Query 042412
Match_columns 74
No_of_seqs 119 out of 1013
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 05:57:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042412.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042412hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 1E-28 2.2E-33 167.0 5.0 60 10-71 1-61 (195)
2 smart00432 MADS MADS domain. 99.9 3.2E-28 7E-33 142.7 5.6 58 11-70 1-59 (59)
3 cd00265 MADS_MEF2_like MEF2 (m 99.9 2.1E-28 4.6E-33 149.2 4.5 59 11-71 1-60 (77)
4 cd00120 MADS MADS: MCM1, Agamo 99.9 1.4E-27 3.1E-32 139.8 4.5 58 11-70 1-59 (59)
5 cd00266 MADS_SRF_like SRF-like 99.9 1E-26 2.3E-31 143.3 5.3 59 11-71 1-60 (83)
6 PF00319 SRF-TF: SRF-type tran 99.9 1.4E-26 3E-31 132.5 3.6 51 17-69 1-51 (51)
7 KOG0015 Regulator of arginine 99.8 4.4E-21 9.5E-26 141.8 4.3 68 2-71 54-122 (338)
8 COG5068 ARG80 Regulator of arg 99.5 3.4E-14 7.4E-19 108.2 4.8 61 9-71 80-141 (412)
9 PF09151 DUF1936: Domain of un 56.1 18 0.00039 18.9 2.6 24 42-67 2-25 (36)
10 PF13540 RCC1_2: Regulator of 39.8 34 0.00073 16.6 2.0 25 44-71 3-27 (30)
11 PF13252 DUF4043: Protein of u 39.1 15 0.00032 27.9 0.9 31 39-69 270-300 (341)
12 PF10491 Nrf1_DNA-bind: NLS-bi 38.2 80 0.0017 22.9 4.4 28 35-62 36-67 (214)
13 PRK09555 feoA ferrous iron tra 36.9 88 0.0019 18.4 3.9 33 34-68 20-52 (74)
14 TIGR01916 F420_cofE F420-0:gam 30.2 61 0.0013 23.7 2.9 27 42-70 134-160 (243)
15 CHL00082 psbZ photosystem II p 29.6 34 0.00073 20.2 1.2 13 62-74 22-34 (62)
16 cd01372 KISc_KIF4 Kinesin moto 27.3 68 0.0015 23.4 2.7 27 44-70 68-94 (341)
17 PF15119 APOC4: Apolipoprotein 27.1 41 0.0009 21.4 1.4 20 29-48 75-96 (99)
18 cd01365 KISc_KIF1A_KIF1B Kines 27.0 77 0.0017 23.4 3.0 35 34-68 70-107 (356)
19 cd01363 Motor_domain Myosin an 26.7 80 0.0017 21.0 2.8 33 36-68 8-42 (186)
20 PRK13293 F420-0--gamma-glutamy 26.4 72 0.0016 23.3 2.7 27 42-70 135-161 (245)
21 cd00106 KISc Kinesin motor dom 26.2 83 0.0018 22.6 3.0 26 44-69 73-98 (328)
22 PF04019 DUF359: Protein of un 25.9 23 0.00049 23.1 -0.0 16 54-71 80-95 (121)
23 PRK02576 psbZ photosystem II r 25.8 42 0.00092 19.8 1.2 12 62-73 22-33 (62)
24 TIGR03043 PS_II_psbZ photosyst 25.6 43 0.00093 19.5 1.1 13 62-74 19-31 (58)
25 cd01376 KISc_KID_like Kinesin 25.2 89 0.0019 22.7 3.0 26 44-69 75-100 (319)
26 cd06404 PB1_aPKC PB1 domain is 25.0 1.7E+02 0.0036 18.1 3.8 38 33-71 22-59 (83)
27 cd01366 KISc_C_terminal Kinesi 24.7 1.1E+02 0.0023 22.2 3.3 27 44-70 72-98 (329)
28 COG1918 FeoA Fe2+ transport sy 24.4 1.7E+02 0.0036 17.5 5.1 45 10-67 8-52 (75)
29 COG0139 HisI Phosphoribosyl-AM 24.1 24 0.00052 23.1 -0.1 31 29-59 54-93 (111)
30 cd01371 KISc_KIF3 Kinesin moto 24.0 81 0.0018 23.1 2.6 26 44-69 76-101 (333)
31 cd01375 KISc_KIF9_like Kinesin 23.3 78 0.0017 23.2 2.4 25 44-68 75-99 (334)
32 cd01369 KISc_KHC_KIF5 Kinesin 23.3 1.1E+02 0.0025 22.1 3.3 27 44-70 71-97 (325)
33 PF00383 dCMP_cyt_deam_1: Cyti 23.0 1.7E+02 0.0037 17.1 3.6 31 35-67 6-40 (102)
34 PRK09732 hypothetical protein; 22.8 2.2E+02 0.0048 18.7 4.3 34 36-71 15-48 (134)
35 cd01373 KISc_KLP2_like Kinesin 21.6 1.1E+02 0.0024 22.5 2.9 27 44-70 69-95 (337)
36 cd01374 KISc_CENP_E Kinesin mo 21.1 1E+02 0.0022 22.3 2.6 26 44-69 68-93 (321)
37 smart00129 KISc Kinesin motor, 21.0 1.2E+02 0.0025 22.0 2.9 25 44-68 74-98 (335)
38 cd01367 KISc_KIF2_like Kinesin 20.5 1.1E+02 0.0023 22.4 2.6 26 44-69 79-104 (322)
39 cd01368 KISc_KIF23_like Kinesi 20.3 1.3E+02 0.0028 22.3 3.1 26 44-69 83-108 (345)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.95 E-value=1e-28 Score=167.05 Aligned_cols=60 Identities=48% Similarity=0.837 Sum_probs=58.7
Q ss_pred Ccc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 10 MGK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 10 mgR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
||| ||+|++|+|+..|++||+||+.||||||+||||||||+||+|||+|+ |++|.|++++
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~--~~~~~~~~~~ 61 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPS--GKLYEFGSSD 61 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCC--CCccccCCcc
