Query 042235
Match_columns 225
No_of_seqs 177 out of 1482
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 04:13:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042235.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042235hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00265 MADS_MEF2_like MEF2 (m 100.0 1.1E-30 2.3E-35 187.1 3.8 73 5-79 1-73 (77)
2 KOG0014 MADS box transcription 100.0 3E-30 6.5E-35 214.3 6.5 76 4-81 1-78 (195)
3 cd00266 MADS_SRF_like SRF-like 99.9 5.3E-28 1.2E-32 175.6 4.1 75 5-81 1-76 (83)
4 smart00432 MADS MADS domain. 99.9 3.5E-27 7.6E-32 160.1 3.6 59 5-65 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 99.9 1.6E-26 3.5E-31 156.9 2.8 59 5-65 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 1.6E-24 3.4E-29 142.6 -0.8 51 12-64 1-51 (51)
7 KOG0015 Regulator of arginine 99.7 5.8E-19 1.3E-23 152.2 2.5 67 4-72 62-128 (338)
8 COG5068 ARG80 Regulator of arg 99.3 3.6E-13 7.8E-18 121.2 3.1 68 4-73 81-148 (412)
9 PF01486 K-box: K-box region; 97.3 0.0016 3.4E-08 48.6 7.9 64 88-163 11-74 (100)
10 PF01486 K-box: K-box region; 90.7 0.11 2.3E-06 38.6 0.9 37 94-133 47-83 (100)
11 KOG4311 Histidinol dehydrogena 74.7 8.7 0.00019 33.9 5.8 65 18-82 180-263 (359)
12 PF10491 Nrf1_DNA-bind: NLS-bi 72.7 3 6.5E-05 35.1 2.4 47 31-77 37-88 (214)
13 PRK10265 chaperone-modulator p 70.0 11 0.00024 28.0 4.7 75 35-114 10-96 (101)
14 PRK13729 conjugal transfer pil 62.2 62 0.0013 30.8 9.1 37 65-108 52-88 (475)
15 PF07106 TBPIP: Tat binding pr 54.6 1.1E+02 0.0024 24.5 10.3 95 44-163 43-137 (169)
16 PRK04098 sec-independent trans 49.5 41 0.0009 27.2 5.0 29 45-77 14-42 (158)
17 KOG4252 GTP-binding protein [S 48.2 1.3E+02 0.0027 25.4 7.7 29 41-77 90-118 (246)
18 KOG1853 LIS1-interacting prote 47.3 1E+02 0.0022 27.1 7.3 20 200-219 230-249 (333)
19 PF08432 Vfa1: AAA-ATPase Vps4 46.8 41 0.00089 27.6 4.8 13 42-54 11-23 (182)
20 PTZ00046 rifin; Provisional 43.5 26 0.00057 32.1 3.4 29 39-78 39-68 (358)
21 PF13591 MerR_2: MerR HTH fami 43.2 33 0.00071 24.4 3.2 72 35-108 3-82 (84)
22 PF08181 DegQ: DegQ (SacQ) fam 40.8 81 0.0018 19.6 4.2 23 135-157 4-26 (46)
23 PF07960 CBP4: CBP4; InterPro 40.3 67 0.0014 25.1 4.7 25 46-74 16-40 (128)
24 PF15372 DUF4600: Domain of un 39.9 1.8E+02 0.0039 22.7 8.8 27 134-160 50-76 (129)
25 PF09151 DUF1936: Domain of un 39.3 27 0.00058 20.5 1.8 30 37-66 2-31 (36)
26 KOG4603 TBP-1 interacting prot 39.3 1.9E+02 0.0041 24.0 7.3 30 134-163 115-144 (201)
27 PF02009 Rifin_STEVOR: Rifin/s 39.2 17 0.00036 32.6 1.4 52 40-106 20-71 (299)
28 PRK10803 tol-pal system protei 39.0 51 0.0011 28.7 4.4 70 36-108 10-80 (263)
29 TIGR01477 RIFIN variant surfac 38.7 31 0.00066 31.6 3.0 29 40-78 43-71 (353)
30 cd01365 KISc_KIF1A_KIF1B Kines 37.9 33 0.0007 31.0 3.1 27 40-66 84-111 (356)
31 PRK10884 SH3 domain-containing 35.2 1.5E+02 0.0032 25.0 6.4 18 91-108 95-112 (206)
32 PF11285 DUF3086: Protein of u 33.5 3.4E+02 0.0073 23.9 10.7 65 85-162 7-71 (283)
33 PLN02346 histidine biosynthesi 33.1 1.9E+02 0.0042 25.5 7.0 36 20-55 85-130 (271)
