Query 031064
Match_columns 166
No_of_seqs 118 out of 164
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:42:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031064.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031064hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00302 GED Dynamin GTPase 99.8 9.6E-21 2.1E-25 138.0 8.3 64 1-66 27-90 (92)
2 PF02212 GED: Dynamin GTPase e 99.6 4.8E-16 1E-20 112.3 5.5 64 1-66 27-90 (92)
3 KOG0446 Vacuolar sorting prote 99.4 2.6E-13 5.6E-18 127.9 8.4 67 1-71 587-653 (657)
4 COG0699 Predicted GTPases (dyn 79.0 11 0.00023 33.2 7.6 60 2-63 483-542 (546)
5 PF04999 FtsL: Cell division p 62.6 44 0.00096 23.9 6.5 51 20-71 38-88 (97)
6 COG3579 PepC Aminopeptidase C 62.2 9.1 0.0002 36.0 3.5 65 1-67 153-220 (444)
7 PF10863 DUF2702: Protein of u 61.0 16 0.00036 29.8 4.4 63 45-113 1-63 (143)
8 PF15369 KIAA1328: Uncharacter 56.1 36 0.00078 31.2 6.2 63 13-76 22-97 (328)
9 PF02153 PDH: Prephenate dehyd 53.0 1.1E+02 0.0025 25.4 8.3 63 2-64 171-246 (258)
10 PF02344 Myc-LZ: Myc leucine z 49.2 20 0.00043 22.8 2.5 26 35-60 4-29 (32)
11 COG4461 LprI Uncharacterized p 47.9 39 0.00085 28.8 4.8 67 2-70 33-103 (185)
12 cd01068 sensor_globin Globin d 46.6 1.2E+02 0.0025 22.4 6.8 46 8-55 24-69 (147)
13 KOG4570 Uncharacterized conser 41.9 76 0.0017 29.9 6.1 56 16-71 331-389 (418)
14 PF08776 VASP_tetra: VASP tetr 40.1 46 0.001 22.1 3.2 29 12-40 6-34 (40)
15 PRK13729 conjugal transfer pil 39.4 1.1E+02 0.0025 29.3 6.9 55 9-67 64-118 (475)
16 PF09440 eIF3_N: eIF3 subunit 38.8 1.5E+02 0.0033 23.4 6.6 23 41-63 64-86 (133)
17 KOG3119 Basic region leucine z 38.3 89 0.0019 27.1 5.6 34 32-65 222-255 (269)
18 PF02179 BAG: BAG domain; Int 37.7 1.2E+02 0.0025 21.1 5.2 32 33-64 42-74 (76)
19 PF09278 MerR-DNA-bind: MerR, 36.9 1.2E+02 0.0026 19.7 6.1 44 17-65 19-62 (65)
20 smart00751 BSD domain in trans 36.6 48 0.001 21.6 2.9 21 31-51 9-29 (51)
21 KOG0251 Clathrin assembly prot 36.5 1.1E+02 0.0023 29.3 6.3 54 9-65 196-249 (491)
22 PF05130 FlgN: FlgN protein; 36.1 1.6E+02 0.0034 21.0 8.5 35 30-64 72-106 (143)
23 PF06156 DUF972: Protein of un 34.9 91 0.002 23.8 4.7 49 10-60 9-57 (107)
24 PF09762 KOG2701: Coiled-coil 32.7 40 0.00088 28.0 2.6 29 33-61 44-72 (182)
25 cd06931 NR_LBD_HNF4_like The l 32.1 2.4E+02 0.0052 22.7 6.9 37 10-46 156-195 (222)
26 PF15219 TEX12: Testis-express 31.2 2.6E+02 0.0056 21.9 7.1 55 4-61 39-97 (100)
27 PF10400 Vir_act_alpha_C: Viru 31.0 72 0.0016 21.9 3.3 23 44-66 26-48 (90)
28 PF03914 CBF: CBF/Mak21 family 30.2 70 0.0015 24.9 3.4 54 9-71 10-63 (164)
29 PF07989 Microtub_assoc: Micro 30.1 1.6E+02 0.0034 21.2 5.0 40 26-65 30-69 (75)
30 PF14591 AF0941-like: AF0941-l 28.3 71 0.0015 25.8 3.2 26 47-72 59-84 (127)
31 KOG1830 Wiskott Aldrich syndro 27.8 1E+02 0.0022 29.9 4.6 55 10-65 29-83 (518)
32 COG4467 Regulator of replicati 27.8 1.4E+02 0.003 23.8 4.6 39 18-57 16-54 (114)
33 PRK01905 DNA-binding protein F 27.4 2.2E+02 0.0048 19.9 5.5 51 15-70 11-65 (77)
34 cd06950 NR_LBD_Tlx_PNR_like Th 27.1 1.3E+02 0.0028 24.4 4.6 17 10-26 150-166 (206)
35 PF07749 ERp29: Endoplasmic re 26.7 1.4E+02 0.0029 22.0 4.3 32 22-56 41-73 (95)
36 KOG3496 Cytochrome c oxidase a 26.5 68 0.0015 23.7 2.5 22 46-67 49-70 (72)
37 PF11593 Med3: Mediator comple 26.3 2.3E+02 0.0051 26.6 6.6 55 3-62 23-85 (379)
38 PF10205 KLRAQ: Predicted coil 26.0 3.2E+02 0.0068 21.2 6.3 46 22-71 31-76 (102)
39 PF10397 ADSL_C: Adenylosuccin 25.9 1.9E+02 0.0041 20.2 4.8 40 5-45 8-52 (81)
40 cd06943 NR_LBD_RXR_like The li 25.2 2.4E+02 0.0052 22.4 5.7 31 10-40 155-188 (207)
41 cd03204 GST_C_GDAP1 GST_C fami 24.3 1.7E+02 0.0036 22.1 4.4 43 24-66 4-46 (111)
42 PRK10997 yieM hypothetical pro 23.4 2.8E+02 0.0061 26.5 6.7 31 9-43 150-182 (487)
43 PRK13920 putative anti-sigmaE 23.3 69 0.0015 26.0 2.3 41 21-61 4-44 (206)
44 TIGR02209 ftsL_broad cell divi 23.3 2.5E+02 0.0055 19.2 6.6 48 21-69 28-75 (85)
45 PF14002 YniB: YniB-like prote 23.2 1.1E+02 0.0024 25.7 3.5 25 5-29 95-119 (166)
46 PF03904 DUF334: Domain of unk 23.1 3.2E+02 0.0069 24.1 6.4 51 14-66 94-144 (230)
47 PF07560 DUF1539: Domain of Un 22.8 24 0.00052 28.2 -0.4 46 4-50 42-87 (126)
48 PF09738 DUF2051: Double stran 22.6 5.4E+02 0.012 23.1 7.9 59 3-65 106-166 (302)
49 PF13060 DUF3921: Protein of u 22.6 92 0.002 21.9 2.5 8 21-28 29-36 (58)
50 PRK08655 prephenate dehydrogen 22.2 2.4E+02 0.0051 25.8 5.8 41 23-63 213-253 (437)
51 PF12464 Mac: Maltose acetyltr 22.1 1.5E+02 0.0032 18.9 3.4 23 40-62 13-35 (55)
52 PF13379 NMT1_2: NMT1-like fam 21.9 1.8E+02 0.0039 23.4 4.5 35 40-74 211-247 (252)
53 PF11382 DUF3186: Protein of u 21.1 1.9E+02 0.0042 25.3 4.8 45 18-66 29-73 (308)
54 PF12057 DUF3538: Domain of un 21.1 2.8E+02 0.0061 22.1 5.3 34 33-66 21-59 (120)
55 PRK14971 DNA polymerase III su 21.0 2.7E+02 0.0059 26.9 6.1 50 2-51 541-609 (614)
56 KOG1086 Cytosolic sorting prot 20.6 1.8E+02 0.004 28.5 4.8 55 12-67 171-234 (594)
57 PLN02712 arogenate dehydrogena 20.6 4.3E+02 0.0094 25.8 7.4 65 17-83 574-639 (667)
58 PF11563 Protoglobin: Protoglo 20.4 1.4E+02 0.003 22.2 3.3 46 8-55 26-71 (158)
59 PF13608 Potyvirid-P3: Protein 20.2 80 0.0017 29.5 2.4 24 19-44 2-25 (445)
No 1
>smart00302 GED Dynamin GTPase effector domain.
