0012 26.8 6.4 25 392-416 41-65 (72)
18 PRK10884 SH3 domain-containing 49.1 42 0.0009 32.6 5.9 33 395-427 137-169 (206)
19 PF10146 zf-C4H2: Zinc finger- 48.8 49 0.0011 32.7 6.4 52 375-426 31-82 (230)
20 COG3883 Uncharacterized protei 47.7 45 0.00097 33.9 6.0 56 374-429 50-109 (265)
21 PF14662 CCDC155: Coiled-coil 47.5 39 0.00085 32.8 5.3 51 377-427 89-139 (193)
22 PF07716 bZIP_2: Basic region 47.4 35 0.00076 25.8 4.1 35 391-425 19-53 (54)
23 PF09726 Macoilin: Transmembra 45.8 40 0.00086 38.4 5.9 33 395-427 616-652 (697)
24 PRK11546 zraP zinc resistance 45.7 68 0.0015 29.8 6.4 56 369-427 43-105 (143)
25 PRK15178 Vi polysaccharide exp 45.3 23 0.00049 38.2 3.8 56 372-427 282-337 (434)
26 TIGR00219 mreC rod shape-deter 45.0 53 0.0012 33.1 6.2 42 384-428 67-108 (283)
27 PF07139 DUF1387: Protein of u 44.7 2.4E+02 0.0053 29.2 10.8 40 384-428 193-235 (302)
28 PF13851 GAS: Growth-arrest sp 43.7 69 0.0015 30.8 6.4 53 374-426 25-77 (201)
29 PF11932 DUF3450: Protein of u 42.4 70 0.0015 31.3 6.4 51 377-427 43-93 (251)
30 COG4026 Uncharacterized protei 41.6 81 0.0018 31.7 6.6 49 379-427 138-186 (290)
31 PRK04778 septation ring format 40.2 45 0.00098 36.7 5.2 59 369-427 441-499 (569)
32 KOG1853 LIS1-interacting prote 40.1 60 0.0013 33.1 5.5 52 378-429 61-130 (333)
33 PF06005 DUF904: Protein of un 40.0 82 0.0018 25.8 5.4 50 376-425 4-53 (72)
34 PF14775 NYD-SP28_assoc: Sperm 39.3 72 0.0016 25.2 4.8 47 368-428 8-57 (60)
35 PRK14127 cell division protein 37.5 80 0.0017 28.0 5.4 46 372-417 26-71 (109)
36 PRK11637 AmiB activator; Provi 36.9 85 0.0018 33.1 6.4 12 410-421 102-113 (428)
37 KOG1854 Mitochondrial inner me 36.9 39 0.00084 38.1 4.0 48 377-424 291-338 (657)
38 PF10146 zf-C4H2: Zinc finger- 36.8 66 0.0014 31.8 5.2 42 378-419 62-103 (230)
39 smart00338 BRLZ basic region l 36.5 44 0.00095 26.0 3.3 37 377-427 27-63 (65)
40 PF10186 Atg14: UV radiation r 35.6 1E+02 0.0022 29.9 6.3 20 378-397 22-41 (302)
41 PF04111 APG6: Autophagy prote 35.2 86 0.0019 32.2 6.0 49 377-425 44-92 (314)
42 PF10186 Atg14: UV radiation r 34.8 91 0.002 30.2 5.9 32 394-425 60-91 (302)
43 COG3074 Uncharacterized protei 34.8 1.5E+02 0.0033 24.7 6.1 39 388-426 23-61 (79)
44 PF07106 TBPIP: Tat binding pr 34.4 64 0.0014 29.6 4.5 49 377-425 80-130 (169)
45 PF02050 FliJ: Flagellar FliJ 34.1 1.5E+02 0.0032 24.2 6.3 30 397-426 45-74 (123)
46 PRK11637 AmiB activator; Provi 34.0 1.1E+02 0.0023 32.3 6.6 25 401-425 86-110 (428)
47 PF04012 PspA_IM30: PspA/IM30 33.3 1.2E+02 0.0027 28.7 6.4 50 377-426 31-88 (221)
48 PF10211 Ax_dynein_light: Axon 33.3 1.4E+02 0.0031 28.4 6.8 24 405-428 164-187 (189)
49 PF00038 Filament: Intermediat 32.9 1E+02 0.0022 30.6 6.0 51 373-423 51-101 (312)
50 KOG1103 Predicted coiled-coil 32.4 65 0.0014 34.3 4.6 41 382-429 244-284 (561)
51 COG2433 Uncharacterized conser 32.0 1.1E+02 0.0024 34.6 6.4 83 332-419 379-465 (652)
52 PF13080 DUF3926: Protein of u 31.9 40 0.00086 25.4 2.1 20 401-420 14-33 (44)
53 PF10473 CENP-F_leu_zip: Leuci 31.5 1.5E+02 0.0031 27.4 6.2 45 377-421 25-69 (140)
54 PF11932 DUF3450: Protein of u 31.4 1.1E+02 0.0024 29.9 5.8 40 377-416 57-96 (251)
55 PF12325 TMF_TATA_bd: TATA ele 31.0 1.6E+02 0.0034 26.4 6.3 46 377-422 17-62 (120)
56 PF12325 TMF_TATA_bd: TATA ele 30.1 1.5E+02 0.0033 26.6 6.0 48 378-425 32-82 (120)
57 smart00502 BBC B-Box C-termina 30.0 2E+02 0.0044 23.8 6.5 52 373-424 18-70 (127)
58 PF05008 V-SNARE: Vesicle tran 29.9 1.5E+02 0.0032 23.6 5.4 48 375-428 31-78 (79)
59 PF04156 IncA: IncA protein; 29.8 1.5E+02 0.0033 27.3 6.3 51 376-426 95-145 (191)
60 COG1792 MreC Cell shape-determ 29.4 96 0.0021 31.4 5.2 38 386-427 69-106 (284)
61 PF09755 DUF2046: Uncharacteri 29.0 1.4E+02 0.0029 31.2 6.2 40 381-420 111-151 (310)
62 PF04201 TPD52: Tumour protein 28.9 83 0.0018 29.8 4.3 36 391-426 30-65 (162)
63 KOG2211 Predicted Golgi transp 28.6 1.4E+02 0.0031 34.2 6.6 38 290-327 25-65 (797)
64 PRK10884 SH3 domain-containing 28.6 1.9E+02 0.0041 28.1 6.8 56 372-427 89-155 (206)
65 PF12709 Kinetocho_Slk19: Cent 28.1 2E+02 0.0043 24.7 6.0 26 402-427 47-72 (87)
66 PF00170 bZIP_1: bZIP transcri 28.0 1.1E+02 0.0023 23.8 4.2 22 404-425 40-61 (64)
67 PF11559 ADIP: Afadin- and alp 27.9 1.7E+02 0.0037 26.2 6.1 55 374-428 36-90 (151)
68 PF05557 MAD: Mitotic checkpoi 27.6 1.5E+02 0.0033 33.5 6.9 22 407-428 562-583 (722)
69 PF02318 FYVE_2: FYVE-type zin 27.4 1.1E+02 0.0023 26.8 4.5 38 391-428 7-46 (118)
70 COG2433 Uncharacterized conser 27.4 1.5E+02 0.0034 33.5 6.6 19 406-424 438-456 (652)
71 KOG2264 Exostosin EXT1L [Signa 27.3 86 0.0019 35.4 4.6 42 386-427 82-123 (907)
72 PRK13922 rod shape-determining 27.3 97 0.0021 30.5 4.7 41 384-428 70-110 (276)
73 smart00338 BRLZ basic region l 26.5 1.2E+02 0.0025 23.6 4.1 28 400-427 22-49 (65)
74 PF02388 FemAB: FemAB family; 26.3 1.7E+02 0.0037 30.8 6.6 54 374-427 240-296 (406)
75 PF04102 SlyX: SlyX; InterPro 26.2 1.9E+02 0.0042 23.1 5.4 48 377-424 5-52 (69)
76 PF11461 RILP: Rab interacting 26.1 98 0.0021 24.8 3.6 32 383-414 3-34 (60)
77 PF09304 Cortex-I_coil: Cortex 26.0 2.3E+02 0.005 25.2 6.2 49 378-426 25-73 (107)
78 PF04508 Pox_A_type_inc: Viral 25.8 55 0.0012 21.6 1.8 20 406-425 3-22 (23)
79 PF14257 DUF4349: Domain of un 24.8 1.8E+02 0.0039 28.5 6.0 48 380-427 136-192 (262)
80 PF07989 Microtub_assoc: Micro 24.1 2E+02 0.0044 23.7 5.2 14 414-427 53-66 (75)
81 PRK15396 murein lipoprotein; P 24.0 1.8E+02 0.0038 24.4 4.9 38 378-415 34-71 (78)
82 PF09278 MerR-DNA-bind: MerR, 23.5 2.5E+02 0.0054 21.2 5.4 50 375-427 4-59 (65)
83 PRK13729 conjugal transfer pil 23.4 1.5E+02 0.0032 32.6 5.5 44 378-428 78-121 (475)
84 PF10392 COG5: Golgi transport 23.3 2.2E+02 0.0048 25.2 5.8 52 377-428 41-96 (132)
85 KOG4657 Uncharacterized conser 23.2 2.2E+02 0.0047 28.7 6.1 28 397-424 86-113 (246)
86 PHA03155 hypothetical protein; 23.2 1.7E+02 0.0037 26.3 4.9 38 378-415 10-60 (115)