34 cd00106 KISc Kinesin motor dom 32.4 45 0.00098 29.5 3.1 26 40-65 74-100 (328)
35 cd01371 KISc_KIF3 Kinesin moto 31.4 46 0.001 29.8 3.0 27 39-65 76-103 (333)
36 COG2433 Uncharacterized conser 30.4 3.3E+02 0.0071 27.0 8.5 29 85-113 439-467 (652)
37 cd01363 Motor_domain Myosin an 29.2 43 0.00092 27.2 2.2 26 40-65 19-45 (186)
38 COG1938 Archaeal enzymes of AT 28.6 2.1E+02 0.0045 24.9 6.3 47 63-109 184-231 (244)
39 cd01369 KISc_KHC_KIF5 Kinesin 28.0 55 0.0012 29.1 2.9 27 40-66 72-99 (325)
40 COG4942 Membrane-bound metallo 27.9 2.1E+02 0.0046 26.9 6.7 28 134-161 93-120 (420)
41 KOG4191 Histone acetyltransfer 27.9 2.1E+02 0.0046 27.2 6.6 60 92-159 404-463 (516)
42 cd01368 KISc_KIF23_like Kinesi 27.5 62 0.0013 29.2 3.1 27 39-65 83-110 (345)
43 PF04645 DUF603: Protein of un 27.4 3.5E+02 0.0077 22.3 7.4 54 92-161 108-161 (181)
44 COG0139 HisI Phosphoribosyl-AM 27.0 25 0.00054 26.8 0.4 36 20-55 49-94 (111)
45 PRK02759 bifunctional phosphor 26.9 3.2E+02 0.007 23.1 7.0 37 19-55 46-92 (203)
46 cd01366 KISc_C_terminal Kinesi 26.6 59 0.0013 28.9 2.8 26 39-64 72-98 (329)
47 KOG2129 Uncharacterized conser 26.5 1.2E+02 0.0026 28.6 4.7 16 93-108 104-119 (552)
48 PF06698 DUF1192: Protein of u 26.4 1.7E+02 0.0037 19.7 4.3 27 134-160 20-46 (59)
49 TIGR03007 pepcterm_ChnLen poly 26.3 3.9E+02 0.0084 25.0 8.4 46 67-113 140-185 (498)
50 cd01370 KISc_KIP3_like Kinesin 26.1 65 0.0014 28.9 3.0 27 39-65 82-109 (338)
51 PF05700 BCAS2: Breast carcino 25.7 3.4E+02 0.0074 22.8 7.2 19 90-108 144-162 (221)
52 PF00225 Kinesin: Kinesin moto 25.7 37 0.0008 30.1 1.3 26 39-64 69-95 (335)
53 cd01374 KISc_CENP_E Kinesin mo 25.1 67 0.0014 28.5 2.9 26 40-65 69-95 (321)
54 smart00129 KISc Kinesin motor, 25.1 72 0.0016 28.3 3.1 25 40-64 75-100 (335)
55 PRK11637 AmiB activator; Provi 25.0 4.5E+02 0.0098 24.3 8.5 18 137-154 235-252 (428)
56 cd01367 KISc_KIF2_like Kinesin 24.4 67 0.0015 28.6 2.8 26 39-64 79-105 (322)
57 cd01376 KISc_KID_like Kinesin 23.8 78 0.0017 28.1 3.1 27 39-65 75-102 (319)
58 PF14723 SSFA2_C: Sperm-specif 23.4 1.7E+02 0.0037 24.1 4.6 11 67-77 110-120 (179)
59 COG5179 TAF1 Transcription ini 23.4 61 0.0013 32.1 2.3 45 29-76 446-490 (968)
60 KOG0432 Valyl-tRNA synthetase 23.3 2.1E+02 0.0046 29.6 6.1 24 89-112 930-953 (995)
61 COG3883 Uncharacterized protei 23.2 5.2E+02 0.011 22.8 8.0 61 87-161 43-103 (265)
62 PF01502 PRA-CH: Phosphoribosy 22.7 16 0.00036 25.8 -1.2 36 20-55 17-62 (75)
63 PF04977 DivIC: Septum formati 22.6 2.2E+02 0.0048 19.1 4.6 19 90-108 25-43 (80)
64 KOG4445 Uncharacterized conser 22.6 3.1E+02 0.0066 24.8 6.3 77 31-116 100-185 (368)
65 PF04048 Sec8_exocyst: Sec8 ex 22.5 3.2E+02 0.0069 21.2 6.0 31 86-116 76-106 (142)
66 KOG4637 Adaptor for phosphoino 22.2 55 0.0012 30.3 1.7 39 36-78 367-412 (464)
67 KOG4552 Vitamin-D-receptor int 21.5 5.2E+02 0.011 22.1 7.3 16 92-107 84-99 (272)
68 PF10584 Proteasome_A_N: Prote 21.1 36 0.00077 18.5 0.2 14 46-61 3-16 (23)
69 PF03428 RP-C: Replication pro 20.9 4.1E+02 0.009 21.8 6.5 35 44-78 96-140 (177)