Confidence 899 99999999999999999999999999999999999999999999999 9999999886
No 2
>smart00432 MADS MADS domain.
Probab=99.95 E-value=3.2e-28 Score=142.66 Aligned_cols=58 Identities=52% Similarity=0.854 Sum_probs=56.5
Q ss_pred cc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 11 GK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 11 gR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
|| ||+|++|+|++.|++||+||+.||+|||+|||+||||+||+|||+|+ |.++.|.+|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~--g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPT--GKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCC--CCeeeccCC
Confidence 78 99999999999999999999999999999999999999999999999 999999886
No 3
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.95 E-value=2.1e-28 Score=149.19 Aligned_cols=59 Identities=47% Similarity=0.807 Sum_probs=57.8
Q ss_pred cc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 11 GK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 11 gR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
|| ||+|++|+|++.|++||+||+.||||||.|||+|||++||+|||+|+ |++|.|++|+
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~--gk~~~f~s~s 60 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSS--GKLYEFSSPS 60 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCC--CceEEecCCC
Confidence 78 99999999999999999999999999999999999999999999999 9999999987
No 4
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.94 E-value=1.4e-27 Score=139.85 Aligned_cols=58 Identities=48% Similarity=0.836 Sum_probs=56.1
Q ss_pred cc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 11 GK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 11 gR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
|| ||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|||+|+ |.+++|+++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~--g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPS--GKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCC--CCcccccCC
Confidence 68 99999999999999999999999999999999999999999999999 899999875
No 5
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.93 E-value=1e-26 Score=143.31 Aligned_cols=59 Identities=42% Similarity=0.786 Sum_probs=55.9
Q ss_pred cc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 11 GK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 11 gR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
|| ||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|||+|+ |..+.|.+++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~--~~~~~~~~~~ 60 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPS--GKLYVFWPSS 60 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCC--CCcceecCcH
Confidence 68 99999999999999999999999999999999999999999999999 7888887765
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.93 E-value=1.4e-26 Score=132.50 Aligned_cols=51 Identities=51% Similarity=0.845 Sum_probs=46.9
Q ss_pred EEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecC
Q 042412 17 KKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 17 k~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
++|+|+..|++||+||+.||+|||+|||+|||++||+|+|+|+ |++|+|+|
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~--g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPD--GKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETT--SEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCC--CCEEEecC
Confidence 5799999999999999999999999999999999999999999 99999997
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.83 E-value=4.4e-21 Score=141.76 Aligned_cols=68 Identities=34% Similarity=0.468 Sum_probs=64.0
Q ss_pred ccccccccCcc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 2 LLSDYNYTMGK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 2 ~~~~~k~~mgR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
+...-|++.|| ||+|+||+|+-+|.+||+|||.|+||||+||++|+|.+|.|+|.++. |.+|+|++|.