87 KOG1510 RNA polymerase II holo 23.1 3.2E+02 0.0069 25.4 6.8 52 363-417 78-129 (139)
88 PF07716 bZIP_2: Basic region 23.0 1.1E+02 0.0025 23.0 3.4 28 400-427 21-48 (54)
89 PF07926 TPR_MLP1_2: TPR/MLP1/ 22.8 3.1E+02 0.0067 24.4 6.6 18 406-423 107-124 (132)
90 PF13747 DUF4164: Domain of un 22.5 2.4E+02 0.0051 23.9 5.5 33 379-411 35-67 (89)
91 PRK00888 ftsB cell division pr 22.0 1.2E+02 0.0026 26.4 3.7 16 381-396 32-47 (105)
92 PF06825 HSBP1: Heat shock fac 21.8 1.8E+02 0.0038 22.9 4.2 30 396-425 18-49 (54)
93 COG3937 Uncharacterized conser 21.7 1.8E+02 0.0038 26.0 4.7 53 375-427 45-106 (108)
94 PF11559 ADIP: Afadin- and alp 21.5 2.9E+02 0.0063 24.8 6.3 52 377-428 60-111 (151)
95 KOG2077 JNK/SAPK-associated pr 21.3 1.5E+02 0.0032 33.6 5.0 47 379-425 325-371 (832)
96 KOG3119 Basic region leucine z 21.1 1.1E+02 0.0024 30.7 3.8 25 404-428 215-239 (269)
97 PF07926 TPR_MLP1_2: TPR/MLP1/ 21.0 2.4E+02 0.0053 25.0 5.6 53 375-427 58-121 (132)
98 PF01166 TSC22: TSC-22/dip/bun 20.8 87 0.0019 25.1 2.3 23 405-427 22-44 (59)
99 cd04788 HTH_NolA-AlbR Helix-Tu 20.6 1.9E+02 0.0041 24.2 4.6 44 374-426 46-95 (96)
100 PF14916 CCDC92: Coiled-coil d 20.6 1.4E+02 0.003 24.0 3.4 29 399-427 5-37 (60)
101 KOG0652 26S proteasome regulat 20.4 1.5E+02 0.0032 31.0 4.5 48 379-428 11-58 (424)
102 PF12795 MscS_porin: Mechanose 20.2 2.2E+02 0.0047 27.7 5.5 51 377-427 151-201 (240)
103 cd04769 HTH_MerR2 Helix-Turn-H 20.1 2.1E+02 0.0045 24.7 4.8 52 374-427 45-102 (116)
104 PF01486 K-box: K-box region; 20.1 2.6E+02 0.0056 23.5 5.3 30 396-427 69-98 (100)
105 TIGR02894 DNA_bind_RsfA transc 20.0 2.8E+02 0.0061 26.3 5.9 47 372-425 83-132 (161)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=4.5e-42 Score=299.92 Aligned_cols=127 Identities=55% Similarity=1.071 Sum_probs=96.9
Q ss_pred CCCCceeCCChHHHHHHHHhhhhcCCCCCC-CceeeccCCCCCCccccccccccCCCCceeeccCCcccccCCCcccccc
Q 014130 29 LAPGFRFHPTDEELVSYYLKRKVYNRPFRF-NAIGEVDIYKNEPWDLADFSWMKTRDQEWYFFSPLDKKYVNGARMNRAT 107 (430)
Q Consensus 29 LPPGfRF~PTDEELV~~YL~rKi~G~plp~-~~I~evDVY~~ePWdLp~~~~~k~~d~eWYFFs~r~kK~~~G~R~nRat 107 (430)
|||||||+|||+|||.+||++|+.|.+++. .+|+++|||.+|||+|+.. .+.++.+||||+++++++.+|.|.+|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~--~~~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAK--FKGGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHH--SSS-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhh--ccCCCceEEEEEecccccCCcccccccc
Confidence 899999999999999999999999998887 7899999999999999942 2346779999999999999999999999
Q ss_pred cccEEeecCcceeecc-CCeEeeeEEEEEeecCCCCCCCccCeEEEEEEeC
Q 014130 108 RKGYWKATGKDREIRR-ESQLIGMKKTLVFHSGRAPDGQRTNWVMHEYRLV 157 (430)
Q Consensus 108 ggG~WKatGk~k~I~~-~g~vVG~KKtLvFy~grap~G~KT~WvMhEYrL~ 157 (430)
++|+||.+|+.++|.. +|.+||+|++|+||.++.+.+.+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 9999999999999987 8999999999999998888889999999999984
No 2
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=82.73 E-value=2.8 Score=39.57 Aligned_cols=48 Identities=27% Similarity=0.405 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
-|.+|+.+|.+..---|.|+-|++.-+.-.|.++.++..|.+||.+|-
T Consensus 131 ~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv 178 (194)
T PF08614_consen 131 KIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELV 178 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667777777789999999999999999999999999999973
No 3
>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=79.93 E-value=3.2 Score=32.62 Aligned_cols=37 Identities=22% Similarity=0.358 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
|++||+++-.+++. |+-+++.+..|.+++|+|++.|+
T Consensus 2 i~elEn~~~~~~~~--------------i~tvk~en~~i~~~ve~i~envk 38 (55)
T PF05377_consen 2 IDELENELPRIESS--------------INTVKKENEEISESVEKIEENVK 38 (55)
T ss_pred HHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 67777777766543 66677777777888887777665
No 4
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=75.52 E-value=7.4 Score=35.61 Aligned_cols=49 Identities=33% Similarity=0.396 Sum_probs=39.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
|..|+.+.++=.-+...|+.+.=.+.+....-+.+|..|.+|||+||+-
T Consensus 49 L~~l~~~a~~~~~~Q~~Lr~~~~~~~~~l~~re~~i~rL~~ENe~lR~W 97 (135)
T TIGR03495 49 LIVLLALAKRNEEAQAQLRQQLAQARALLAQREQRIERLKRENEDLRRW 97 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHH
Confidence 4444445555556677888888999999999999999999999999984
No 5
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=73.31 E-value=8.6 Score=32.29 Aligned_cols=38 Identities=26% Similarity=0.471 Sum_probs=33.9
Q ss_pred hhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 391 ERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
+|+.|..+....|..+..|-+|||....||+.|+.-|+
T Consensus 17 ~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~ 54 (80)
T PF10224_consen 17 EKEELIQEILELQDSLEALSDRVEEVKEENEKLESENE 54 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48899999999999999999999999999988887654
No 6
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=70.11 E-value=10 Score=36.34 Aligned_cols=52 Identities=27% Similarity=0.248 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 375 AKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
..-|.+||.+|.++-=+...++-++..+.+.|+-|+|.+..|+.+.++++-.
T Consensus 130 e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e~~ 181 (190)
T PF05266_consen 130 ESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAELE 181 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777777777766666777778888889999999999999998887753
No 7
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=65.11 E-value=17 Score=28.71 Aligned_cols=40 Identities=18% Similarity=0.339 Sum_probs=34.0
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLT 417 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 417 (430)
|..|..+|.+++-+--.++-|+|.|+..-.---.|||-..