Probab=99.84 E-value=9.6e-21 Score=137.96 Aligned_cols=64 Identities=27% Similarity=0.453 Sum_probs=61.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031064 1 MVEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 1 ~VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qls 66 (166)
+||||||||||+++|+.||++||.+||+. +.+++||+|||.|+++|++|++|+++|++|..-|+
T Consensus 27 ~VPKaI~~~lv~~~~~~lq~~L~~~L~~~--~~~~~LL~E~~~i~~kR~~~~~~l~~L~~A~~~l~ 90 (92)
T smart00302 27 QVPKAIMYLLVNESKDSLQNELLALLYKE--ELLDELLEEDPEIASKRKELKKRLELLKKARQIIA 90 (92)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHhCc--ccHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 59999999999999999999999999984 78999999999999999999999999999998774
No 2
>PF02212 GED: Dynamin GTPase effector domain; InterPro: IPR003130 Dynamin GTPase effector domain found in proteins related to dynamin. Dynamin is a GTP-hydrolysing protein that is an essential participant in clathrin-mediated endocytosis by cells. It self-assembles into 'collars' in vivo at the necks of invaginated coated pits; the self-assembly of dynamin being coordinated by the GTPase domain. Mutation studies indicate that dynamin functions as a molecular regulator of receptor-mediated endocytosis [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3ZYS_B 3SZR_A 3LJB_B 3T35_C 3T34_A 2X2F_D 2X2E_D 3SNH_A 3ZYC_D 3ZVR_A.
Probab=99.62 E-value=4.8e-16 Score=112.29 Aligned_cols=64 Identities=33% Similarity=0.473 Sum_probs=58.2
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031064 1 MVEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 1 ~VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qls 66 (166)
.|||+|+||||+++++.|+++|+.+||.. +.+++||.|||.|+++|++|+++++.|++|.+-|+
T Consensus 27 ~Vpk~I~~~lv~~~~~~L~~~l~~~l~~~--~~~~~Ll~Ed~~i~~kR~~l~~~~~~L~~A~~~L~ 90 (92)
T PF02212_consen 27 SVPKAIMHFLVNKSKEQLQSELLNELYDE--EDLEELLQEDPEIAEKREELKKKLERLKKAQQILS 90 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHC--GGCCCCT--GHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhHHhHHHHHHHHhccch--HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999999999999975 55999999999999999999999999999998774
No 3
>KOG0446 consensus Vacuolar sorting protein VPS1, dynamin, and related proteins [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=99.44 E-value=2.6e-13 Score=127.95 Aligned_cols=67 Identities=31% Similarity=0.354 Sum_probs=60.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 031064 1 MVEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHDNR 71 (166)
Q Consensus 1 ~VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihdnr 71 (166)
.||||||||||+++|++||++|+.+||+ ..++++.||+|+|.|++||++|++|+++|++|.. |+++.
T Consensus 587 ~vpk~i~~~lv~~~k~~l~~~l~~~L~~-~~~~~~~ll~E~~~i~~~R~~~~~~l~~L~~a~~---ii~~~ 653 (657)
T KOG0446|consen 587 TVPKALNHELLNEFKDDLPNELDQRLYA-GDEQLESLLKEDPRIKRRRELQQKRLLALQKALS---ILATV 653 (657)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh-chhHHHHHHccCHHHHHHHHHHHHHHHHHHHHHH---HHHHH
Confidence 4899999999999999999999999998 3799999999999999999999999999998854 44444
No 4
>COG0699 Predicted GTPases (dynamin-related) [General function prediction only]
Probab=78.96 E-value=11 Score=33.17 Aligned_cols=60 Identities=20% Similarity=0.092 Sum_probs=54.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHh
Q 031064 2 VEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTR 63 (166)
Q Consensus 2 VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ 63 (166)
|++++++.+++..++..+......+|. ....++|..+.+.+.+.+..|.++++.+..+..
T Consensus 483 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 542 (546)
T COG0699 483 VLKAIFELLKNKRKRLAQKQRLKRLYL--EQLEDELLRTAEEILELRLLLEQFLEALKLAAR 542 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 688999999999999999999888886 478899999999999999999999999988876
No 5
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=62.55 E-value=44 Score=23.87 Aligned_cols=51 Identities=14% Similarity=0.224 Sum_probs=38.6
Q ss_pred HHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 031064 20 NQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHDNR 71 (166)
Q Consensus 20 neL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihdnr 71 (166)
.+++.++.+- +...+.|-.|+..+.-+......--..=+-|.++|+||.-+
T Consensus 38 ~~~~~~l~~l-~~~~~~l~~e~~~L~lE~~~l~~~~rIe~iA~~~LgM~~P~ 88 (97)
T PF04999_consen 38 RQLFYELQQL-EKEIDQLQEENERLRLEIATLSSPSRIERIAREKLGMVPPE 88 (97)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcCCCCCCC
Confidence 4555555553 56788888888888888888887777778888899998654
No 6
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=62.15 E-value=9.1 Score=35.99 Aligned_cols=65 Identities=18% Similarity=0.275 Sum_probs=51.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHH---HHHHHHHHHHHHHHHHHHHhhhhh
Q 031064 1 MVEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQN---VKRRRDRYQKQSELLSKLTRQLSI 67 (166)
Q Consensus 1 ~VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~---v~~RRe~c~kmLelLkkA~~qlsi 67 (166)
.|||.+|--.+.-+...-+|.|+.++-++....|..+++|--+ |...+++.. -|+|+=+..-|++
T Consensus 153 vVpK~~ypes~sSS~Sr~ln~~Ln~~LR~dAqiLR~a~~eg~~~~~v~~~kEe~l--~eif~~l~~~lg~ 220 (444)
T COG3579 153 VVPKSVYPESFSSSNSRELNALLNKLLRQDAQILRDALKEGADDDTVEALKEELL--QEIFNFLAMTLGL 220 (444)
T ss_pred CCchhhcccccccccHHHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHH--HHHHHHHHHHcCC
Confidence 5999999999999999999999999998766778889988555 666666654 3566666666665
No 7
>PF10863 DUF2702: Protein of unknown function (DUF2702); InterPro: IPR022592 This entry represents fungal proteins with unknown function.
Probab=61.05 E-value=16 Score=29.78 Aligned_cols=63 Identities=27% Similarity=0.317 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhccccCCCCCCCcCCCCCCCCcchhHHHHHHHhcCCCCc
Q 031064 45 KRRRDRYQKQSELLSKLTRQLSIHDNRAAAASNWSDGGGGAESSPRTSAASGDDWRSAFDAAANGPVSL 113 (166)
Q Consensus 45 ~~RRe~c~kmLelLkkA~~qlsihdnraa~as~~~~~~~~~~~~~~~~~~~g~dwr~af~~a~~~~~~~ 113 (166)
|.||+++++.++| +|-=||+|--|=+.|.+ |-..+.+.+.+..+.-..-++-+.+|- +.|+-.