T Consensus 54 ~~~~~k~~~gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEt--GhVyTFaTpK 122 (338)
T KOG0015|consen 54 QKDGGKKTTGRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASET--GHVYTFATPK 122 (338)
T ss_pred ccCCCccccceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecC--cceEEecccc
Confidence 34556888999 99999999999999999999999999999999999999999999999 9999999885
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.48 E-value=3.4e-14 Score=108.19 Aligned_cols=61 Identities=36% Similarity=0.518 Sum_probs=59.3
Q ss_pred cCcc-ceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 9 TMGK-KIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 9 ~mgR-Ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
.||| |+.|.+|+|+.+|.+||.||+.|++|||+||++|+|.+|.+++.++. |.++.|+.|+
T Consensus 80 ~~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~--g~v~tf~tp~ 141 (412)
T COG5068 80 SVTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISEN--GLVHTFTTPK 141 (412)
T ss_pred ccccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCC--CceeeecCCc
Confidence 6888 99999999999999999999999999999999999999999999999 9999999986
No 9
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=56.15 E-value=18 Score=18.92 Aligned_cols=24 Identities=17% Similarity=0.516 Sum_probs=16.8
Q ss_pred hhhhhcCccEEEEEecCCCCCCeEEe
Q 042412 42 EISVACGIDLVLITFSPTKRGRSTKF 67 (74)
Q Consensus 42 ELs~Lc~~~v~liv~~~~~~g~~~~~ 67 (74)
.|+--||+-|...+|+.. |..-+|
T Consensus 2 hlcpkcgvgvl~pvy~~k--geikvf 25 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQK--GEIKVF 25 (36)
T ss_dssp -B-TTTSSSBEEEEE-TT--S-EEEE
T ss_pred ccCCccCceEEEEeecCC--CcEEEE
Confidence 467789999999999999 765555
No 10
>PF13540 RCC1_2: Regulator of chromosome condensation (RCC1) repeat; PDB: 3QI0_D 1JTD_B 3QHY_B.