T Consensus 12 Vq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN~RlDN~a 51 (56)
T PF04728_consen 12 VQTLNSKVDQLSSDVNALRADVQAAKEEAARANQRLDNIA 51 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 5678889999999999999999999988888888888653
No 8
>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=63.20 E-value=10 Score=29.86 Aligned_cols=27 Identities=33% Similarity=0.415 Sum_probs=15.2
Q ss_pred hHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 401 SAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
+.++.|+.|+++|+.|.++|++|++.+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei 47 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEI 47 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666666666666665543
No 9
>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=62.19 E-value=24 Score=35.01 Aligned_cols=56 Identities=21% Similarity=0.269 Sum_probs=44.2
Q ss_pred cHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 373 DCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.|...|.+|+..+..-+.+-..+|-|++..+..|+-|+..|+.|...|.-|.+.++
T Consensus 192 ~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~ 247 (312)
T PF00038_consen 192 WYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQLR 247 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHH
Confidence 34445666666777777777888899999999999999999998888888877664
No 10
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=61.39 E-value=25 Score=28.60 Aligned_cols=47 Identities=21% Similarity=0.158 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
|.-.+.++..++-||+.+-.-+=.|-.-|+-|++.+++|.+|++.++
T Consensus 21 ~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 21 NSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44445566777778877776666677788888888888888877664
No 11
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=59.97 E-value=26 Score=31.73 Aligned_cols=52 Identities=19% Similarity=0.226 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.|..||.|-+..-.||-.-.+|==.-+|=|..||.-...+.+=|+||+|-|+
T Consensus 5 Vl~fLQ~Ew~r~ErdR~~WeiERaEmkarIa~LEGE~r~~e~l~~dL~rrIk 56 (134)
T PF08232_consen 5 VLHFLQTEWHRFERDRNQWEIERAEMKARIAFLEGERRGQENLKKDLKRRIK 56 (134)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667899999988888777666555556688888888888888889988775
No 12
>PF15003 HAUS2: HAUS augmin-like complex subunit 2
Probab=59.83 E-value=19 Score=36.67 Aligned_cols=56 Identities=20% Similarity=0.246 Sum_probs=48.2
Q ss_pred cHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHH-HHHHhhhhhhhhhhcHHHHHhhh
Q 014130 373 DCAKLIKELKNQVREVVVERATLKLDLMSAQAM-INILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
+-+.-|.++|.||.+..+|=|-||+|-..|-.+ +.+|++|+..|+.=|..|+..++
T Consensus 51 s~L~QIt~iQaeI~q~nlEielLkleKeTADltH~~~L~~K~~~Lq~m~shLe~VLk 107 (277)
T PF15003_consen 51 SRLRQITNIQAEIDQLNLEIELLKLEKETADLTHPDYLAEKCEALQSMNSHLEAVLK 107 (277)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHhhcchHhhhCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457789999999999999999999999999844 78899999999888888776554
No 13
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=58.19 E-value=28 Score=27.05 Aligned_cols=23 Identities=39% Similarity=0.556 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHh
Q 014130 377 LIKELKNQVREVVVERATLKLDL 399 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~ 399 (430)
.|.+|+.++..++.|.+.|+-++
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~ 49 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKEL 49 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 67778888877777776665443
No 14
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=57.26 E-value=28 Score=35.97 Aligned_cols=26 Identities=31% Similarity=0.452 Sum_probs=22.9
Q ss_pred HHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 403 QAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 403 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
+++||-|+.|+|.|..|+.-|.+.+-
T Consensus 177 E~lvN~L~Kqm~~l~~eKr~Lq~~l~ 202 (310)
T PF09755_consen 177 EALVNRLWKQMDKLEAEKRRLQEKLE 202 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 58999999999999999999887653
No 15
>PHA01750 hypothetical protein
Probab=56.05 E-value=43 Score=27.54 Aligned_cols=49 Identities=33% Similarity=0.445 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 374 CAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
|+|.=.-|++-|.+|+ +-|+=--...|..+.-|+|.|.+..+|+||++.
T Consensus 25 YlKIKq~lkdAvkeIV------~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~d 73 (75)
T PHA01750 25 YLKIKQALKDAVKEIV------NSELDNLKTEIEELKIKQDELSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 5555455555554442 333333344456666899999999999999874
No 16
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=55.32 E-value=26 Score=36.44 Aligned_cols=47 Identities=30% Similarity=0.288 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcH
Q 014130 375 AKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENE 421 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 421 (430)
-+.|.+|+.+|.++..|=|-++..++=||-...+|||.+|.-+=..|
T Consensus 181 qkk~~~l~~~l~~~~~eL~~~~k~L~faqekn~LlqslLddaniD~~ 227 (323)
T PF08537_consen 181 QKKIDELEERLNDLEKELEITKKDLKFAQEKNALLQSLLDDANIDSE 227 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccHH
Confidence 46799999999999999999999999999999999999998655555
No 17
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=53.98 E-value=55 Score=26.84 Aligned_cols=25 Identities=20% Similarity=0.139 Sum_probs=13.6
Q ss_pred hhhhHHHhhhHHHHHHHHhhhhhhh
Q 014130 392 RATLKLDLMSAQAMINILHSRIDFL 416 (430)
Q Consensus 392 ~~~~~~~~~~~~~~~~~~~~~~~~~ 416 (430)
++.|+.|.-+-+.--+..++||+.|
T Consensus 41 ~~~L~~en~~L~~e~~~~~~rl~~L 65 (72)
T PF06005_consen 41 NEELKEENEQLKQERNAWQERLRSL 65 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555555555555555553
No 18
>PRK10884 SH3 domain-containing protein; Provisional
Probab=49.13 E-value=42 Score=32.62 Aligned_cols=33 Identities=15% Similarity=0.186 Sum_probs=23.8
Q ss_pred hHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 395 LKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 395 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
|+-|-.+.+.-+..+|.++|.|+.+|+++++.+
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~ 169 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI 169 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555556666678888888888888888754
No 19
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=48.82 E-value=49 Score=32.72 Aligned_cols=52 Identities=23% Similarity=0.287 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 375 AKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
.++|.++++|+..+-.||...--|+=..++=||-|.+=|-.+..|.+..+..
T Consensus 31 e~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~ 82 (230)
T PF10146_consen 31 EKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEK 82 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688888888888888888777777777777777777776666666655544
No 20
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.70 E-value=45 Score=33.85 Aligned_cols=56 Identities=25% Similarity=0.303 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcH----HHHHhhhc
Q 014130 374 CAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENE----DLKRKNKA 429 (430)
Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~ 429 (430)
..+-|+.|.++|.++.=+..-++-|+=+-++-|..||..|+.|+.-+. -|+.-+|+
T Consensus 50 ~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRA 109 (265)
T COG3883 50 IQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARA 109 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777888888888899999999999999999999998776544 44444443
No 21
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=47.51 E-value=39 Score=32.81 Aligned_cols=51 Identities=24% Similarity=0.214 Sum_probs=45.8
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
=-..|++|...++.|-++|.-|-+.-.+-+.-|+.|+..|..++..|++.+
T Consensus 89 q~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql 139 (193)
T PF14662_consen 89 QARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQL 139 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHH
Confidence 345677899999999999999999999999999999999999999999876
No 22
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=47.36 E-value=35 Score=25.83 Aligned_cols=35 Identities=20% Similarity=0.171 Sum_probs=25.2
Q ss_pred hhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 391 ERATLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
-|+.-|..+...+..+..|+..+..|..+++.|++
T Consensus 19 ~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 19 SRQRKKQREEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45666677777777777777777777777777764
No 23
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=45.83 E-value=40 Score=38.42 Aligned_cols=33 Identities=36% Similarity=0.489 Sum_probs=26.6
Q ss_pred hHHHhhhH----HHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 395 LKLDLMSA----QAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 395 ~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
+|+|+++| +..|.|+|+.|..-++|++|||.++
T Consensus 616 iKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki 652 (697)
T PF09726_consen 616 IKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKI 652 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677764 6678899999999999999999865
No 24
>PRK11546 zraP zinc resistance protein; Provisional
Probab=45.67 E-value=68 Score=29.76 Aligned_cols=56 Identities=18% Similarity=0.298 Sum_probs=41.0
Q ss_pred CCCccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHh-------hhhhhhhhhcHHHHHhh
Q 014130 369 QMPPDCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILH-------SRIDFLTRENEDLKRKN 427 (430)
Q Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~ 427 (430)
.|+|.=.+.++.| .++---+=+.|+.++...++.+|.|. .+|.+|.+|+.||+.+.
T Consensus 43 ~LT~EQQa~~q~I---~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL 105 (143)
T PRK11546 43 PLTTEQQAAWQKI---HNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSL 105 (143)
T ss_pred cCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 3455544444333 44445566789999999999999995 47999999999998654
No 25
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=45.30 E-value=23 Score=38.23 Aligned_cols=56 Identities=20% Similarity=0.294 Sum_probs=42.6
Q ss_pred ccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 372 PDCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 372 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+.+..|..||.|+-+..+|...|+.-+=---.=|-.|++||..|.+++.+++..+
T Consensus 282 ~~~~~lI~~Le~qLa~~~aeL~~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl 337 (434)
T PRK15178 282 TAIYQLIAGFETQLAEAKAEYAQLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRL 337 (434)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHh
Confidence 45678999999999988887776644322223457889999999999999887765
No 26
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=45.03 E-value=53 Score=33.12 Aligned_cols=42 Identities=21% Similarity=0.241 Sum_probs=28.8
Q ss_pred HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 384 QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 384 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
...++--|-+.||.|+...++ -++.+...|.+||+.||++..
T Consensus 67 ~~~~l~~EN~~Lr~e~~~l~~---~~~~~~~~l~~EN~rLr~LL~ 108 (283)
T TIGR00219 67 DVNNLEYENYKLRQELLKKNQ---QLEILTQNLKQENVRLRELLN 108 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhc
Confidence 344556777888888776522 233344559999999999864
No 27
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=44.72 E-value=2.4e+02 Score=29.23 Aligned_cols=40 Identities=30% Similarity=0.593 Sum_probs=28.0
Q ss_pred HHHhhhhhhh-hhHHHh--hhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 384 QVREVVVERA-TLKLDL--MSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 384 ~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
|++..-++|| +|-.|| ..+||| -||.+| .+.-|+|||+-.