70 cd01018 ZntC Metal binding pro 20.9 5.3E+02 0.011 22.0 7.6 54 58-113 111-169 (266)
71 PF10458 Val_tRNA-synt_C: Valy 20.8 2.7E+02 0.0059 18.6 8.3 22 89-110 4-25 (66)
72 cd01372 KISc_KIF4 Kinesin moto 20.5 1.1E+02 0.0023 27.3 3.3 26 39-64 68-93 (341)
73 PF06120 Phage_HK97_TLTM: Tail 20.4 4.2E+02 0.009 23.8 6.9 65 41-108 21-100 (301)
74 PF05812 Herpes_BLRF2: Herpesv 20.1 1.8E+02 0.004 22.4 4.0 26 91-116 5-30 (118)
No 1
>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=99.96 E-value=1.1e-30 Score=187.12 Aligned_cols=73 Identities=32% Similarity=0.608 Sum_probs=70.6
Q ss_pred CccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhhcCc
Q 042235 5 GKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNNRA 79 (225)
Q Consensus 5 gr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~~~ 79 (225)
||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||+|||||. |++|+|++|++++||+||...+.
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~--gk~~~f~s~s~~~vl~ry~~~~~ 73 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSS--GKLYEFSSPSMEKIIERYQKTSG 73 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCC--CceEEecCCCHHHHHHHHHhccc
Confidence 89999999999999999999999999999999999999999999999998 58999999999999999998864
No 2
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.96 E-value=3e-30 Score=214.32 Aligned_cols=76 Identities=42% Similarity=0.737 Sum_probs=72.1
Q ss_pred CCccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCc--hhhHHHHHhhcCccc
Q 042235 4 VGKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSS--VDAVLDAFVNNRAPE 81 (225)
Q Consensus 4 mgr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~sps--v~~Vl~Ry~~~~~~e 81 (225)
|||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||. |++|+|++++ |+.|++||.....+.
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~--~~~~~~~~~~~~~~~v~~~~~~~~~~~ 78 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPS--GKLYEFGSSDESVDAVVDRFLNLTEPS 78 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCC--CCccccCCcchhHHHHHHHHHhhhhhh
Confidence 899999999999999999999999999999999999999999999999999 5999999986 999999999886543
No 3
>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=99.94 E-value=5.3e-28 Score=175.58 Aligned_cols=75 Identities=41% Similarity=0.640 Sum_probs=69.6
Q ss_pred CccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCc-hhhHHHHHhhcCccc
Q 042235 5 GKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSS-VDAVLDAFVNNRAPE 81 (225)
Q Consensus 5 gr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~sps-v~~Vl~Ry~~~~~~e 81 (225)
||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||.+ +++.|++++ ++.+|++|...+..+
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~--~~~~~~~~~~~~~~l~~~~~~~~~~ 76 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSG--KLYVFWPSSEVEGVISRFEVLSALE 76 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCC--CcceecCcHHHHHHHHHHhhcCHhh
Confidence 799999999999999999999999999999999999999999999999984 688887765 999999999987543
No 4
>smart00432 MADS MADS domain.