Probab=39.84 E-value=34 Score=16.57 Aligned_cols=25 Identities=20% Similarity=0.166 Sum_probs=15.9
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
++-||..-.+++..+ |.++.|.+.+
T Consensus 3 ~ia~G~~ht~al~~~---g~v~~wG~n~ 27 (30)
T PF13540_consen 3 QIACGGYHTCALTSD---GEVYCWGDNN 27 (30)
T ss_dssp EEEEESSEEEEEE-T---TEEEEEE--T
T ss_pred EEEecCCEEEEEEcC---CCEEEEcCCc
Confidence 356777777666653 5999998764
No 11
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=39.07 E-value=15 Score=27.87 Aligned_cols=31 Identities=16% Similarity=0.219 Sum_probs=24.0
Q ss_pred HhHhhhhhcCccEEEEEecCCCCCCeEEecC
Q 042412 39 KAREISVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 39 Ka~ELs~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
.+-.-++|||++++++.|+...++..|.|.-
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w~E 300 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFWVE 300 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCcccccch
Confidence 3445689999999999999954477777763
No 12
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=38.15 E-value=80 Score=22.85 Aligned_cols=28 Identities=25% Similarity=0.472 Sum_probs=22.6
Q ss_pred hHHHH----hHhhhhhcCccEEEEEecCCCCC
Q 042412 35 SLIKK----AREISVACGIDLVLITFSPTKRG 62 (74)
Q Consensus 35 GL~KK----a~ELs~Lc~~~v~liv~~~~~~g 62 (74)
-|+.| ..|+++-+|-++.+++++|+.++
T Consensus 36 rllrkl~~~~de~~trvGqqavvl~~~p~kp~ 67 (214)
T PF10491_consen 36 RLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPN 67 (214)
T ss_pred HHHHHHHHHHHHHHHhhhceeEEEEecCCCCC
Confidence 35555 47999999999999999999543
No 13
>PRK09555 feoA ferrous iron transport protein A; Reviewed
Probab=36.88 E-value=88 Score=18.40 Aligned_cols=33 Identities=12% Similarity=0.225 Sum_probs=28.0
Q ss_pred hhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEec
Q 042412 34 KSLIKKAREISVACGIDLVLITFSPTKRGRSTKFC 68 (74)
Q Consensus 34 ~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~ 68 (74)
..+..+-.+|-++.|++|-++-..|- |.|..+.
T Consensus 20 ~~~~~rL~~mGl~pG~~V~v~~~aP~--gdPi~i~ 52 (74)
T PRK09555 20 PAYRQKLLSLGMLPGSSFNVVRVAPL--GDPIHIE 52 (74)
T ss_pred hHHHHHHHHcCCCCCCEEEEEEECCC--CCCEEEE
Confidence 45778889999999999999999998 6777664
No 14
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=30.19 E-value=61 Score=23.68 Aligned_cols=27 Identities=19% Similarity=0.289 Sum_probs=21.9
Q ss_pred hhhhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 42 EISVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 42 ELs~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+|.-.+|++|++||.+.. |.++--+.+
T Consensus 134 ~l~~~~g~~v~VIItDt~--gr~~R~G~~ 160 (243)
T TIGR01916 134 GLRELTGVDVGVIITDTN--GRPFREGQV 160 (243)
T ss_pred HHHHHHCCCEEEEEECCC--CCccccCCC
Confidence 466679999999999888 888876654
No 15
>CHL00082 psbZ photosystem II protein Z
Probab=29.59 E-value=34 Score=20.19 Aligned_cols=13 Identities=23% Similarity=0.355 Sum_probs=8.7
Q ss_pred CCeEEecCCCCCC
Q 042412 62 GRSTKFCSMKRFK 74 (74)
Q Consensus 62 g~~~~~~s~~~~~ 74 (74)
|-|..|+||++|+
T Consensus 22 gVPV~~Asp~~W~ 34 (62)
T CHL00082 22 GVPVVFASPDGWS 34 (62)
T ss_pred eeeeEEECCCcch
Confidence 4567777777664
No 16
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=27.32 E-value=68 Score=23.37 Aligned_cols=27 Identities=11% Similarity=0.309 Sum_probs=23.0