T Consensus 193 ~l~~cL~dREvaLl~EmdkVK~EAm-eiL~aR----qkkAeeLkrltd 235 (302)
T PF07139_consen 193 ELQSCLMDREVALLAEMDKVKAEAM-EILDAR----QKKAEELKRLTD 235 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH----HHHHHHHHHHHH
Confidence 7788888888 344454 467776 588877 466788888754
No 28
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=43.67 E-value=69 Score=30.82 Aligned_cols=53 Identities=19% Similarity=0.210 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 374 CAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
-+..|+.|+.||.+|----+..+.+|....+-...|--=+-.+.+|++.|++.
T Consensus 25 NL~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~ 77 (201)
T PF13851_consen 25 NLELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQ 77 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 35677888877777766666666666666555555555555555555555544
No 29
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=42.43 E-value=70 Score=31.26 Aligned_cols=51 Identities=14% Similarity=0.211 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
-|+++..|-.++.-|-+.++.|+=+.+.-++-|+..|+.++++.++|++.+
T Consensus 43 ~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi 93 (251)
T PF11932_consen 43 RIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQI 93 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444433334333344444444444444555555555555555555443
No 30
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=41.64 E-value=81 Score=31.70 Aligned_cols=49 Identities=27% Similarity=0.318 Sum_probs=41.1
Q ss_pred HHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 379 KELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+++.+.++..-|+|.|.-|.-.-|+-.+-+|-|+..|..||-.|..+.
T Consensus 138 ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~ 186 (290)
T COG4026 138 EELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEML 186 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445568889999999999999999999999999999999986665443
No 31
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=40.19 E-value=45 Score=36.67 Aligned_cols=59 Identities=14% Similarity=0.317 Sum_probs=53.2
Q ss_pred CCCccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 369 QMPPDCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+|.+|+.+...++++|.++.-+.+.-.+.|...+......+.|+++|.++-+||....
T Consensus 441 gip~~y~~~~~~~~~~i~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a 499 (569)
T PRK04778 441 GLPEDYLEMFFEVSDEIEALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENA 499 (569)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36899999999999999999999999889999999899999999999999999987643
No 32
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=40.06 E-value=60 Score=33.12 Aligned_cols=52 Identities=27% Similarity=0.374 Sum_probs=41.9
Q ss_pred HHHHHHHHHhhhhhhhhhH------------------HHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhhc
Q 014130 378 IKELKNQVREVVVERATLK------------------LDLMSAQAMINILHSRIDFLTRENEDLKRKNKA 429 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 (430)
..+|+.+++.|.+|-|++| .|+-..+|+-.-|+-+|-.|.+-|.||.|.-|+
T Consensus 61 nrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakRa 130 (333)
T KOG1853|consen 61 NRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRA 130 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh
Confidence 4577778888888888765 345566788888999999999999999987664
No 33
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=39.99 E-value=82 Score=25.81 Aligned_cols=50 Identities=26% Similarity=0.366 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 376 KLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 376 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
...+.||..|....=--+.|+.|+-.-+.--+-|++..+.|..||+.|+.
T Consensus 4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~ 53 (72)
T PF06005_consen 4 ELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQ 53 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 34566777766665555566666665555566666777777777777763
No 34
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=39.25 E-value=72 Score=25.23 Aligned_cols=47 Identities=28% Similarity=0.453 Sum_probs=32.4
Q ss_pred CCCCccHHHHHHHHHH---HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 368 SQMPPDCAKLIKELKN---QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 368 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
..+|++-.+.-+.|++ .-++|-.+|..+- ..++.|.++|++||.+.+
T Consensus 8 ~vip~~~~~~W~~L~~~l~rY~~vL~~R~~l~--------------~e~~~L~~qN~eLr~lLk 57 (60)
T PF14775_consen 8 NVIPDEKIRLWDALENFLKRYNKVLLDRAALI--------------QEKESLEQQNEELRSLLK 57 (60)
T ss_pred hcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH
Confidence 4567888887777766 3345555554443 345889999999998865
No 35
>PRK14127 cell division protein GpsB; Provisional
Probab=37.51 E-value=80 Score=27.97 Aligned_cols=46 Identities=11% Similarity=0.174 Sum_probs=39.7
Q ss_pred ccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhh
Q 014130 372 PDCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLT 417 (430)
Q Consensus 372 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 417 (430)
...-.|++.+-.++..+.-|...||-|+.+.+.-+.-+++|+....
T Consensus 26 ~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~~ 71 (109)
T PRK14127 26 DEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVSVGA 71 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3445699999999999999999999999999999999999988764
No 36
>PRK11637 AmiB activator; Provisional
Probab=36.92 E-value=85 Score=33.07 Aligned_cols=12 Identities=25% Similarity=0.249 Sum_probs=4.3
Q ss_pred hhhhhhhhhhcH
Q 014130 410 HSRIDFLTRENE 421 (430)
Q Consensus 410 ~~~~~~~~~~~~ 421 (430)
+.+|+.|+++++
T Consensus 102 ~~ei~~l~~eI~ 113 (428)
T PRK11637 102 NKQIDELNASIA 113 (428)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 37
>KOG1854 consensus Mitochondrial inner membrane protein (mitofilin) [Cell wall/membrane/envelope biogenesis]
Probab=36.88 E-value=39 Score=38.13 Aligned_cols=48 Identities=25% Similarity=0.311 Sum_probs=34.6
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
|+.+|++-.-.||++--.++|--|-...+|--.+-|||.|+++.+|+|
T Consensus 291 F~~EL~si~p~l~~~d~~~~L~~~dln~liahah~rvdql~~~l~d~k 338 (657)
T KOG1854|consen 291 FEQELESILPGLSLADKEENLSEDDLNKLIAHAHTRVDQLQKELEDQK 338 (657)
T ss_pred HHHHHHHhcCCCchhhhhhhccHhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334444444445555555666667777889999999999999999976
No 38
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=36.80 E-value=66 Score=31.85 Aligned_cols=42 Identities=21% Similarity=0.269 Sum_probs=35.1
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRE 419 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 419 (430)
|+.||+.|.+..-||+..+-...+.+..+.-|...||.++++
T Consensus 62 In~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e 103 (230)
T PF10146_consen 62 INTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677888888888888888888888888888888888888777
No 39
>smart00338 BRLZ basic region leucin zipper.
Probab=36.55 E-value=44 Score=25.99 Aligned_cols=37 Identities=35% Similarity=0.405 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.|.+|+.++..+.-| ..-|+++|+.|.+|+..|+..+
T Consensus 27 ~~~~Le~~~~~L~~e--------------n~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 27 EIEELERKVEQLEAE--------------NERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHh
Confidence 455555555554443 4446666777777777776554
No 40
>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=35.65 E-value=1e+02 Score=29.94 Aligned_cols=20 Identities=20% Similarity=0.419 Sum_probs=9.2
Q ss_pred HHHHHHHHHhhhhhhhhhHH
Q 014130 378 IKELKNQVREVVVERATLKL 397 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~ 397 (430)
|-+++.++.++..++++|+.
T Consensus 22 L~~~~~~l~~~~~~~~~l~~ 41 (302)
T PF10186_consen 22 LLELRSELQQLKEENEELRR 41 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444443
No 41
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=35.22 E-value=86 Score=32.16 Aligned_cols=49 Identities=22% Similarity=0.274 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
-+.++++|+.++..|.+.+..|+...+.--..|...|..|..|-++|++
T Consensus 44 ~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~ 92 (314)
T PF04111_consen 44 DIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDE 92 (314)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888888888888888887777666666666666666665543
No 42
>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=34.85 E-value=91 Score=30.22 Aligned_cols=32 Identities=22% Similarity=0.326 Sum_probs=14.0
Q ss_pred hhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 394 TLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 394 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
.++.++...+.=+..|+.+|+.++++++++|+
T Consensus 60 ~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~ 91 (302)
T PF10186_consen 60 QLKREIEELRERLERLRERIERLRKRIEQKRE 91 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444443
No 43
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.76 E-value=1.5e+02 Score=24.70 Aligned_cols=39 Identities=28% Similarity=0.269 Sum_probs=27.5
Q ss_pred hhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 388 VVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 388 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
+-||-|.||-+--+-+....-+|-.+++|.+|||.||.-
T Consensus 23 LQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e 61 (79)
T COG3074 23 LQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEE 61 (79)
T ss_pred HHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666555555666677788899999998854
No 44
>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=34.41 E-value=64 Score=29.60 Aligned_cols=49 Identities=31% Similarity=0.369 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHH--HHHhhhhhhhhhhcHHHHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMI--NILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 425 (430)
-|.+|+.|+.++.-+.-.|+.|+-...++. .-|...|..|.+|++.|..
T Consensus 80 ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~ 130 (169)
T PF07106_consen 80 EIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEE 130 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 366677766666666666665554433332 2334445555555555443
No 45
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=34.06 E-value=1.5e+02 Score=24.18 Aligned_cols=30 Identities=27% Similarity=0.276 Sum_probs=15.6
Q ss_pred HHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 397 LDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 397 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
.++...+.+|..|..+|+.+.++.+.++..