Probab=99.93 E-value=3.5e-27 Score=160.07 Aligned_cols=59 Identities=42% Similarity=0.730 Sum_probs=57.0
Q ss_pred CccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCC
Q 042235 5 GKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHS 65 (225)
Q Consensus 5 gr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~sp 65 (225)
||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||||+ |+++.|++|
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 89999999999999999999999999999999999999999999999998 589999886
No 5
>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=99.92 E-value=1.6e-26 Score=156.90 Aligned_cols=59 Identities=41% Similarity=0.673 Sum_probs=56.5
Q ss_pred CccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCC
Q 042235 5 GKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHS 65 (225)
Q Consensus 5 gr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~sp 65 (225)
||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||||+ |+++.|++|
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 79999999999999999999999999999999999999999999999998 489998875
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=99.88 E-value=1.6e-24 Score=142.60 Aligned_cols=51 Identities=43% Similarity=0.634 Sum_probs=46.1
Q ss_pred eecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCC
Q 042235 12 KRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGH 64 (225)
Q Consensus 12 ~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~s 64 (225)
++|+|+..|++||+||+.||+|||+|||+||||+||+|||||. |++|+|+|
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 5899999999999999999999999999999999999999998 59999976
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.74 E-value=5.8e-19 Score=152.17 Aligned_cols=67 Identities=33% Similarity=0.539 Sum_probs=62.2
Q ss_pred CCccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCchhhHHH
Q 042235 4 VGKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLD 72 (225)
Q Consensus 4 mgr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~ 72 (225)
-||+||+|+||+|+..|.+||||||.||||||+||+||+|.+|-|+|.|.. |.+|+|++|..+.||.
T Consensus 62 ~gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEt--GhVyTFaTpKLep~i~ 128 (338)
T KOG0015|consen 62 TGRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASET--GHVYTFATPKLEPMIT 128 (338)
T ss_pred cceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecC--cceEEecccccccccc
Confidence 369999999999999999999999999999999999999999999999998 5899999987666553
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.35 E-value=3.6e-13 Score=121.21 Aligned_cols=68 Identities=34% Similarity=0.471 Sum_probs=63.4
Q ss_pred CCccccceeecCCCCCcccchhccccchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCchhhHHHH
Q 042235 4 VGKRRIPLKRRDTKEQRAVSFSKRRHGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDA 73 (225)
Q Consensus 4 mgr~ki~i~~I~~~~~R~~tf~kRr~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~R 73 (225)
|||+||.|.+|+|+.+|.|||+||+.||+|||.||++|+|.+|.++|.|.. |.++.|++|..+.|+.-
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~--g~v~tf~tp~~e~v~~~ 148 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISEN--GLVHTFTTPKLESVVKS 148 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCC--CceeeecCCcccccccc
Confidence 789999999999999999999999999999999999999999999999987 58999999987766643
No 9
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=97.30 E-value=0.0016 Score=48.59 Aligned_cols=64 Identities=23% Similarity=0.269 Sum_probs=50.1
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Q 042235 88 VRLGISMFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLTDLLA 163 (225)
Q Consensus 88 ~~~~~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~~l~~ 163 (225)
....+.+..|+..|..+++.+....|. ++|+ +++ +++++||..|+..|+..+..|+.|+.++..
T Consensus 11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~---~~Ge----dL~-----~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~ 74 (100)
T PF01486_consen 11 DSQHEELQQEIAKLRKENESLQKELRH---LMGE----DLE-----SLSLKELQQLEQQLESALKRVRSRKDQLLM 74 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc---cccc----ccc-----ccchHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 345577888899999888888544432 2454 444 599999999999999999999999998754
No 10
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=90.72 E-value=0.11 Score=38.65 Aligned_cols=37 Identities=22% Similarity=0.249 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCC
Q 042235 94 MFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNS 133 (225)
Q Consensus 94 l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~ 133 (225)
..++|+.||++++..+.+||.+| .+.|.+.+..|+++
T Consensus 47 s~~eL~~LE~~Le~aL~~VR~rK---~~~l~~~i~~l~~k 83 (100)
T PF01486_consen 47 SLKELQQLEQQLESALKRVRSRK---DQLLMEQIEELKKK 83 (100)
T ss_pred chHHHHHHHHhhhhhHHHHHHHH---HHHHHHHHHHHHHH
Confidence 57999999999999999999998 67776666655543
No 11
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=74.68 E-value=8.7 Score=33.88 Aligned_cols=65 Identities=18% Similarity=0.275 Sum_probs=40.0
Q ss_pred CCcccchhccccch---------hhhhhhhhcccCcceeeeeccCCCCC-----ceeeeCCC-----chhhHHHHHhhcC
Q 042235 18 EQRAVSFSKRRHGL---------LNKAAEYCLRTRSQLALLVSSPVSDT-----TFYTFGHS-----SVDAVLDAFVNNR 78 (225)
Q Consensus 18 ~~R~~tf~kRr~gl---------~KKa~ELs~LC~~~valIvfs~~~~g-----k~~~f~sp-----sv~~Vl~Ry~~~~ 78 (225)
+.+.|-||+-|..| +.+.-++.|-||-+.-+.+.-+.|.| ...+|+.. +.+++|..-++..