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+++-|.++++++|+....|+.|+...+
T Consensus 68 ~~~~G~n~~i~ayG~tgSGKT~Tm~G~ 94 (341)
T cd01372 68 GLFEGYNATVLAYGQTGSGKTYTMGTA 94 (341)
T ss_pred HHhCCCccceeeecCCCCCCcEEecCC
Confidence 568899999999999877899887654
No 17
>PF15119 APOC4: Apolipoprotein C4
Probab=27.13 E-value=41 Score=21.41 Aligned_cols=20 Identities=30% Similarity=0.650 Sum_probs=15.8
Q ss_pred hhhhhhhHHHHhHhhh--hhcC
Q 042412 29 YAKRKKSLIKKAREIS--VACG 48 (74)
Q Consensus 29 f~KRk~GL~KKa~ELs--~Lc~ 48 (74)
...-|..|++||+.|| +||+
T Consensus 75 l~sSkd~llnk~~sLCPrllC~ 96 (99)
T PF15119_consen 75 LRSSKDSLLNKTHSLCPRLLCG 96 (99)
T ss_pred HHHhHHHHHHHHHhhCchhhcc
Confidence 4567899999999985 5665
No 18
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=26.97 E-value=77 Score=23.43 Aligned_cols=35 Identities=17% Similarity=0.357 Sum_probs=25.6
Q ss_pred hhHHHHhH-hh--hhhcCccEEEEEecCCCCCCeEEec
Q 042412 34 KSLIKKAR-EI--SVACGIDLVLITFSPTKRGRSTKFC 68 (74)
Q Consensus 34 ~GL~KKa~-EL--s~Lc~~~v~liv~~~~~~g~~~~~~ 68 (74)
.-+++.+. ++ +++-|.++++++|+....|+.|+--
T Consensus 70 ~~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~ 107 (356)
T cd01365 70 EDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMM 107 (356)
T ss_pred HHHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEec
Confidence 44555542 22 5789999999999999778888654
No 19
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=26.65 E-value=80 Score=21.02 Aligned_cols=33 Identities=12% Similarity=0.342 Sum_probs=23.5
Q ss_pred HHHHhHhh--hhhcCccEEEEEecCCCCCCeEEec
Q 042412 36 LIKKAREI--SVACGIDLVLITFSPTKRGRSTKFC 68 (74)
Q Consensus 36 L~KKa~EL--s~Lc~~~v~liv~~~~~~g~~~~~~ 68 (74)
+|..+.++ +++.|-+.++++|+....|+.|+--
T Consensus 8 vf~~~~~~v~~~~~G~n~~i~~yG~tGsGKT~Tm~ 42 (186)
T cd01363 8 VFRDVGPLLQSALDGYNVCIFAYGQTGSGKTYTME 42 (186)
T ss_pred HHHHHHHHHHHHhCCcceeEEEECCCCCcceEecC
Confidence 44444433 5678999999999999767776643
No 20
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=26.38 E-value=72 Score=23.34 Aligned_cols=27 Identities=15% Similarity=0.145 Sum_probs=21.7
Q ss_pred hhhhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 42 EISVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 42 ELs~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+|.-.+|++|++||.+.. |+++-.+..
T Consensus 135 ~l~~~~g~~v~VIItDt~--gr~~R~G~t 161 (245)
T PRK13293 135 GLEELTGKKVGVIITDTN--GRPFRKGQR 161 (245)
T ss_pred HHHHHHCCCEEEEEEcCC--CcccccCCc
Confidence 466679999999999888 888876654
No 21
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=26.25 E-value=83 Score=22.59 Aligned_cols=26 Identities=19% Similarity=0.337 Sum_probs=20.9
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
+++-|.++++++|++...|+.|+.-.
T Consensus 73 ~~~~G~~~~i~~yG~tgSGKT~tl~G 98 (328)
T cd00106 73 SVLEGYNGTIFAYGQTGSGKTYTMFG 98 (328)
T ss_pred HHhCCCceeEEEecCCCCCCeEEecC
Confidence 45679999999999997788877543
No 22
>PF04019 DUF359: Protein of unknown function (DUF359); InterPro: IPR007164 This is family of archaebacterial proteins, which are about 170 amino acids in length. They have no known function. The most conserved portion of the protein contains the sequence GEEDL that may be important for its function.