T Consensus 45 ~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ 74 (123)
T PF02050_consen 45 AQLRNYQRYISALEQAIQQQQQELERLEQE 74 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555555554443
No 46
>PRK11637 AmiB activator; Provisional
Probab=33.95 E-value=1.1e+02 Score=32.34 Aligned_cols=25 Identities=12% Similarity=0.267 Sum_probs=10.9
Q ss_pred hHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 401 SAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
.++.-|+-++.+|+.++++.+.|..
T Consensus 86 ~~~~~i~~~~~~i~~~~~ei~~l~~ 110 (428)
T PRK11637 86 QASRKLRETQNTLNQLNKQIDELNA 110 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444443
No 47
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=33.33 E-value=1.2e+02 Score=28.74 Aligned_cols=50 Identities=22% Similarity=0.372 Sum_probs=40.2
Q ss_pred HHHHHHHH-------HHhhhhhhhhhHHHhhhHHHHHHHHhhhhhh-hhhhcHHHHHh
Q 014130 377 LIKELKNQ-------VREVVVERATLKLDLMSAQAMINILHSRIDF-LTRENEDLKRK 426 (430)
Q Consensus 377 ~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 426 (430)
+|.+++.+ +..+-..+..++.++-.++.+|.-++.|... |.+.+|||-|.
T Consensus 31 ~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~ 88 (221)
T PF04012_consen 31 AIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLARE 88 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence 56666654 4455667888999999999999999999887 99999999664
No 48
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=33.32 E-value=1.4e+02 Score=28.36 Aligned_cols=24 Identities=29% Similarity=0.429 Sum_probs=18.1
Q ss_pred HHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 405 MINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 405 ~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.....+..|++|.+.|..||-...
T Consensus 164 ~~k~~~~ei~~lk~~~~ql~~~l~ 187 (189)
T PF10211_consen 164 EEKKHQEEIDFLKKQNQQLKAQLE 187 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345678888999999888876554
No 49
>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=32.89 E-value=1e+02 Score=30.62 Aligned_cols=51 Identities=22% Similarity=0.341 Sum_probs=39.0
Q ss_pred cHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHH
Q 014130 373 DCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDL 423 (430)
Q Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 423 (430)
-|..=|.+|...|..++.|+..+.++.=.++..++-++.|+....+.+.+|
T Consensus 51 ~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~l 101 (312)
T PF00038_consen 51 MYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDL 101 (312)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 377778888899999999999998888888888887777766554444444
No 50
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=32.44 E-value=65 Score=34.29 Aligned_cols=41 Identities=27% Similarity=0.345 Sum_probs=25.9
Q ss_pred HHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhhc
Q 014130 382 KNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNKA 429 (430)
Q Consensus 382 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 (430)
|+.|.+.-+|||-|+.| .|-+..|-.-|..|+|.||..||+
T Consensus 244 ek~i~EfdiEre~LRAe-------l~ree~r~K~lKeEmeSLkeiVkd 284 (561)
T KOG1103|consen 244 EKLIEEFDIEREFLRAE-------LEREEKRQKMLKEEMESLKEIVKD 284 (561)
T ss_pred HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44555555666665544 355566667777777777777764
No 51
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=32.04 E-value=1.1e+02 Score=34.63 Aligned_cols=83 Identities=20% Similarity=0.234 Sum_probs=45.2
Q ss_pred HHHHHHhhcccccccCCcccCCCC---CCCC-CCCCCCCCCCCCccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHH
Q 014130 332 TAAISALLEFSLMESIEPRETSCV---PTAA-PFEANDFDSQMPPDCAKLIKELKNQVREVVVERATLKLDLMSAQAMIN 407 (430)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 407 (430)
.+++.-|.|.||-+-|++-..... +... .=+.-.+ -++.+=|..+++.+..+--|..-|+.++|.-++.|.
T Consensus 379 rika~VIrG~~l~eal~~~~e~~~p~e~~~~~~~e~~ei-----~~~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie 453 (652)
T COG2433 379 RIKALVIRGYPLAEALSKVKEEERPREKEGTEEEERREI-----TVYEKRIKKLEETVERLEEENSELKRELEELKREIE 453 (652)
T ss_pred HHHHHeecCCcHHHHHHHHHhhhccccccccccccccch-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677788888775543222111 1110 0000111 345666666666666666666666666666666666
Q ss_pred HHhhhhhhhhhh
Q 014130 408 ILHSRIDFLTRE 419 (430)
Q Consensus 408 ~~~~~~~~~~~~ 419 (430)
-|.++.+-+.++
T Consensus 454 ~L~~~l~~~~r~ 465 (652)
T COG2433 454 KLESELERFRRE 465 (652)
T ss_pred HHHHHHHHHHHH
Confidence 666665554443
No 52
>PF13080 DUF3926: Protein of unknown function (DUF3926)
Probab=31.94 E-value=40 Score=25.36 Aligned_cols=20 Identities=35% Similarity=0.551 Sum_probs=15.8
Q ss_pred hHHHHHHHHhhhhhhhhhhc
Q 014130 401 SAQAMINILHSRIDFLTREN 420 (430)
Q Consensus 401 ~~~~~~~~~~~~~~~~~~~~ 420 (430)
+|+.|+||||-.+..--+|-
T Consensus 14 sAkqmlnILQEELssy~~E~ 33 (44)
T PF13080_consen 14 SAKQMLNILQEELSSYPQEQ 33 (44)
T ss_pred HHHHHHHHHHHHHHhchhhc
Confidence 79999999998877755543
No 53
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=31.53 E-value=1.5e+02 Score=27.44 Aligned_cols=45 Identities=22% Similarity=0.288 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENE 421 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 421 (430)
-|-.|+.++..+--+++.+.++.=.+++.|.-|+..|..+..+..
T Consensus 25 ~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~ 69 (140)
T PF10473_consen 25 HVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELN 69 (140)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666555555555555555555555555555544444333
No 54
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=31.38 E-value=1.1e+02 Score=29.92 Aligned_cols=40 Identities=15% Similarity=0.282 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFL 416 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 416 (430)
-|..|+.|+..+.+..+.++..+=+.+.-|.-|+.+|+.+
T Consensus 57 e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~ 96 (251)
T PF11932_consen 57 EYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQI 96 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444444444444433
No 55
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=31.04 E-value=1.6e+02 Score=26.42 Aligned_cols=46 Identities=33% Similarity=0.390 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENED 422 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 422 (430)
.|..|+++|+..--|.-++|-++=+.++-=+-+..-|=.|.++||+
T Consensus 17 ~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~ 62 (120)
T PF12325_consen 17 LVERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEE 62 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555544444443333333333333333333
No 56
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=30.11 E-value=1.5e+02 Score=26.56 Aligned_cols=48 Identities=19% Similarity=0.349 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHH---HHHhhhhhhhhhhcHHHHH
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMI---NILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~ 425 (430)
|.-|+.++..+.-+|+.+.-|+.+.-.-. ..+..++..|.++.++|..
T Consensus 32 ~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ 82 (120)
T PF12325_consen 32 LASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQ 82 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888888888888876655444 3444556666666666654
No 57
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=30.04 E-value=2e+02 Score=23.77 Aligned_cols=52 Identities=21% Similarity=0.284 Sum_probs=36.9
Q ss_pred cHHHHHHHHHHHHHhhhhhhhhhHHHh-hhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 373 DCAKLIKELKNQVREVVVERATLKLDL-MSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
.+..+|+.|+..+..+....+..+.++ .....+|++|+.|=+.|-.+.+...
T Consensus 18 ~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~ 70 (127)
T smart00502 18 ELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQK 70 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456678888888888877777777776 4457788888877666655555443
No 58
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=29.90 E-value=1.5e+02 Score=23.58 Aligned_cols=48 Identities=19% Similarity=0.253 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 375 AKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
..-|++.++-|.+|.+|--.+ ..+.-+-+++||...+.+...||+.++
T Consensus 31 e~~l~ea~~~l~qMe~E~~~~------p~s~r~~~~~kl~~yr~~l~~lk~~l~ 78 (79)
T PF05008_consen 31 ERDLDEAEELLKQMELEVRSL------PPSERNQYKSKLRSYRSELKKLKKELK 78 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHCTS-------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhC------CHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345555566666666654432 336667888999999998888888654
No 59
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=29.82 E-value=1.5e+02 Score=27.30 Aligned_cols=51 Identities=22% Similarity=0.418 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 376 KLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 376 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
+.++++++.+.+..-+-+.++.+....+-....+++|++.++...+++.+.
T Consensus 95 ~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e 145 (191)
T PF04156_consen 95 EELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKE 145 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455556666666666666666666666666666777777766666655543
No 60
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=29.39 E-value=96 Score=31.39 Aligned_cols=38 Identities=29% Similarity=0.420 Sum_probs=29.5
Q ss_pred HhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 386 REVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 386 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+..-|.|+||.++ +.++.++.++..|.+||+.||.+.