T Consensus 1 MsRrkEIkeK~~L--QAk~Q~afS~nn~kvl~-WL~~~~~~~~~~~~~~~~~~~s~~~F~---~LPVI~ 63 (143)
T PF10863_consen 1 MSRRKEIKEKLAL--QAKFQLAFSNNNSKVLS-WLKPSKSKTSSNSTSKTELNDSKDSFF---NLPVIQ 63 (143)
T ss_pred CchHHHHHHHHHH--HHHHHHHHhhhHHHHHH-hcCcCccCCCCCccccccCCccHHHhh---cCCccc
Confidence 4699999998887 56668999888877666 988775454432222123455566663 566543
No 8
>PF15369 KIAA1328: Uncharacterised protein KIAA1328
Probab=56.14 E-value=36 Score=31.23 Aligned_cols=63 Identities=21% Similarity=0.276 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHH-------HHHHHHHHHHHH-Hhh-----hhhhhhhhhhhc
Q 031064 13 KAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRD-------RYQKQSELLSKL-TRQ-----LSIHDNRAAAAS 76 (166)
Q Consensus 13 kAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe-------~c~kmLelLkkA-~~q-----lsihdnraa~as 76 (166)
.-||.+-.+|-.+--.- +..|..|..++..|++.|+ +|+.+|.+|++- ++| +||-+..||-+-
T Consensus 22 ~~~e~~~~~~~~~~~~~-e~~~~~l~~~~~~~~~~~~~~~~qyrecqell~lyq~ylseqq~kl~~s~~~l~~~~~~ 97 (328)
T PF15369_consen 22 EEKEVTEERLKAEQESF-EKKIRQLEEQNELIIKEREDLQQQYRECQELLSLYQKYLSEQQEKLTMSLSELSAARMK 97 (328)
T ss_pred hHHHHHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHhhhhhhh
Confidence 34555555554433221 3457777777777777775 799999999874 333 577777765443
No 9
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=52.96 E-value=1.1e+02 Score=25.45 Aligned_cols=63 Identities=8% Similarity=0.130 Sum_probs=44.6
Q ss_pred chhHHHHHHHHHHHHH------HHH------HHHHHHhccchHHHHHHHhcCHH-HHHHHHHHHHHHHHHHHHHhh
Q 031064 2 VEQAVVLCQVEKAKED------MLN------QLYSSVGAQSTARIEELLQEDQN-VKRRRDRYQKQSELLSKLTRQ 64 (166)
Q Consensus 2 VPKAIMl~LVnkAKe~------LQn------eL~s~LYk~~~~~l~eLL~Ed~~-v~~RRe~c~kmLelLkkA~~q 64 (166)
+|-.|...|++-..+. +.+ +..+.|.+..++...+++.+|+. +.+.+++..+.|+-|+++.++
T Consensus 171 lpH~~a~al~~~~~~~~~~~~~~~~~a~~~frd~tRia~~~p~l~~~I~~~N~~~~~~~l~~~~~~L~~l~~~l~~ 246 (258)
T PF02153_consen 171 LPHLLASALANTLAELSSDDPDILRLAGGGFRDMTRIASSDPELWADIFLSNPENLLEALDEFIKELNELREALEA 246 (258)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHGTHHHHHHHGGGGS-HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHhcCCChHHHHhhcchhHHhhcccccCChHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4666777777732211 111 23446677778899999999998 999999999999988888764
No 10
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=49.18 E-value=20 Score=22.83 Aligned_cols=26 Identities=27% Similarity=0.607 Sum_probs=19.9
Q ss_pred HHHHhcCHHHHHHHHHHHHHHHHHHH
Q 031064 35 EELLQEDQNVKRRRDRYQKQSELLSK 60 (166)
Q Consensus 35 ~eLL~Ed~~v~~RRe~c~kmLelLkk 60 (166)
..|+.|-+.+..+|+.++..|+-|+.
T Consensus 4 qkL~sekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 4 QKLISEKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35778888888999999888887764
No 11
>COG4461 LprI Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]
Probab=47.88 E-value=39 Score=28.79 Aligned_cols=67 Identities=21% Similarity=0.159 Sum_probs=53.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHH----HHHHHHHHHhhhhhhhh
Q 031064 2 VEQAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQK----QSELLSKLTRQLSIHDN 70 (166)
Q Consensus 2 VPKAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~k----mLelLkkA~~qlsihdn 70 (166)
|-|||-+.-+-..++..++.-|.+|... ..=+.|=+|-....+.|.+|.. ..++|.+...||++-|-
T Consensus 33 vEkaICan~~L~~lD~~~~t~Y~ql~a~--~~~~~lr~~qq~Wlk~r~~C~sDtdcl~~AY~~ri~qL~~a~~ 103 (185)
T COG4461 33 VEKAICANRQLNDLDVTLSTAYQQLFAM--GRRGALRDAQQSWLKLRNACASDTDCLQRAYEQRLAQLSKADP 103 (185)
T ss_pred hHHHhcCChhhhhHHHHHHHHHHHHHcc--cchHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHhcccc
Confidence 5688888888889999999999888854 5566777788888888888876 55688888999988664
No 12
>cd01068 sensor_globin Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic heme sensors combining a globin with an MCP signaling domain, others function as gene regulators, by direct combination with DNA-binding domains, with domains modulating 2nd messengers, or with domains interacting with transcription factors or regulators.
Probab=46.62 E-value=1.2e+02 Score=22.44 Aligned_cols=46 Identities=11% Similarity=0.304 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHH
Q 031064 8 LCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQS 55 (166)
Q Consensus 8 l~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmL 55 (166)
.-+|....+.|.+.||..|.+. ..+..++..+..+.+.+....+-+
T Consensus 24 ~~~~~~~~~~i~~~FY~~l~~~--p~~~~~~~~~~~~~~l~~~~~~~~ 69 (147)
T cd01068 24 RPVIEANADELVDRFYDHLRRT--PETAAFLGDESVVERLKSTQRRHW 69 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC--hHHHHHhCCchHHHHHHHHHHHHH
Confidence 3467788899999999999985 778888876555554444433333
No 13
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.87 E-value=76 Score=29.91 Aligned_cols=56 Identities=30% Similarity=0.253 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhccchHHHHHHHh---cCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 031064 16 EDMLNQLYSSVGAQSTARIEELLQ---EDQNVKRRRDRYQKQSELLSKLTRQLSIHDNR 71 (166)
Q Consensus 16 e~LQneL~s~LYk~~~~~l~eLL~---Ed~~v~~RRe~c~kmLelLkkA~~qlsihdnr 71 (166)
++=+.-++++||..-....+.|++ -.+-|.+|-.+|++-+..|-.--.|++.-|||
T Consensus 331 e~~l~A~~~kl~~ew~~~~eal~~rQl~~qlv~er~~ti~~el~~l~eq~~q~wff~nr 389 (418)
T KOG4570|consen 331 EERLKALHSKLQAEWKIESEALLSRQLTTQLVKERLSTIEAELIALYEQNLQQWFFDNR 389 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 334456788888766677888887 45666778889999999999999999999999
No 14
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=40.13 E-value=46 Score=22.08 Aligned_cols=29 Identities=24% Similarity=0.382 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHhccchHHHHHHHhc
Q 031064 12 EKAKEDMLNQLYSSVGAQSTARIEELLQE 40 (166)
Q Consensus 12 nkAKe~LQneL~s~LYk~~~~~l~eLL~E 40 (166)
.+-|.+|+.++..+|-+-..+.|+.+.+|
T Consensus 6 e~~KqEIL~EvrkEl~K~K~EIIeA~~~e 34 (40)
T PF08776_consen 6 ERLKQEILEEVRKELQKVKEEIIEAIRQE 34 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888888888877666666665544
No 15
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=39.45 E-value=1.1e+02 Score=29.30 Aligned_cols=55 Identities=16% Similarity=0.170 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 031064 9 CQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSI 67 (166)
Q Consensus 9 ~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsi 67 (166)
-+|++++-.-|++-.++|- ++|++|-+|-+.+.+.++..+..|+.|..-.++|.-
T Consensus 64 dkVnqSALteqQ~kasELE----KqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~ 118 (475)
T PRK13729 64 DKVRQHATTEMQVTAAQMQ----KQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAE 118 (475)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Confidence 3589999999999999997 579999889888888898888888888776666643
No 16
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=38.81 E-value=1.5e+02 Score=23.38 Aligned_cols=23 Identities=13% Similarity=0.186 Sum_probs=16.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHh
Q 031064 41 DQNVKRRRDRYQKQSELLSKLTR 63 (166)
Q Consensus 41 d~~v~~RRe~c~kmLelLkkA~~ 63 (166)
...+.+||+++.+.++.|+..+.