Probab=25.85 E-value=23 Score=23.13 Aligned_cols=16 Identities=19% Similarity=0.407 Sum_probs=12.5
Q ss_pred EEecCCCCCCeEEecCCC
Q 042412 54 ITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 54 iv~~~~~~g~~~~~~s~~ 71 (74)
+++.|. |....|++|+
T Consensus 80 il~aP~--gs~V~YGQP~ 95 (121)
T PF04019_consen 80 ILYAPE--GSVVLYGQPG 95 (121)
T ss_pred HHhCCC--CCEEEECCCC
Confidence 456677 8889999987
No 23
>PRK02576 psbZ photosystem II reaction center protein Z; Provisional
Probab=25.80 E-value=42 Score=19.75 Aligned_cols=12 Identities=17% Similarity=0.429 Sum_probs=7.0
Q ss_pred CCeEEecCCCCC
Q 042412 62 GRSTKFCSMKRF 73 (74)
Q Consensus 62 g~~~~~~s~~~~ 73 (74)
|-|..|+||++|
T Consensus 22 gVPV~~Asp~gW 33 (62)
T PRK02576 22 GVPVAYASPQNW 33 (62)
T ss_pred eeeeEEECCCcc
Confidence 355666666655
No 24
>TIGR03043 PS_II_psbZ photosystem II core protein PsbZ. PsbZ is a core protein of photosystem II in thylakoid-containing Cyanobacteria and plant chloroplasts. The original Chlamydomonas gene symbol, ycf9, is a synonym. PsbZ controls the interaction of the reaction center core with the light-harvesting antenna.
Probab=25.60 E-value=43 Score=19.47 Aligned_cols=13 Identities=15% Similarity=0.220 Sum_probs=8.6
Q ss_pred CCeEEecCCCCCC
Q 042412 62 GRSTKFCSMKRFK 74 (74)
Q Consensus 62 g~~~~~~s~~~~~ 74 (74)
|-|..|+||++|+
T Consensus 19 gVPV~~Asp~~W~ 31 (58)
T TIGR03043 19 GVPVALASPGGWS 31 (58)
T ss_pred hceeEEeCCCcch
Confidence 4567777777664
No 25
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=25.23 E-value=89 Score=22.72 Aligned_cols=26 Identities=12% Similarity=0.353 Sum_probs=21.5
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
+++-|.++++++|+....|+.|+...
T Consensus 75 ~~~~G~n~~i~ayG~tgSGKTyTm~G 100 (319)
T cd01376 75 HLLSGQNATVFAYGSTGAGKTHTMLG 100 (319)
T ss_pred HHhCCCceEEEEECCCCCCCcEEEeC
Confidence 56779999999999997788887643
No 26
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=24.95 E-value=1.7e+02 Score=18.14 Aligned_cols=38 Identities=11% Similarity=0.134 Sum_probs=27.0
Q ss_pred hhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 33 KKSLIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 33 k~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
-..|..|..|++-+-.-+..-+=+-+.+ |.|.+++|..
T Consensus 22 ~e~L~~~v~~~c~~~~~q~ft~kw~DEE-GDp~tiSS~~ 59 (83)
T cd06404 22 LEELCNEVRDMCRFHNDQPFTLKWIDEE-GDPCTISSQM 59 (83)
T ss_pred HHHHHHHHHHHhCCCCCCcEEEEEECCC-CCceeecCHH
Confidence 4689999999988866544444444443 8999999864
No 27
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=24.71 E-value=1.1e+02 Score=22.23 Aligned_cols=27 Identities=15% Similarity=0.301 Sum_probs=21.9
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+++-|.+++++.|++...|+.|+.-.+
T Consensus 72 ~~~~G~~~~i~ayG~tgSGKT~tl~G~ 98 (329)
T cd01366 72 SALDGYNVCIFAYGQTGSGKTYTMEGP 98 (329)
T ss_pred HHhCCCceEEEEeCCCCCCCcEEecCC
Confidence 567899999999999977888865443
No 28
>COG1918 FeoA Fe2+ transport system protein A [Inorganic ion transport and metabolism]
Probab=24.45 E-value=1.7e+02 Score=17.47 Aligned_cols=45 Identities=16% Similarity=0.303 Sum_probs=34.3
Q ss_pred CccceeeEEecCcccchhhhhhhhhhHHHHhHhhhhhcCccEEEEEecCCCCCCeEEe
Q 042412 10 MGKKIEIKKIADAKARQVTYAKRKKSLIKKAREISVACGIDLVLITFSPTKRGRSTKF 67 (74)
Q Consensus 10 mgRKi~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~ 67 (74)
.|.+..+..|.-.. ++.+|-.|+-+.-|+++.++-..|- |.|...