T Consensus 69 ~~~~~en~~Lk~~l----~~~~~~~~~~~~l~~EN~~Lr~lL 106 (284)
T COG1792 69 KDLALENEELKKEL----AELEQLLEEVESLEEENKRLKELL 106 (284)
T ss_pred HHHHHHhHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445677788776 456788999999999999999864
No 61
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=29.05 E-value=1.4e+02 Score=31.15 Aligned_cols=40 Identities=23% Similarity=0.410 Sum_probs=23.2
Q ss_pred HHHHHHhhhhhhhhhHHHhhh-HHHHHHHHhhhhhhhhhhc
Q 014130 381 LKNQVREVVVERATLKLDLMS-AQAMINILHSRIDFLTREN 420 (430)
Q Consensus 381 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 420 (430)
|++.+.++--|+--|.--+++ -+.+||.|+.+|+.|.++-
T Consensus 111 L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~ 151 (310)
T PF09755_consen 111 LSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEK 151 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444 2477899999998886544
No 62
>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=28.93 E-value=83 Score=29.83 Aligned_cols=36 Identities=31% Similarity=0.415 Sum_probs=19.7
Q ss_pred hhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 391 ERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
|||.||.|+.+-+..|.-|..=+-+-.+.--+|||+
T Consensus 30 E~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrk 65 (162)
T PF04201_consen 30 EREELRSELAKVEEEIQTLRQVLAAKERHCAELKRK 65 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 455555555555555555555555555555555554
No 63
>KOG2211 consensus Predicted Golgi transport complex 1 protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.64 E-value=1.4e+02 Score=34.25 Aligned_cols=38 Identities=26% Similarity=0.279 Sum_probs=27.0
Q ss_pred cCCCCCCCCCCCCCCCCC--CCCCC-CCccchhhhhhhhcc
Q 014130 290 QNDSGSNRSNGSDNSSGA--GQDPS-SSTTTTAETATMMAT 327 (430)
Q Consensus 290 ~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~~ 327 (430)
||+++.+-+.|+++++-- .|||| |++-.|..+..|+++
T Consensus 25 ~np~p~~l~~G~~~~~~r~l~qdp~ls~fln~~fSv~~~tS 65 (797)
T KOG2211|consen 25 HNPLPKQLRKGVETNLPRLLEQDPALSSFLNTLFSVQMMTS 65 (797)
T ss_pred CCCChhhhhcCccccchHHHhcCccccccccchhhhhhHHH
Confidence 567777777776665533 49999 778888888777655
No 64
>PRK10884 SH3 domain-containing protein; Provisional
Probab=28.61 E-value=1.9e+02 Score=28.12 Aligned_cols=56 Identities=18% Similarity=0.233 Sum_probs=27.0
Q ss_pred ccHHHHHHHHHHHHHhhhhhhhh-----------hHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 372 PDCAKLIKELKNQVREVVVERAT-----------LKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 372 ~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
|+...-+-.||+|+.++.-+-.. ++-++=.+...|+-|+.+-+.|+++++.++..+
T Consensus 89 p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~ 155 (206)
T PRK10884 89 PSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKV 155 (206)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555556666665555332222 222222334445555555555555555555444
No 65
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=28.12 E-value=2e+02 Score=24.71 Aligned_cols=26 Identities=35% Similarity=0.396 Sum_probs=17.1
Q ss_pred HHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 402 AQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 402 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
-+.=|.-|+.+++.|.+|||.|+..+
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l 72 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKL 72 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566666777777777777776644
No 66
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=28.00 E-value=1.1e+02 Score=23.77 Aligned_cols=22 Identities=23% Similarity=0.294 Sum_probs=9.6
Q ss_pred HHHHHHhhhhhhhhhhcHHHHH
Q 014130 404 AMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 404 ~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
.+...|..+++.|.+++..|+.
T Consensus 40 ~en~~L~~~~~~L~~~~~~L~~ 61 (64)
T PF00170_consen 40 SENEELKKELEQLKKEIQSLKS 61 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444444444444444443
No 67
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=27.91 E-value=1.7e+02 Score=26.25 Aligned_cols=55 Identities=22% Similarity=0.238 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 374 CAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
....|.+|=...+.-.--||+|-..+.+.++-|.-|+..+..|..+++++.|.+.
T Consensus 36 vin~i~~Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~ 90 (151)
T PF11559_consen 36 VINCIYDLLQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELA 90 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777777777778888888888888888888888888888888887654
No 68
>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.
Probab=27.65 E-value=1.5e+02 Score=33.47 Aligned_cols=22 Identities=36% Similarity=0.474 Sum_probs=18.2
Q ss_pred HHHhhhhhhhhhhcHHHHHhhh
Q 014130 407 NILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.|-++-++.|.+||++|+..++
T Consensus 562 ~~k~~~l~~L~~En~~L~~~l~ 583 (722)
T PF05557_consen 562 QIKKSTLEALQAENEDLLARLR 583 (722)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3456889999999999998873
No 69
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=27.44 E-value=1.1e+02 Score=26.78 Aligned_cols=38 Identities=24% Similarity=0.260 Sum_probs=30.3
Q ss_pred hhhhhHHHhhhHHHHHHHHhhhhhhhhhhc--HHHHHhhh
Q 014130 391 ERATLKLDLMSAQAMINILHSRIDFLTREN--EDLKRKNK 428 (430)
Q Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 428 (430)
|||.+.-=+++++.+=..-+.||.-|.++. |..|+.+.
T Consensus 7 E~~~I~~Vl~R~~~l~~~E~~Ri~kLk~~L~~e~~r~~~~ 46 (118)
T PF02318_consen 7 EREIILQVLQRDEELRKKEEERIRKLKQELQKEKMRREAL 46 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 677777778888888889999999999999 66665443
No 70
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=27.36 E-value=1.5e+02 Score=33.49 Aligned_cols=19 Identities=32% Similarity=0.364 Sum_probs=7.7
Q ss_pred HHHHhhhhhhhhhhcHHHH
Q 014130 406 INILHSRIDFLTRENEDLK 424 (430)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~~ 424 (430)
|..|+..|+.|.+++|.|+
T Consensus 438 ~~~L~~~~ee~k~eie~L~ 456 (652)
T COG2433 438 NSELKRELEELKREIEKLE 456 (652)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433
No 71
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=27.34 E-value=86 Score=35.38 Aligned_cols=42 Identities=29% Similarity=0.275 Sum_probs=29.6
Q ss_pred HhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 386 REVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 386 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
+++.-=+++..+|+-.-|+--.-|+|-|..+|.++|+|||++
T Consensus 82 ~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i 123 (907)
T KOG2264|consen 82 REQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLI 123 (907)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 333334556666666666666778888888888888888875
No 72
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=27.34 E-value=97 Score=30.52 Aligned_cols=41 Identities=20% Similarity=0.310 Sum_probs=27.7
Q ss_pred HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 384 QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 384 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
...++.-|-+.||.|++..++.+. +.+.|.+||+.||++..
T Consensus 70 ~~~~l~~en~~L~~e~~~l~~~~~----~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 70 SLFDLREENEELKKELLELESRLQ----ELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhc
Confidence 344566677777777766554443 33578899999998753
No 73
>smart00338 BRLZ basic region leucin zipper.
Probab=26.51 E-value=1.2e+02 Score=23.62 Aligned_cols=28 Identities=32% Similarity=0.405 Sum_probs=20.8
Q ss_pred hhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 400 MSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 400 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
++-.+-|.-|+.+|..|..+|++|+..+
T Consensus 22 ~rKk~~~~~Le~~~~~L~~en~~L~~~~ 49 (65)
T smart00338 22 ERKKAEIEELERKVEQLEAENERLKKEI 49 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667778888888888888887665
No 74
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=26.26 E-value=1.7e+02 Score=30.78 Aligned_cols=54 Identities=13% Similarity=0.193 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhHHHhh---hHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 374 CAKLIKELKNQVREVVVERATLKLDLM---SAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
+.+++++|+.++.++.-+.+.|+..+- .++--+.-|+.+++.+.++.++++.+.
T Consensus 240 ~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~~ 296 (406)
T PF02388_consen 240 GKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEELI 296 (406)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888777777665432 466778889999999999999998764
No 75
>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=26.17 E-value=1.9e+02 Score=23.11 Aligned_cols=48 Identities=19% Similarity=0.167 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
-|.+||..+--..---|.|-..+.+-+..|..|+.++..|.....++.
T Consensus 5 Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 5 RIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 466666655444444456666677777777777777777777776665
No 76
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=26.05 E-value=98 Score=24.83 Aligned_cols=32 Identities=25% Similarity=0.349 Sum_probs=28.5
Q ss_pred HHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhh
Q 014130 383 NQVREVVVERATLKLDLMSAQAMINILHSRID 414 (430)
Q Consensus 383 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 414 (430)
.|+++|--||--||.-+|-+|-.+..+++-+.
T Consensus 3 ~ELr~VL~ERNeLK~~v~~leEEL~~yk~~~~ 34 (60)
T PF11461_consen 3 QELREVLQERNELKARVFLLEEELAYYKSELL 34 (60)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 47889999999999999999999999998553
No 77
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=25.99 E-value=2.3e+02 Score=25.23 Aligned_cols=49 Identities=22% Similarity=0.258 Sum_probs=25.3
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
|.+.+..+.++.-+|+.|+--+-+-++--..+..||..|..+..|+++.