T Consensus 64 p~e~~~kr~~Vl~~l~~l~~~~~ 86 (133)
T PF09440_consen 64 PAELAEKREEVLAELKELEEETE 86 (133)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888888777776554
No 17
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=38.27 E-value=89 Score=27.07 Aligned_cols=34 Identities=26% Similarity=0.435 Sum_probs=31.3
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 32 ARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 32 ~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
.++.+|.+|++.+..+.++.++.+..|+.+..|+
T Consensus 222 ~r~~~leken~~lr~~v~~l~~el~~~~~~~~~~ 255 (269)
T KOG3119|consen 222 HRVAELEKENEALRTQVEQLKKELATLRRLFLQL 255 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5789999999999999999999999999988875
No 18
>PF02179 BAG: BAG domain; InterPro: IPR003103 BAG domains are present in Bcl-2-associated athanogene 1 and silencer of death domains. The BAG proteins are modulators of chaperone activity, they bind to HSP70/HSC70 proteins and promote substrate release. The proteins have anti-apoptotic activity and increase the anti-cell death function of BCL-2 induced by various stimuli. BAG-1 binds to the serine/threonine kinase Raf-1 or Hsc70/Hsp70 in a mutually exclusive interaction. BAG-1 promotes cell growth by binding to and stimulating Raf-1 activity. The binding of Hsp70 to BAG-1 diminishes Raf-1 signalling and inhibits subsequent events, such as DNA synthesis, as well as arrests the cell cycle. BAG-1 has been suggested to function as a molecular switch that encourages cells to proliferate in normal conditions but become quiescent under a stressful environment []. BAG-family proteins contain a single BAG domain, except for human BAG-5 which has four BAG repeats. The BAG domain is a conserved region located at the C terminus of the BAG-family proteins that binds the ATPase domain of Hsc70/Hsp70. The BAG domain is evolutionarily conserved, and BAG domain containing proteins have been described and/or proven in a variety of organisms including Mus musculus (Mouse), Xenopus spp., Drosophila spp., Bombyx mori (Silk moth), Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast), Schizosaccharomyces pombe (Fission yeast), and Arabidopsis thaliana (Mouse-ear cress). The BAG domain has 110-124 amino acids and is comprised of three anti-parallel alpha-helices, each approximately 30-40 amino acids in length. The first and second helices interact with the serine/threonine kinase Raf-1 and the second and third helices are the sites of the BAG domain interaction with the ATPase domain of Hsc70/Hsp70. Binding of the BAG domain to the ATPase domain is mediated by both electrostatic and hydrophobic interactions in BAG-1 and is energy requiring.; GO: 0051087 chaperone binding; PDB: 1M7K_A 1M62_A 1T7S_A 1UGO_A 1I6Z_A 3A8Y_C 1UK5_A 3FZM_B 3FZL_B 3M3Z_B ....
Probab=37.73 E-value=1.2e+02 Score=21.13 Aligned_cols=32 Identities=9% Similarity=0.288 Sum_probs=24.7
Q ss_pred HHHHH-HhcCHHHHHHHHHHHHHHHHHHHHHhh
Q 031064 33 RIEEL-LQEDQNVKRRRDRYQKQSELLSKLTRQ 64 (166)
Q Consensus 33 ~l~eL-L~Ed~~v~~RRe~c~kmLelLkkA~~q 64 (166)
.||.+ ...++.+...|+.+.+.+..|-....+
T Consensus 42 kLD~I~~~g~~~iR~~RK~~v~~iq~~l~~lD~ 74 (76)
T PF02179_consen 42 KLDSIETEGNPEIREKRKQAVKRIQQLLDKLDS 74 (76)
T ss_dssp HHHTCECSSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhcCcccCCCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 56776 667789999999999988877665544
No 19
>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=36.94 E-value=1.2e+02 Score=19.72 Aligned_cols=44 Identities=16% Similarity=0.165 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 17 DMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 17 ~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
+|..-| .+|...+....+.. ..+.++++++.++++-|.++-++|
T Consensus 19 eI~~~l--~l~~~~~~~~~~~~---~~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 19 EIRELL--ELYDQGDPPCADRR---ALLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp HHHHHH--HHCCSHCHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHH--hccCCCCCCHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444 66654344444444 678889999999999999888776
No 20
>smart00751 BSD domain in transcription factors and synapse-associated proteins.
Probab=36.60 E-value=48 Score=21.57 Aligned_cols=21 Identities=29% Similarity=0.425 Sum_probs=17.8
Q ss_pred hHHHHHHHhcCHHHHHHHHHH
Q 031064 31 TARIEELLQEDQNVKRRRDRY 51 (166)
Q Consensus 31 ~~~l~eLL~Ed~~v~~RRe~c 51 (166)
.+.+..||.|+|.+.+-+.++
T Consensus 9 ~~~i~~il~~~p~l~~~~~~l 29 (51)
T smart00751 9 KEEIESLLKENPLLKKLYNEL 29 (51)
T ss_pred HHHHHHHHHHCHHHHHHHHHH
Confidence 578889999999999888774
No 21
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.52 E-value=1.1e+02 Score=29.34 Aligned_cols=54 Identities=15% Similarity=0.135 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 9 CQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 9 ~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
.||..|-.-|.++++. ||..=.+-|..||.- ..--.+..|.+-|++|+++..|.
T Consensus 196 ~lI~~A~~lvvkdsf~-ly~~i~~gi~~Llek--ffem~~~~a~~al~iykr~~~q~ 249 (491)
T KOG0251|consen 196 GLIIEAFELVVKDSFK-LYAAINDGIINLLEK--FFEMSKHDAIKALDIYKRFLSQT 249 (491)
T ss_pred cHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH--HhhcchHHHHHHHHHHHHHHHHH
Confidence 4666777777777654 443334667777754 55567899999999999998863
No 22
>PF05130 FlgN: FlgN protein; InterPro: IPR007809 Flagella synthesis protein FlgN is an export chaperone involved in flagellar synthesis []. This entry represents a FlgN-like domain, consisting of a 4 long helices bundle, where the last helix is shorter than the three others.; GO: 0009296 flagellum assembly, 0019861 flagellum; PDB: 2FUP_A 3OPC_A.
Probab=36.13 E-value=1.6e+02 Score=20.96 Aligned_cols=35 Identities=20% Similarity=0.324 Sum_probs=28.5
Q ss_pred chHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhh
Q 031064 30 STARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQ 64 (166)
Q Consensus 30 ~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~q 64 (166)
....+.+++.+.+.+...+.++.++++-++...+.
T Consensus 72 ~~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~n~~ 106 (143)
T PF05130_consen 72 EEATLSELIEEREELQALWRELRELLEELQELNER 106 (143)
T ss_dssp CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668888889999999999999888888776654
No 23
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=34.91 E-value=91 Score=23.85 Aligned_cols=49 Identities=16% Similarity=0.405 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Q 031064 10 QVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSK 60 (166)
Q Consensus 10 LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkk 60 (166)
.|....+.| .+|+.+|..- ...+.+||.|+..+.-.-..+.++|.-+.+
T Consensus 9 ~l~~le~~l-~~l~~~~~~L-K~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 9 RLDQLEQQL-GQLLEELEEL-KKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHH-HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444443 4677777764 568999999999999888888888777665
No 24
>PF09762 KOG2701: Coiled-coil domain-containing protein (DUF2037); InterPro: IPR019159 This entry represents a family of coiled-coil-containing proteins conserved from plants to vertebrates. It includes Drosophila fidipidine, whose function is unknown.
Probab=32.69 E-value=40 Score=28.03 Aligned_cols=29 Identities=24% Similarity=0.386 Sum_probs=24.8
Q ss_pred HHHHHHhcCHHHHHHHHHHHHHHHHHHHH
Q 031064 33 RIEELLQEDQNVKRRRDRYQKQSELLSKL 61 (166)
Q Consensus 33 ~l~eLL~Ed~~v~~RRe~c~kmLelLkkA 61 (166)
..+=|-+|+..+.+|++.|++.+++|++.