T Consensus 8 ~g~~~~V~~i~~~~-----------~~~~RL~~mG~~~G~~i~vi~~apl--gdPi~v 52 (75)
T COG1918 8 EGEKGRVVSIDGGN-----------GLRRRLLSMGIVPGASITVVRKAPL--GDPILV 52 (75)
T ss_pred CCceEEEEEecCCH-----------HHHHHHHHcCCCCCCEEEEEEecCC--CCCEEE
Confidence 34455566655433 7889999999999999999999999 666554
No 29
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=24.10 E-value=24 Score=23.07 Aligned_cols=31 Identities=26% Similarity=0.492 Sum_probs=23.8
Q ss_pred hhhhhhhHHHH---------hHhhhhhcCccEEEEEecCC
Q 042412 29 YAKRKKSLIKK---------AREISVACGIDLVLITFSPT 59 (74)
Q Consensus 29 f~KRk~GL~KK---------a~ELs~Lc~~~v~liv~~~~ 59 (74)
||+-|+-|.+| +.|+.+-||.|+.++.+.+.
T Consensus 54 ~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~ 93 (111)
T COG0139 54 YSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQI 93 (111)
T ss_pred EEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeC
Confidence 45555545554 57899999999999999885
No 30
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=24.04 E-value=81 Score=23.09 Aligned_cols=26 Identities=19% Similarity=0.305 Sum_probs=22.0
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
+++-|.++++++|+....|+.|+--.
T Consensus 76 ~~~~G~n~~i~ayG~tgSGKTyTm~G 101 (333)
T cd01371 76 SVLEGYNGTIFAYGQTGTGKTFTMEG 101 (333)
T ss_pred HHhCCCceeEEecCCCCCCCcEeecC
Confidence 67899999999999997788887544
No 31
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=23.29 E-value=78 Score=23.23 Aligned_cols=25 Identities=16% Similarity=0.294 Sum_probs=21.5
Q ss_pred hhhcCccEEEEEecCCCCCCeEEec
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFC 68 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~ 68 (74)
+++.|.++++++|+....|+.|+--
T Consensus 75 ~~~~G~n~~i~ayG~tgSGKTyTm~ 99 (334)
T cd01375 75 SALDGYNGTIFAYGQTGAGKTFTMT 99 (334)
T ss_pred HHhCCCccceeeecCCCCCCeEEcc
Confidence 5789999999999999878888743
No 32
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=23.27 E-value=1.1e+02 Score=22.09 Aligned_cols=27 Identities=15% Similarity=0.262 Sum_probs=21.8
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+++-|.++++++|+....|+.|+.-.+
T Consensus 71 ~~~~G~n~~i~ayG~tgSGKT~Tm~G~ 97 (325)
T cd01369 71 DVLNGYNGTIFAYGQTGSGKTYTMEGP 97 (325)
T ss_pred HHHcCccceEEEeCCCCCCceEEecCC
Confidence 467899999999999877888875443
No 33
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=22.99 E-value=1.7e+02 Score=17.07 Aligned_cols=31 Identities=13% Similarity=0.255 Sum_probs=21.1
Q ss_pred hHHHHhHhhhhhc----CccEEEEEecCCCCCCeEEe
Q 042412 35 SLIKKAREISVAC----GIDLVLITFSPTKRGRSTKF 67 (74)
Q Consensus 35 GL~KKa~ELs~Lc----~~~v~liv~~~~~~g~~~~~ 67 (74)
-+++.|.+++-.. +..|+-++++++ |.....