T Consensus 25 lE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~ 73 (107)
T PF09304_consen 25 LEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRN 73 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555566677666555444444444445555555555554443
No 78
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=25.83 E-value=55 Score=21.59 Aligned_cols=20 Identities=35% Similarity=0.504 Sum_probs=15.0
Q ss_pred HHHHhhhhhhhhhhcHHHHH
Q 014130 406 INILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~~~ 425 (430)
|+-|++||-.|.++..+-++
T Consensus 3 ~~rlr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSECRR 22 (23)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 57788888888887776554
No 79
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=24.84 E-value=1.8e+02 Score=28.50 Aligned_cols=48 Identities=19% Similarity=0.297 Sum_probs=35.1
Q ss_pred HHHHHHHhhhhhhhhhH---------HHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 380 ELKNQVREVVVERATLK---------LDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 380 ~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
|++..+.....+++.|. -|++..|.-++-+|.+||.|..+...|...|
T Consensus 136 D~~arl~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v 192 (262)
T PF14257_consen 136 DLEARLKNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDDRV 192 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 66666666666666553 3677788888888888888888888777665
No 80
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=24.08 E-value=2e+02 Score=23.67 Aligned_cols=14 Identities=29% Similarity=0.297 Sum_probs=6.1
Q ss_pred hhhhhhcHHHHHhh
Q 014130 414 DFLTRENEDLKRKN 427 (430)
Q Consensus 414 ~~~~~~~~~~~~~~ 427 (430)
..|.+|+..+++++
T Consensus 53 ~~L~~el~~~~~~l 66 (75)
T PF07989_consen 53 ESLKRELQEKKKLL 66 (75)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444443
No 81
>PRK15396 murein lipoprotein; Provisional
Probab=23.99 E-value=1.8e+02 Score=24.44 Aligned_cols=38 Identities=16% Similarity=0.276 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDF 415 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 415 (430)
|+.|..++.+++-+-.-++-+.+.|+..-+---.|||-
T Consensus 34 V~~L~~kvdql~~dv~~~~~~~~~a~~eA~raN~RlDn 71 (78)
T PRK15396 34 VQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDN 71 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555556666666666555555555554
No 82
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=23.47 E-value=2.5e+02 Score=21.24 Aligned_cols=50 Identities=12% Similarity=0.242 Sum_probs=32.2
Q ss_pred HHHHHHHHH------HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 375 AKLIKELKN------QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 375 ~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
++||..++. ||+++--=.+. +-=.....+.+|+.+++.++++.++|.+..
T Consensus 4 L~~I~~~r~lGfsL~eI~~~l~l~~~---~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~ 59 (65)
T PF09278_consen 4 LQFIRRLRELGFSLEEIRELLELYDQ---GDPPCADRRALLEEKLEEIEEQIAELQALR 59 (65)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHCCS---HCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHhccCC---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777776 66665411110 112334556789999999999999888754
No 83
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=23.43 E-value=1.5e+02 Score=32.56 Aligned_cols=44 Identities=25% Similarity=0.350 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.++||+++.++ +..+++|+++ -.-+|++|+.|..||+.|+..+.
T Consensus 78 asELEKqLaaL-----rqElq~~saq--~~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 78 AAQMQKQYEEI-----RRELDVLNKQ--RGDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred HHHHHHHHHHH-----HHHHHHHhhh--hhhHHHHHHHHHHHHHHHHHHHH
Confidence 34455555444 2334445443 34668888888888888877664
No 84
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=23.34 E-value=2.2e+02 Score=25.25 Aligned_cols=52 Identities=19% Similarity=0.280 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhhhhhhhhhHH----HhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 377 LIKELKNQVREVVVERATLKL----DLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
=|.+|+++|++.+.++-.-=+ .+=.++.+++.++++|+-|+.--+.||..|-
T Consensus 41 ~i~eld~~i~~~v~~~~~~LL~q~~~~~~~~~~l~~v~~~v~~L~~s~~RL~~eV~ 96 (132)
T PF10392_consen 41 DIQELDKRIRSQVTSNHEDLLSQASSIEELESVLQAVRSSVESLQSSYERLRSEVI 96 (132)
T ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 478888999998887753222 2335677899999999999999999887763
No 85
>KOG4657 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.23 E-value=2.2e+02 Score=28.66 Aligned_cols=28 Identities=25% Similarity=0.284 Sum_probs=21.3
Q ss_pred HHhhhHHHHHHHHhhhhhhhhhhcHHHH
Q 014130 397 LDLMSAQAMINILHSRIDFLTRENEDLK 424 (430)
Q Consensus 397 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (430)
.+.|..++-|.-+|++++.|.+-+.+|+
T Consensus 86 ~~q~~ieqeik~~q~elEvl~~n~Q~lk 113 (246)
T KOG4657|consen 86 ARQMGIEQEIKATQSELEVLRRNLQLLK 113 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777888888888888877776665
No 86
>PHA03155 hypothetical protein; Provisional
Probab=23.17 E-value=1.7e+02 Score=26.34 Aligned_cols=38 Identities=26% Similarity=0.493 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhhhhhhhhHHHhhhH-------------HHHHHHHhhhhhh
Q 014130 378 IKELKNQVREVVVERATLKLDLMSA-------------QAMINILHSRIDF 415 (430)
Q Consensus 378 ~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~ 415 (430)
+.+|+.|+.++.||--+||.-+-+- |+||+...++.-.
T Consensus 10 vEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~ 60 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTK 60 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999988663 7899888777654
No 87
>KOG1510 consensus RNA polymerase II holoenzyme and mediator subcomplex, subunit SURB7/SRB7 [Transcription]
Probab=23.15 E-value=3.2e+02 Score=25.39 Aligned_cols=52 Identities=15% Similarity=0.178 Sum_probs=34.9
Q ss_pred CCCCCCCCCccHHHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhh
Q 014130 363 ANDFDSQMPPDCAKLIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLT 417 (430)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 417 (430)
+-+++.+=+.--++.|+.||+|++++.-|++-+- =.++...-.+|++|...-
T Consensus 78 sLP~~~~~~e~Ql~~i~kLq~en~e~~~el~~~v---~~~e~Ll~~vq~~le~~a 129 (139)
T KOG1510|consen 78 SLPGEEGSAEAQLEKIKKLQEENEEVALELEELV---SKGEKLLEQVQSLLEDIA 129 (139)
T ss_pred hCCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 3344444445567789999999999888877653 345666777777775543
No 88
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=23.01 E-value=1.1e+02 Score=23.01 Aligned_cols=28 Identities=21% Similarity=0.256 Sum_probs=18.5
Q ss_pred hhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 400 MSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 400 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
++-.+.+.-|+.+|..|..+|+.|+..+
T Consensus 21 ~rkk~~~~~le~~~~~L~~en~~L~~~i 48 (54)
T PF07716_consen 21 QRKKQREEELEQEVQELEEENEQLRQEI 48 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566677777777777777776654
No 89
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=22.80 E-value=3.1e+02 Score=24.37 Aligned_cols=18 Identities=33% Similarity=0.447 Sum_probs=9.6
Q ss_pred HHHHhhhhhhhhhhcHHH
Q 014130 406 INILHSRIDFLTRENEDL 423 (430)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~ 423 (430)
|+.++.||+.|+..|.-|
T Consensus 107 ~~~~~~r~~dL~~QN~lL 124 (132)
T PF07926_consen 107 LSELEQRIEDLNEQNKLL 124 (132)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555555443
No 90
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=22.53 E-value=2.4e+02 Score=23.91 Aligned_cols=33 Identities=27% Similarity=0.406 Sum_probs=28.1
Q ss_pred HHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhh
Q 014130 379 KELKNQVREVVVERATLKLDLMSAQAMINILHS 411 (430)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 411 (430)
++++.+|+.|-..|..|-.|+..+++=.+-|+.
T Consensus 35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~ 67 (89)
T PF13747_consen 35 DELEEEIQRLDADRSRLAQELDQAEARANRLEE 67 (89)
T ss_pred hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHH
Confidence 678889999999999999999999887666554
No 91
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.00 E-value=1.2e+02 Score=26.39 Aligned_cols=16 Identities=31% Similarity=0.329 Sum_probs=6.0
Q ss_pred HHHHHHhhhhhhhhhH
Q 014130 381 LKNQVREVVVERATLK 396 (430)
Q Consensus 381 ~~~~~~~~~~~~~~~~ 396 (430)
|+.++.+...|-+.++
T Consensus 32 l~~q~~~~~~e~~~l~ 47 (105)
T PRK00888 32 VNDQVAAQQQTNAKLK 47 (105)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334433333333333
No 92
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=21.82 E-value=1.8e+02 Score=22.86 Aligned_cols=30 Identities=40% Similarity=0.490 Sum_probs=14.9
Q ss_pred HHHhhhHHHH--HHHHhhhhhhhhhhcHHHHH
Q 014130 396 KLDLMSAQAM--INILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 396 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 425 (430)
|+.-||.+-+ |.-.-+|||.|.+-..||..