T Consensus 44 ~~dllf~E~~~i~~Ki~~~ekIv~~L~~m 72 (182)
T PF09762_consen 44 DVDLLFQENSTIGQKIALCEKIVEALPKM 72 (182)
T ss_pred CccchhcccccHHHHHHHHHHHHHHHHhC
Confidence 45556788899999999999999999864
No 25
>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes. The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig
Probab=32.12 E-value=2.4e+02 Score=22.65 Aligned_cols=37 Identities=16% Similarity=0.179 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHH---hccchHHHHHHHhcCHHHHH
Q 031064 10 QVEKAKEDMLNQLYSSV---GAQSTARIEELLQEDQNVKR 46 (166)
Q Consensus 10 LVnkAKe~LQneL~s~L---Yk~~~~~l~eLL~Ed~~v~~ 46 (166)
.|.+.++.+++.|..-+ +.....+|.+||.=-+.+..
T Consensus 156 ~i~~~r~~~~~aL~~y~~~~~~~~~~Rf~~LL~~l~~lr~ 195 (222)
T cd06931 156 KIKRLRFQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQS 195 (222)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHH
Confidence 46666666666666543 12233455555555555443
No 26
>PF15219 TEX12: Testis-expressed 12
Probab=31.20 E-value=2.6e+02 Score=21.86 Aligned_cols=55 Identities=16% Similarity=0.186 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHH----HHHHHHHHHHHHHHHHHH
Q 031064 4 QAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQN----VKRRRDRYQKQSELLSKL 61 (166)
Q Consensus 4 KAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~----v~~RRe~c~kmLelLkkA 61 (166)
|-|-+.+-++|+=-=++.-+.--| .+.||.|++|-.+ ++++|+-+.+++.++..-
T Consensus 39 kEinlmls~yA~ilSEraavd~sy---i~eiD~lfkEA~~lEnfLkqkre~LrQrlt~isnt 97 (100)
T PF15219_consen 39 KEINLMLSTYAKILSERAAVDASY---ITEIDGLFKEANALENFLKQKRECLRQRLTVISNT 97 (100)
T ss_pred HHHHHHHHHHHHHHhHHHHhhhhh---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555565544555555555 3689999999765 468888888888776543
No 27
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=31.01 E-value=72 Score=21.86 Aligned_cols=23 Identities=9% Similarity=0.315 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 031064 44 VKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 44 v~~RRe~c~kmLelLkkA~~qls 66 (166)
+.++++.|.++|..|++...++-
T Consensus 26 l~~~~~~~~~~l~~~~~~~~~~~ 48 (90)
T PF10400_consen 26 LEERREQHEERLAEYEEIEQEIF 48 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 45788899999999988765543
No 28
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=30.16 E-value=70 Score=24.86 Aligned_cols=54 Identities=19% Similarity=0.209 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 031064 9 CQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHDNR 71 (166)
Q Consensus 9 ~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihdnr 71 (166)
+++-...+....+||..||.. | + +|.+..-..+..-.+.+|.++.+.=.+.-+|
T Consensus 10 ~~l~~~~n~d~~~FY~~LY~~----L---~--~p~~~~~~~~~~~~l~lL~~~l~~~~~~~~r 63 (164)
T PF03914_consen 10 FQLLSGQNIDLDRFYRALYSL----L---L--DPELFSSSDKSALLLNLLDKSLKSDHLPIQR 63 (164)
T ss_pred HHHHHcCCCcHHHHHHHHHHH----H---c--chhhccccchHHHHHHHHHHHHcccCCcHHH
Confidence 334444577778999999952 2 1 3333333222223566666665544445555
No 29
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=30.08 E-value=1.6e+02 Score=21.19 Aligned_cols=40 Identities=23% Similarity=0.321 Sum_probs=28.8
Q ss_pred HhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 26 VGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 26 LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
|-+..++..+++++|+=.++......++-+.-+++...++
T Consensus 30 l~~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a 69 (75)
T PF07989_consen 30 LQKLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEA 69 (75)
T ss_pred HHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333467899999998888877777777777776666554
No 30
>PF14591 AF0941-like: AF0941-like; PDB: 1YOZ_B.
Probab=28.26 E-value=71 Score=25.84 Aligned_cols=26 Identities=19% Similarity=0.141 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhh
Q 031064 47 RRDRYQKQSELLSKLTRQLSIHDNRA 72 (166)
Q Consensus 47 RRe~c~kmLelLkkA~~qlsihdnra 72 (166)
-+++|++.+..|+--..||+.|=+|+
T Consensus 59 ~eEEA~~ll~eL~~~asqL~~~~~~~ 84 (127)
T PF14591_consen 59 DEEEALQLLDELKSYASQLQEHYFRV 84 (127)
T ss_dssp -HHHHHHHHHHHHHHHHTHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48889999999998889999999984
No 31
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=27.79 E-value=1e+02 Score=29.89 Aligned_cols=55 Identities=22% Similarity=0.322 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 10 QVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 10 LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
--|-+--.|.++| ++|.|--|+.|+||..|--.+--|=..++.+++-|..-..||
T Consensus 29 vtN~TLaniIRQL-sSLSKhAEdIFGELf~da~~f~~R~NSLQ~RIDRL~vkVtqL 83 (518)
T KOG1830|consen 29 VTNITLANIIRQL-SSLSKHAEDIFGELFNDANNFNHRANSLQERIDRLAVKVTQL 83 (518)
T ss_pred ecchHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHhhhhhcc
Confidence 3344444555554 678888789999999999888877777777777766555444
No 32
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=27.78 E-value=1.4e+02 Score=23.84 Aligned_cols=39 Identities=13% Similarity=0.319 Sum_probs=30.9
Q ss_pred HHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHH
Q 031064 18 MLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSEL 57 (166)
Q Consensus 18 LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLel 57 (166)
=+++|+.+|..- ...+.+|+.|+-++.-.=+.+.++|.-
T Consensus 16 ~l~~l~~el~~l-K~~l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 16 QLGVLLAELGGL-KQHLGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence 357889999875 578999999999998777777776654
No 33
>PRK01905 DNA-binding protein Fis; Provisional
Probab=27.45 E-value=2.2e+02 Score=19.89 Aligned_cols=51 Identities=14% Similarity=0.098 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHH----HHHHHhhhhhhhh
Q 031064 15 KEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSEL----LSKLTRQLSIHDN 70 (166)
Q Consensus 15 Ke~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLel----LkkA~~qlsihdn 70 (166)
++.|.+.|-..+.+..+..+++.|.+- .|+-+.+.++. ..+|.++|.|+-.
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~l~~~-----E~~~i~~aL~~~~gn~s~aAr~LGIsrs 65 (77)
T PRK01905 11 RDSLDQYFRDLDGSNPHDVYDMVLSCV-----EKPLLEVVMEQAGGNQSLAAEYLGINRN 65 (77)
T ss_pred HHHHHHHHHHHcCCCCccHHHHHHHHH-----HHHHHHHHHHHcCCCHHHHHHHHCCCHH
Confidence 444444444444544445666655432 24445555543 5578888888543
No 34
>cd06950 NR_LBD_Tlx_PNR_like The ligand binding domain of Tailless-like proteins, orphan nuclear receptors. The ligand binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like family: This family includes photoreceptor cell-specific nuclear receptor (PNR), Tailless (TLX), and related receptors. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX and PNR have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge
Probab=27.13 E-value=1.3e+02 Score=24.42 Aligned_cols=17 Identities=24% Similarity=0.247 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 031064 10 QVEKAKEDMLNQLYSSV 26 (166)
Q Consensus 10 LVnkAKe~LQneL~s~L 26 (166)
.|++.++.+++.|..-+
T Consensus 150 ~Ve~lq~~~~~aL~~y~ 166 (206)
T cd06950 150 QVEALQDQAQLMLNKHI 166 (206)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56666666666665544
No 35
>PF07749 ERp29: Endoplasmic reticulum protein ERp29, C-terminal domain; InterPro: IPR011679 ERp29 is a ubiquitously expressed endoplasmic reticulum protein found in mammals []. This protein is found associated with an N-terminal thioredoxin-like domain (IPR006662 from INTERPRO), which is homologous to the domain of human protein disulphide isomerase (PDI). ERp29 may help mediate the chaperone function of PDI. The C-terminal Erp29 domain has a 5-helical bundle fold. ERp29 is thought to form part of the thyroglobulin folding complex []. ; GO: 0005783 endoplasmic reticulum; PDB: 2QC7_B 1G7D_A 2C0G_B 1OVN_A 2C0F_A 2C0E_A 2C1Y_A.