T Consensus 6 ~~m~~a~~~a~~s~~~~~~~vgaviv~~~--~~~i~~ 40 (102)
T PF00383_consen 6 EFMRIAIELAKRSRPCGNFPVGAVIVDPD--GKIIAT 40 (102)
T ss_dssp HHHHHHHHHHHTHBTTTSSSEEEEEEETT--TEEEEE
T ss_pred HHHHHHHHHHHhccccCCCCEEEEEEecc--CccEEE
Confidence 3567777766555 778888888876 555443
No 34
>PRK09732 hypothetical protein; Provisional
Probab=22.79 E-value=2.2e+02 Score=18.66 Aligned_cols=34 Identities=12% Similarity=0.146 Sum_probs=25.4
Q ss_pred HHHHhHhhhhhcCccEEEEEecCCCCCCeEEecCCC
Q 042412 36 LIKKAREISVACGIDLVLITFSPTKRGRSTKFCSMK 71 (74)
Q Consensus 36 L~KKa~ELs~Lc~~~v~liv~~~~~~g~~~~~~s~~ 71 (74)
+..-|.+-+.-=|..|++.|++.. |.+..|--.|
T Consensus 15 ~~~aA~~~A~~~g~~v~iaVvD~~--G~l~a~~RmD 48 (134)
T PRK09732 15 IIAAGQEEAQKNNWSVSIAVADDG--GHLLALSRMD 48 (134)
T ss_pred HHHHHHHHHHHhCCCEEEEEEcCC--CCEEEEEEcC
Confidence 344455555555889999999999 9999887655
No 35
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=21.61 E-value=1.1e+02 Score=22.50 Aligned_cols=27 Identities=11% Similarity=0.257 Sum_probs=22.2
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecCC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCSM 70 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s~ 70 (74)
+++-|.++++++|+....|+.|+--.+
T Consensus 69 ~~~~G~n~ti~aYGqTGSGKTyTm~G~ 95 (337)
T cd01373 69 DCLSGYNGSIFAYGQTGSGKTYTMMGP 95 (337)
T ss_pred HHhCCCceeEEEeCCCCCCceEEecCC
Confidence 568899999999999877888876443
No 36
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=21.05 E-value=1e+02 Score=22.33 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=21.2
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
.++-|.++++++|++...|+.|+...
T Consensus 68 ~~l~G~n~~i~ayG~tgSGKT~T~~G 93 (321)
T cd01374 68 SALEGYNGTIFAYGQTSSGKTFTMSG 93 (321)
T ss_pred HHHCCCceeEEeecCCCCCCceeccC
Confidence 45779999999999987788887653
No 37
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=21.00 E-value=1.2e+02 Score=21.99 Aligned_cols=25 Identities=20% Similarity=0.400 Sum_probs=20.7
Q ss_pred hhhcCccEEEEEecCCCCCCeEEec
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFC 68 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~ 68 (74)
+++-|.++++++|++...|+.|+-.
T Consensus 74 ~~~~G~~~~i~~yG~tgSGKT~tl~ 98 (335)
T smart00129 74 SVLEGYNATIFAYGQTGSGKTYTMS 98 (335)
T ss_pred HHhcCCceeEEEeCCCCCCCceEec
Confidence 4678999999999999778877654
No 38
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=20.49 E-value=1.1e+02 Score=22.39 Aligned_cols=26 Identities=15% Similarity=0.156 Sum_probs=21.4
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
+++-|.++++++|+....|+.|+--.
T Consensus 79 ~~~~G~n~~i~ayGqtGSGKTyTm~G 104 (322)
T cd01367 79 HVFEGGVATCFAYGQTGSGKTYTMLG 104 (322)
T ss_pred HHhCCCceEEEeccCCCCCCceEecC
Confidence 56789999999999987788887543
No 39
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=20.26 E-value=1.3e+02 Score=22.26 Aligned_cols=26 Identities=19% Similarity=0.355 Sum_probs=21.5
Q ss_pred hhhcCccEEEEEecCCCCCCeEEecC
Q 042412 44 SVACGIDLVLITFSPTKRGRSTKFCS 69 (74)
Q Consensus 44 s~Lc~~~v~liv~~~~~~g~~~~~~s 69 (74)
+++-|..+++++|+....|+.|+-..
T Consensus 83 ~~l~G~n~ti~aYGqtGSGKTyTm~G 108 (345)
T cd01368 83 DLLKGKNSLLFTYGVTNSGKTYTMQG 108 (345)
T ss_pred HHhCCCceEEEEeCCCCCCCeEEecC
Confidence 56789999999999997788887543
Done!