T Consensus 18 kFq~mS~~I~~riDeM~~RIDdLE~si~dl~~ 49 (54)
T PF06825_consen 18 KFQTMSDQILGRIDEMSSRIDDLEKSIADLMT 49 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCHHHH-----
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 4444554433 44455788888877777654
No 93
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=21.72 E-value=1.8e+02 Score=26.01 Aligned_cols=53 Identities=30% Similarity=0.407 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHhhhhhhhh---hHHHhh-h-----HHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 375 AKLIKELKNQVREVVVERAT---LKLDLM-S-----AQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~---~~~~~~-~-----~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+|++||-+++++-..|-|- -|++-| + -|.-+..|.+|||.|.++.-||+...
T Consensus 45 k~~vddl~~q~k~~~~e~e~K~~r~i~~ml~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~ 106 (108)
T COG3937 45 KRFVDDLLRQAKEAQGELEEKIPRKIEEMLSDLEVARQSEMDELTERVDALERQVADLENKL 106 (108)
T ss_pred HHHHHHHHHHHHHHhhhHHHhhhHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 34999999988866554332 222222 2 12334567788888888888887543
No 94
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=21.55 E-value=2.9e+02 Score=24.76 Aligned_cols=52 Identities=15% Similarity=0.210 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
-+..|+.++....-.-+.|+.++=.++..+..++++.-.|.+++..+...++
T Consensus 60 ~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k 111 (151)
T PF11559_consen 60 KLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLK 111 (151)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555555555666666666666666655555554443
No 95
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=21.27 E-value=1.5e+02 Score=33.58 Aligned_cols=47 Identities=23% Similarity=0.270 Sum_probs=40.3
Q ss_pred HHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 379 KELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
+||-.++++++-|.+-|+-|+-+++..---||.||..|..|...+|.
T Consensus 325 NDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ 371 (832)
T KOG2077|consen 325 NDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKA 371 (832)
T ss_pred HHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888999999999999999999999988999999888766655543
No 96
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=21.05 E-value=1.1e+02 Score=30.74 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=19.6
Q ss_pred HHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 404 AMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 404 ~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
.-.+-++-||..|.+||+.||+.|.
T Consensus 215 ~~~~e~~~r~~~leken~~lr~~v~ 239 (269)
T KOG3119|consen 215 QKEDEMAHRVAELEKENEALRTQVE 239 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346678899999999999988764
No 97
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=21.01 E-value=2.4e+02 Score=25.01 Aligned_cols=53 Identities=28% Similarity=0.387 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhhhHHHHHH-----------HHhhhhhhhhhhcHHHHHhh
Q 014130 375 AKLIKELKNQVREVVVERATLKLDLMSAQAMIN-----------ILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 375 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~ 427 (430)
.+-|..|+.+..++-.+...|+.+.=+|++... .|+..|+.+.+..+||..-|
T Consensus 58 ~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN 121 (132)
T PF07926_consen 58 IKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQN 121 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555666666666666666665555555443 56666666667777766554
No 98
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=20.76 E-value=87 Score=25.10 Aligned_cols=23 Identities=35% Similarity=0.323 Sum_probs=17.3
Q ss_pred HHHHHhhhhhhhhhhcHHHHHhh
Q 014130 405 MINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 405 ~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
-|.-|+.|+..|..||.-||..+
T Consensus 22 ~I~eL~~~n~~Le~EN~~Lk~~~ 44 (59)
T PF01166_consen 22 QIAELEERNSQLEEENNLLKQNA 44 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 36677888888888888887654
No 99
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.60 E-value=1.9e+02 Score=24.15 Aligned_cols=44 Identities=14% Similarity=0.125 Sum_probs=31.3
Q ss_pred HHHHHHHHHH------HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHh
Q 014130 374 CAKLIKELKN------QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRK 426 (430)
Q Consensus 374 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (430)
.+++|..|++ ||.++--... .....+|+.+++.|.++.++|.++
T Consensus 46 ~l~~I~~lr~~G~~l~eI~~~l~~~~---------~~~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 46 RLHQIIALRRLGFSLREIGRALDGPD---------FDPLELLRRQLARLEEQLELATRL 95 (96)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhCCC---------hhHHHHHHHHHHHHHHHHHHHHhc
Confidence 5678888876 5554432211 156778999999999999999864
No 100
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=20.60 E-value=1.4e+02 Score=24.00 Aligned_cols=29 Identities=28% Similarity=0.340 Sum_probs=12.7
Q ss_pred hhhHHHHHHHHhhh----hhhhhhhcHHHHHhh
Q 014130 399 LMSAQAMINILHSR----IDFLTRENEDLKRKN 427 (430)
Q Consensus 399 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~ 427 (430)
+.+++.=|.+||.. +..|-.|+|-|++.+
T Consensus 5 v~s~e~~i~FLq~eH~~tL~~LH~EIe~Lq~~~ 37 (60)
T PF14916_consen 5 VQSLEKSILFLQQEHAQTLKGLHAEIERLQKRN 37 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444444444433 223444444444444
No 101
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=20.43 E-value=1.5e+02 Score=30.98 Aligned_cols=48 Identities=21% Similarity=0.326 Sum_probs=38.1
Q ss_pred HHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhhh
Q 014130 379 KELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKNK 428 (430)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (430)
+.|..||..||.|+=+-+.-||-- .|.|++|++.-++-|+.-++.+++
T Consensus 11 ~~~~~e~~~mste~i~~rtrlldn--EirI~~sev~ri~he~~~~~ekIk 58 (424)
T KOG0652|consen 11 DALDQEILSMSTEEIISRTRLLDN--EIRIMKSEVQRINHELQAMKEKIK 58 (424)
T ss_pred hhhhhhhhhccHHHHHHHHHHhhh--HHHHHHHHHHHhhhHHHHHHHHHH
Confidence 457789999999988888888764 588999999988888777666553
No 102
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=20.24 E-value=2.2e+02 Score=27.69 Aligned_cols=51 Identities=16% Similarity=0.191 Sum_probs=44.8
Q ss_pred HHHHHHHHHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 377 LIKELKNQVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
-..-|+-|..-+..+-+.++.|.-++-....+++.|+|.++.+.+.|...+
T Consensus 151 ~~~~l~ae~~~l~~~~~~le~el~s~~~rq~L~~~qrdl~~~~~~~l~~~l 201 (240)
T PF12795_consen 151 QRWLLQAELAALEAQIEMLEQELLSNNNRQELLQLQRDLLKARIQRLQQQL 201 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788899899999999999999999999999999999999988876654
No 103
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate 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 homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.11 E-value=2.1e+02 Score=24.71 Aligned_cols=52 Identities=12% Similarity=0.275 Sum_probs=32.7
Q ss_pred HHHHHHHHHH------HHHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 374 CAKLIKELKN------QVREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 374 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
-+++|..|++ ||+++.-...+-. ........++|+.++..|+++.++|.+..
T Consensus 45 ~l~~I~~lr~~G~sl~eI~~~l~~~~~~~--~~~~~~~~~~l~~~~~~l~~~i~~l~~~~ 102 (116)
T cd04769 45 CLRFIKEARQLGFTLAELKAIFAGHEGRA--VLPWPHLQQALEDKKQEIRAQITELQQLL 102 (116)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhccccCC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888876 6666644333322 23345556777777777777777776653
No 104
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.08 E-value=2.6e+02 Score=23.52 Aligned_cols=30 Identities=30% Similarity=0.327 Sum_probs=22.0
Q ss_pred HHHhhhHHHHHHHHhhhhhhhhhhcHHHHHhh
Q 014130 396 KLDLMSAQAMINILHSRIDFLTRENEDLKRKN 427 (430)
Q Consensus 396 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (430)
|-++|.. .|..|+..+..|..+|..|+..+
T Consensus 69 K~~~l~~--~i~~l~~ke~~l~~en~~L~~~~ 98 (100)
T PF01486_consen 69 KDQLLME--QIEELKKKERELEEENNQLRQKI 98 (100)
T ss_pred HHHHHHH--HHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444443 46788888888999999988765
No 105
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=20.01 E-value=2.8e+02 Score=26.32 Aligned_cols=47 Identities=28% Similarity=0.338 Sum_probs=28.4
Q ss_pred ccHHHHHHHHHHH---HHhhhhhhhhhHHHhhhHHHHHHHHhhhhhhhhhhcHHHHH
Q 014130 372 PDCAKLIKELKNQ---VREVVVERATLKLDLMSAQAMINILHSRIDFLTRENEDLKR 425 (430)
Q Consensus 372 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 425 (430)
..+..|+..|++. ...+..|.+.|+.|+.. ||.++..|.+||+.|+.
T Consensus 83 ~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~-------l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 83 QDVISFLQNLKTTNPSDQALQKENERLKNQNES-------LQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Confidence 4566777777764 44556677777777655 45555555555555543
Done!