Probab=26.72 E-value=1.4e+02 Score=21.95 Aligned_cols=32 Identities=16% Similarity=0.304 Sum_probs=25.2
Q ss_pred HHHHHhccchHHHHHHHhc-CHHHHHHHHHHHHHHH
Q 031064 22 LYSSVGAQSTARIEELLQE-DQNVKRRRDRYQKQSE 56 (166)
Q Consensus 22 L~s~LYk~~~~~l~eLL~E-d~~v~~RRe~c~kmLe 56 (166)
-+...|- ..++.++.. ++.|....+++.+||+
T Consensus 41 ~~a~~Yv---kvm~Ki~~~g~~fv~~E~~RL~~lL~ 73 (95)
T PF07749_consen 41 KYAKYYV---KVMEKIIEKGEEFVAKEIARLERLLE 73 (95)
T ss_dssp HHHHHHH---HHHHHHHHSGTHHHHHHHHHHHHHHH
T ss_pred HhHHHHH---HHHHHHHHccchHHHHHHHHHHHHHh
Confidence 5667775 578888888 8888888888888876
No 36
>KOG3496 consensus Cytochrome c oxidase assembly protein/Cu2+ chaperone COX17 [Posttranslational modification, protein turnover, chaperones]
Probab=26.49 E-value=68 Score=23.71 Aligned_cols=22 Identities=14% Similarity=0.138 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhh
Q 031064 46 RRRDRYQKQSELLSKLTRQLSI 67 (166)
Q Consensus 46 ~RRe~c~kmLelLkkA~~qlsi 67 (166)
+--++|.+++|+++++.+++++
T Consensus 49 ~gee~C~~lIEahk~CMr~~GF 70 (72)
T KOG3496|consen 49 NGEEKCGKLIEAHKECMRAYGF 70 (72)
T ss_pred cCHHHHHHHHHHHHHHHHHcCC
Confidence 4457899999999999998764
No 37
>PF11593 Med3: Mediator complex subunit 3 fungal; InterPro: IPR020998 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents the subunit Med3, which is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=26.30 E-value=2.3e+02 Score=26.61 Aligned_cols=55 Identities=20% Similarity=0.354 Sum_probs=35.2
Q ss_pred hhHHHHHHHHHHHHHHH------HHHHHHHhccchHHHHHHHhcCHHHH--HHHHHHHHHHHHHHHHH
Q 031064 3 EQAVVLCQVEKAKEDML------NQLYSSVGAQSTARIEELLQEDQNVK--RRRDRYQKQSELLSKLT 62 (166)
Q Consensus 3 PKAIMl~LVnkAKe~LQ------neL~s~LYk~~~~~l~eLL~Ed~~v~--~RRe~c~kmLelLkkA~ 62 (166)
+|-+|+..|.++|+.|| |||+.-+. .||++-.+++.=+ .-|.++.++.+-|+..+
T Consensus 23 ~Kd~V~~~I~ea~~sILPlRL~FNeFi~tma-----~Ie~~~~~s~qeKFl~IR~KlleL~~~lQ~lS 85 (379)
T PF11593_consen 23 SKDSVMDKISEAQDSILPLRLQFNEFIQTMA-----NIEEMNNKSPQEKFLLIRSKLLELYNKLQELS 85 (379)
T ss_pred hHHHHHHHHHHHHhccccHHHHHHHHHHHHH-----HhhcccccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999999999986 67776665 4566655554433 44555544444444433
No 38
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=26.05 E-value=3.2e+02 Score=21.24 Aligned_cols=46 Identities=17% Similarity=0.289 Sum_probs=34.4
Q ss_pred HHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 031064 22 LYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHDNR 71 (166)
Q Consensus 22 L~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihdnr 71 (166)
|=.+|-.+ +..|-.+.+|.+-+--|-..+.|+++.|..=.. ++.+.
T Consensus 31 L~e~Lk~k-e~~LRk~eqE~dSL~FrN~QL~kRV~~LQ~El~---~~~~~ 76 (102)
T PF10205_consen 31 LKEQLKEK-EQALRKLEQENDSLTFRNQQLTKRVEVLQEELE---ESEQK 76 (102)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---Hhhcc
Confidence 33444442 567999999999999999999999999986544 44444
No 39
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=25.95 E-value=1.9e+02 Score=20.17 Aligned_cols=40 Identities=20% Similarity=0.366 Sum_probs=24.0
Q ss_pred HHHHHHHHH--HHHHHHHHHHHHHhcc---chHHHHHHHhcCHHHH
Q 031064 5 AVVLCQVEK--AKEDMLNQLYSSVGAQ---STARIEELLQEDQNVK 45 (166)
Q Consensus 5 AIMl~LVnk--AKe~LQneL~s~LYk~---~~~~l~eLL~Ed~~v~ 45 (166)
+||..|+.+ .|+..+ +|+.++... +...|.+.|.+|+.|.
T Consensus 8 ~v~~~L~~~G~gR~~Ah-~lv~~~a~~a~~~~~~l~e~l~~d~~i~ 52 (81)
T PF10397_consen 8 RVMLALAEKGLGRQEAH-ELVQEAAMEAWENGRDLREVLLADPEIA 52 (81)
T ss_dssp HHHHHHHHTTH-HHHHH-HHHHHHHHHHHHTTS-HHHHHCTTHHHH
T ss_pred HHHHHHHHHccCHHHHH-HHHHHHHHHHHHHCCCHHHHHHCCHHHH
Confidence 689999987 344332 333333221 2356888999999987
No 40
>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily. The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func
Probab=25.24 E-value=2.4e+02 Score=22.38 Aligned_cols=31 Identities=23% Similarity=0.330 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHH---hccchHHHHHHHhc
Q 031064 10 QVEKAKEDMLNQLYSSV---GAQSTARIEELLQE 40 (166)
Q Consensus 10 LVnkAKe~LQneL~s~L---Yk~~~~~l~eLL~E 40 (166)
.|++.++.+++-|..-+ |.....+|.+||.=
T Consensus 155 ~v~~~q~~~~~aL~~y~~~~~~~~~~Rf~~LLl~ 188 (207)
T cd06943 155 EVESLREKVYASLEEYCRQKHPEQPGRFAKLLLR 188 (207)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCcccHHHHHHHH
Confidence 55666666665555544 33334455555543
No 41
>cd03204 GST_C_GDAP1 GST_C family, Ganglioside-induced differentiation-associated protein 1 (GDAP1) subfamily; GDAP1 was originally identified as a highly expressed gene at the differentiated stage of GD3 synthase-transfected cells. More recently, mutations in GDAP1 have been reported to cause both axonal and demyelinating autosomal-recessive Charcot-Marie-Tooth (CMT) type 4A neuropathy. CMT is characterized by slow and progressive weakness and atrophy of muscles. Sequence analysis of GDAP1 shows similarities and differences with GSTs; it appears to contain both N-terminal thioredoxin-fold and C-terminal alpha helical domains of GSTs, however, it also contains additional C-terminal transmembrane domains unlike GSTs. GDAP1 is mainly expressed in neuronal cells and is localized in the mitochondria through its transmembrane domains. It does not exhibit GST activity using standard substrates.
Probab=24.28 E-value=1.7e+02 Score=22.07 Aligned_cols=43 Identities=12% Similarity=0.230 Sum_probs=26.2
Q ss_pred HHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031064 24 SSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 24 s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qls 66 (166)
..+|+...+.++.-|.|.++....-+...++-..|...-.+|.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~~l~~LE~~L~ 46 (111)
T cd03204 4 ATAYIAKQKKLKSKLLDHDNVEYLKKILDELEMVLDQVEQELQ 46 (111)
T ss_pred HHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567666677787777777766544455555555555555553
No 42
>PRK10997 yieM hypothetical protein; Provisional
Probab=23.37 E-value=2.8e+02 Score=26.53 Aligned_cols=31 Identities=23% Similarity=0.491 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHH--HHhccchHHHHHHHhcCHH
Q 031064 9 CQVEKAKEDMLNQLYS--SVGAQSTARIEELLQEDQN 43 (166)
Q Consensus 9 ~LVnkAKe~LQneL~s--~LYk~~~~~l~eLL~Ed~~ 43 (166)
-++++-||.++.+|+. +++ ..+++.+.+++.
T Consensus 150 ~~~e~~re~~l~el~~r~e~~----~~l~~v~~~~~~ 182 (487)
T PRK10997 150 QLLEQEREQLLAELQQRMTLS----GQLEPVLAENDE 182 (487)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHhhcch
Confidence 4568889999999998 555 568888888876
No 43
>PRK13920 putative anti-sigmaE protein; Provisional
Probab=23.27 E-value=69 Score=25.97 Aligned_cols=41 Identities=15% Similarity=0.135 Sum_probs=28.6
Q ss_pred HHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHH
Q 031064 21 QLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKL 61 (166)
Q Consensus 21 eL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA 61 (166)
.+...|-..+...|+..|++|+...++=++.++.+..|...
T Consensus 4 YvlG~Ls~eE~~~ve~~L~~dp~~~~~v~~~e~~~~~l~~~ 44 (206)
T PRK13920 4 YALGALSPEERARVEAALEAYPELWAELRALQEALAALAEG 44 (206)
T ss_pred hhcCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHhc
Confidence 44445555556779999999998888777777766555443
No 44
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=23.26 E-value=2.5e+02 Score=19.18 Aligned_cols=48 Identities=15% Similarity=0.199 Sum_probs=33.6
Q ss_pred HHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 031064 21 QLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHD 69 (166)
Q Consensus 21 eL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihd 69 (166)
.+..++... ...+++|=.|+..+..+......-=-+-+.|.++|.+.-
T Consensus 28 ~~~~~~~~~-~~~~~~l~~en~~L~~ei~~l~~~~rIe~~Ar~~lgM~~ 75 (85)
T TIGR02209 28 QLNNELQKL-QLEIDKLQKEWRDLQLEVAELSRHERIEKIAKKQLGMKL 75 (85)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHhcCCCC
Confidence 555555553 566888888888888888777765566667777777654
No 45
>PF14002 YniB: YniB-like protein
Probab=23.19 E-value=1.1e+02 Score=25.72 Aligned_cols=25 Identities=24% Similarity=0.147 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Q 031064 5 AVVLCQVEKAKEDMLNQLYSSVGAQ 29 (166)
Q Consensus 5 AIMl~LVnkAKe~LQneL~s~LYk~ 29 (166)
+=|.++|++-+|.++++|+.+--|-
T Consensus 95 ~rm~rqvk~ire~IEdqlIlE~akG 119 (166)
T PF14002_consen 95 ARMSRQVKFIREGIEDQLILEQAKG 119 (166)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHhcC
Confidence 3489999999999999999887763
No 46
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=23.06 E-value=3.2e+02 Score=24.11 Aligned_cols=51 Identities=12% Similarity=0.252 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031064 14 AKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 14 AKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qls 66 (166)
.+.+.++-|-.+|-.-..+.+...+.++ +.+-|++.++|++=.+++.++.-
T Consensus 94 ~~~dF~~~Lq~~Lk~V~tde~k~~~~~e--i~k~r~e~~~ml~evK~~~E~y~ 144 (230)
T PF03904_consen 94 VHNDFQDILQDELKDVDTDELKNIAQNE--IKKVREENKSMLQEVKQSHEKYQ 144 (230)
T ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444455566666655 77778888999888888777654
No 47
>PF07560 DUF1539: Domain of Unknown Function (DUF1539); InterPro: IPR011436 This domain is found in a small number of Chlamydia proteins of unknown function. It occurs together with IPR013044 from INTERPRO.
Probab=22.80 E-value=24 Score=28.20 Aligned_cols=46 Identities=15% Similarity=0.152 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHH
Q 031064 4 QAVVLCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDR 50 (166)
Q Consensus 4 KAIMl~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~ 50 (166)
+.|++.++.++.-++..+.-++||..---+|-.+|+ ||.|-..||.
T Consensus 42 ~~IL~~l~~~~~~~~~s~~~~~l~~~~m~~l~~aL~-dp~Is~erK~ 87 (126)
T PF07560_consen 42 FKILDYLSTKSSPEDESHPDQSLFRSTMHQLIKALQ-DPTISKERKR 87 (126)
T ss_pred HHHHHHHhccccccccCChhHHHHHHHHHHHHHHhc-CCCCChHHHH
Confidence 678899998766666555555555421123444444 7877766653
No 48
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=22.58 E-value=5.4e+02 Score=23.09 Aligned_cols=59 Identities=20% Similarity=0.328 Sum_probs=40.1
Q ss_pred hhHHHHHHHHHHHHHH--HHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhh
Q 031064 3 EQAVVLCQVEKAKEDM--LNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQL 65 (166)
Q Consensus 3 PKAIMl~LVnkAKe~L--QneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ql 65 (166)
-|+-++.+|.-.|+.| +.+.|.++.+ .+.+...|-+..+.-...+...+..|+...+|.
T Consensus 106 ek~~l~yqvd~Lkd~lee~eE~~~~~~r----e~~eK~~elEr~K~~~d~L~~e~~~Lre~L~~r 166 (302)
T PF09738_consen 106 EKSALMYQVDLLKDKLEELEETLAQLQR----EYREKIRELERQKRAHDSLREELDELREQLKQR 166 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3778889999888877 3466666664 455666666666666666666666666666554
No 49
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=22.57 E-value=92 Score=21.95 Aligned_cols=8 Identities=0% Similarity=0.065 Sum_probs=3.3
Q ss_pred HHHHHHhc
Q 031064 21 QLYSSVGA 28 (166)
Q Consensus 21 eL~s~LYk 28 (166)
....+||+
T Consensus 29 ~~~d~i~k 36 (58)
T PF13060_consen 29 VIADEIQK 36 (58)
T ss_pred hHHHHHHH
Confidence 33344444
No 50
>PRK08655 prephenate dehydrogenase; Provisional
Probab=22.15 E-value=2.4e+02 Score=25.80 Aligned_cols=41 Identities=15% Similarity=0.229 Sum_probs=32.3
Q ss_pred HHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHh
Q 031064 23 YSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTR 63 (166)
Q Consensus 23 ~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~ 63 (166)
.+.|....+.+..+++.+|+.+.+-+++..+.|.-|+.+.+
T Consensus 213 ~tRIa~~~p~lw~dI~~~N~~~~~~l~~~~~~l~~l~~~l~ 253 (437)
T PRK08655 213 IGRILGQNPYLYASIQMNNPQIPEIHETFIKECEELSELVK 253 (437)
T ss_pred HHHHhcCCHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666667778999999999888888888887777777664
No 51
>PF12464 Mac: Maltose acetyltransferase ; InterPro: IPR024688 Maltose acetyltransferase uses acetyl-CoA as acetyl donor to acetylate cytoplasmic maltose [], while galactoside acetyltransferase act on galactosides. ; GO: 0016407 acetyltransferase activity; PDB: 3V4E_A 4EGG_E 4DCL_A 3FTT_A 1KRR_B 1KRU_A 1KRV_C 1KQA_A 3NZ2_J 3ECT_A ....
Probab=22.15 E-value=1.5e+02 Score=18.89 Aligned_cols=23 Identities=13% Similarity=0.219 Sum_probs=20.2
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHH
Q 031064 40 EDQNVKRRRDRYQKQSELLSKLT 62 (166)
Q Consensus 40 Ed~~v~~RRe~c~kmLelLkkA~ 62 (166)
-||.+.+.|.+|++++.-|.+..
T Consensus 13 ~d~el~~~r~~a~~l~~~~N~~~ 35 (55)
T PF12464_consen 13 SDPELQEIRARAKRLLQRYNQTP 35 (55)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHSH
T ss_pred CChHHHHHHHHHHHHHHHHHcCC
Confidence 38999999999999999998655
No 52
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=21.94 E-value=1.8e+02 Score=23.39 Aligned_cols=35 Identities=9% Similarity=0.093 Sum_probs=25.4
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHhhhhh--hhhhhhh
Q 031064 40 EDQNVKRRRDRYQKQSELLSKLTRQLSI--HDNRAAA 74 (166)
Q Consensus 40 Ed~~v~~RRe~c~kmLelLkkA~~qlsi--hdnraa~ 74 (166)
-.+.+.+.++.+++.+++|.+|.+-+.= .+++..+
T Consensus 211 ~~~~~~~~p~~v~~~~~a~~~A~~~~~~~~~~~a~~~ 247 (252)
T PF13379_consen 211 RRDFLEENPEAVKAFLEALQEAQRWINANPPEAAEEI 247 (252)
T ss_dssp EHHHHHH-HHHHHHHHHHHHHHHHHHHHSSGGGHHHH
T ss_pred CHHHHHHCHHHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 3455667788899999999999999984 4555433
No 53
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=21.15 E-value=1.9e+02 Score=25.34 Aligned_cols=45 Identities=16% Similarity=0.278 Sum_probs=36.8
Q ss_pred HHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031064 18 MLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 18 LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qls 66 (166)
+|..|...|- +++++|=+|++.+.+++++.++.++.+++-.+++.
T Consensus 29 l~~~l~~~l~----~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f~~~~~ 73 (308)
T PF11382_consen 29 LQPNLIDSLE----DQFDSLREENDELRAELDALQAQLNAADQFIAAVA 73 (308)
T ss_pred hchhhhhhhh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666666 57899999999999999999999988888777764
No 54
>PF12057 DUF3538: Domain of unknown function (DUF3538); InterPro: IPR021925 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 120 amino acids in length. This domain is found associated with PF00240 from PFAM. This domain has a conserved SDL sequence motif.
Probab=21.13 E-value=2.8e+02 Score=22.06 Aligned_cols=34 Identities=35% Similarity=0.490 Sum_probs=28.6
Q ss_pred HHHHHHhcCHHHH-----HHHHHHHHHHHHHHHHHhhhh
Q 031064 33 RIEELLQEDQNVK-----RRRDRYQKQSELLSKLTRQLS 66 (166)
Q Consensus 33 ~l~eLL~Ed~~v~-----~RRe~c~kmLelLkkA~~qls 66 (166)
..-++|.+|+..- +.|+++++.+..-.+|..-||
T Consensus 21 ry~~iL~~~~~~e~~~~~~~re~~QRi~d~VsEalh~ls 59 (120)
T PF12057_consen 21 RYHEILQEDPSFEYENNTQEREEDQRIFDLVSEALHYLS 59 (120)
T ss_pred HHHHHHhcCCCCCCCCCccchhhHhHHHHHHHHHHHHHH
Confidence 4567888888766 789999999999988888887
No 55
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.97 E-value=2.7e+02 Score=26.91 Aligned_cols=50 Identities=16% Similarity=0.223 Sum_probs=41.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhcc-------------------chHHHHHHHhcCHHHHHHHHHH
Q 031064 2 VEQAVVLCQVEKAKEDMLNQLYSSVGAQ-------------------STARIEELLQEDQNVKRRRDRY 51 (166)
Q Consensus 2 VPKAIMl~LVnkAKe~LQneL~s~LYk~-------------------~~~~l~eLL~Ed~~v~~RRe~c 51 (166)
||-.||...++..|..|++.|-.+|-.. ..+.|+.|.+++|.+.+=|++.
T Consensus 541 v~N~~~~~~l~~~~~~ll~~lr~~L~N~~i~l~i~v~e~~e~~~~yt~~Ek~~~L~ekNP~l~~Lr~~f 609 (614)
T PRK14971 541 VDNELQEKELTNLIPDLLGFLRGRLKNSKITMTVRVSEPTEVNRAYSSVEKFQYLAQKNPALLELREEL 609 (614)
T ss_pred eCCHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEeccccccccCCChHHHHHHHHHhChHHHHHHHHh
Confidence 6778999999999999999999665221 2678999999999999888764
No 56
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.57 E-value=1.8e+02 Score=28.50 Aligned_cols=55 Identities=20% Similarity=0.297 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHH-----HhccchHHHHHHHhcCHHHH----HHHHHHHHHHHHHHHHHhhhhh
Q 031064 12 EKAKEDMLNQLYSS-----VGAQSTARIEELLQEDQNVK----RRRDRYQKQSELLSKLTRQLSI 67 (166)
Q Consensus 12 nkAKe~LQneL~s~-----LYk~~~~~l~eLL~Ed~~v~----~RRe~c~kmLelLkkA~~qlsi 67 (166)
++-|..|+.+|+.+ |-. .+..|++|.+|+++-+ +||+++.+-...-+...+-|..
T Consensus 171 dEEksklL~rLLkSn~PeDLqa-ANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~l~ 234 (594)
T KOG1086|consen 171 DEEKSKLLARLLKSNHPEDLQA-ANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEMLLD 234 (594)
T ss_pred cHHHHHHHHHHHhcCChHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455667777653 222 2467889999988643 4555555444444444444433
No 57
>PLN02712 arogenate dehydrogenase
Probab=20.57 E-value=4.3e+02 Score=25.83 Aligned_cols=65 Identities=18% Similarity=0.106 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hhhhhccccCCCC
Q 031064 17 DMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQSELLSKLTRQLSIHDN-RAAAASNWSDGGG 83 (166)
Q Consensus 17 ~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmLelLkkA~~qlsihdn-raa~as~~~~~~~ 83 (166)
.++-.|+..+++...++..+|...|+.-.+..++++.+++-++++... .+|+. |..+-. |++.+.
T Consensus 574 r~l~~Li~Ria~~~p~l~~dI~~~N~~a~~~l~~f~~~l~~~~~~l~~-~~~~~~~~~~~~-~~~~~~ 639 (667)
T PLN02712 574 ETLLNLVENTAGDSFDLYYGLFMYNVNAMEQLERLDLAFESLKKQLFG-RLHGVLRKQLFK-SSEKSQ 639 (667)
T ss_pred HHHHHHHHhhcCCCHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhcc-cCccch
No 58
>PF11563 Protoglobin: Protoglobin; PDB: 2VEE_G 3QZZ_A 3R0G_A 3QZX_A 2VEB_A 1OR6_A 1OR4_B 2W31_B.
Probab=20.44 E-value=1.4e+02 Score=22.22 Aligned_cols=46 Identities=7% Similarity=0.232 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCHHHHHHHHHHHHHH
Q 031064 8 LCQVEKAKEDMLNQLYSSVGAQSTARIEELLQEDQNVKRRRDRYQKQS 55 (166)
Q Consensus 8 l~LVnkAKe~LQneL~s~LYk~~~~~l~eLL~Ed~~v~~RRe~c~kmL 55 (166)
.-++....+.|.++||..|.+. +.+.+.+..+..+.+-+....+-+
T Consensus 26 ~~~~~~~~~~iv~~FY~~l~~~--pe~~~~~~~~~~~~~lk~~q~~~~ 71 (158)
T PF11563_consen 26 APIIEPHAPEIVDDFYDHLLRF--PETARIFDSESTIERLKATQRRHW 71 (158)
T ss_dssp HHHHHCTHHHHHHHHHHHHHTS--HHHHGGGCCHCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHCC--HHHHHHhCChHHHHHHHHHHHHHH
Confidence 3456667789999999999975 788999988555555554444443
No 59
>PF13608 Potyvirid-P3: Protein P3 of Potyviral polyprotein
Probab=20.18 E-value=80 Score=29.45 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=20.2
Q ss_pred HHHHHHHHhccchHHHHHHHhcCHHH
Q 031064 19 LNQLYSSVGAQSTARIEELLQEDQNV 44 (166)
Q Consensus 19 QneL~s~LYk~~~~~l~eLL~Ed~~v 44 (166)
...|+..+|+ ++.+.+||.|+|.+
T Consensus 2 ~~~LIk~Iyr--Pk~m~~lL~eePyl 25 (445)
T PF13608_consen 2 IKALIKSIYR--PKLMRQLLEEEPYL 25 (445)
T ss_pred HHHHHHHcCC--HHHHHHHHHhCcHH
Confidence 3578999997 49999999999875
Done!