T Consensus 180 ~g~gvy~SRsR~~lW~KGetSgn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~a 259 (359)
T KOG4311|consen 180 SGKGVYFSRSRSTLWTKGETSGNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETA 259 (359)
T ss_pred cCcceEEecccceeeeccccCcCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcC
Confidence 34556677777744 44467889999999877666666432 34556543 5788876544433
Q ss_pred ccch
Q 042235 79 APEA 82 (225)
Q Consensus 79 ~~e~ 82 (225)
+.++
T Consensus 260 PeeS 263 (359)
T KOG4311|consen 260 PEES 263 (359)
T ss_pred Cchh
Confidence 3333
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=72.73 E-value=3 Score=35.15 Aligned_cols=47 Identities=28% Similarity=0.456 Sum_probs=38.2
Q ss_pred hhhh----hhhhhcccCcceeeeeccCCCC-CceeeeCCCchhhHHHHHhhc
Q 042235 31 LLNK----AAEYCLRTRSQLALLVSSPVSD-TTFYTFGHSSVDAVLDAFVNN 77 (225)
Q Consensus 31 l~KK----a~ELs~LC~~~valIvfs~~~~-gk~~~f~spsv~~Vl~Ry~~~ 77 (225)
|+.| ..|++|-+|-++.|+|++|+.. +....||....+.||..|...
T Consensus 37 llrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa~pL~~vv~~~~~~ 88 (214)
T PF10491_consen 37 LLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAAPLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecchhHHHHHHHHHHH
Confidence 6666 5899999999999999999642 245569998999999999766
No 13
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=70.01 E-value=11 Score=27.99 Aligned_cols=75 Identities=19% Similarity=0.305 Sum_probs=38.7
Q ss_pred hhhhhcccCcceeee-------eccCCCCC-ceeeeCCCchhhHHHHHhhcC----ccchhhHHHHHHHHhHHHHHHHHH
Q 042235 35 AAEYCLRTRSQLALL-------VSSPVSDT-TFYTFGHSSVDAVLDAFVNNR----APEAADKELVRLGISMFNEVKDLE 102 (225)
Q Consensus 35 a~ELs~LC~~~valI-------vfs~~~~g-k~~~f~spsv~~Vl~Ry~~~~----~~e~~~~~l~~~~~~l~kEl~~Le 102 (225)
..|||..||++...| ++.|...+ .-|.|.+.+ -.++.+..+.. -..... .-.-.+..+++.|+
T Consensus 10 ~~Elc~~~gi~~~~l~eLve~GlIep~~~~~~~~~F~~~~-l~r~~~a~rL~~dl~in~~gi----alvl~LLd~i~~Lr 84 (101)
T PRK10265 10 ITEFCLHTGVSEEELNEIVGLGVIEPREIQETTWVFDDHA-AIVVQRAVRLRHELALDWPGI----AVALTLLDEIAHLK 84 (101)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeecCCCCcccceECHHH-HHHHHHHHHHHHHcCCCHHHH----HHHHHHHHHHHHHH
Confidence 468999999875444 33343212 345554432 22233333332 111111 22345777788888
Q ss_pred HHHHHHHHHHHh
Q 042235 103 LYDKKISKAIKS 114 (225)
Q Consensus 103 ~qle~l~k~~r~ 114 (225)
+++..+.+++++
T Consensus 85 ~el~~L~~~l~~ 96 (101)
T PRK10265 85 QENRLLRQRLSR 96 (101)
T ss_pred HHHHHHHHHHHH
Confidence 877777665544
No 14
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=62.18 E-value=62 Score=30.81 Aligned_cols=37 Identities=11% Similarity=0.168 Sum_probs=18.5
Q ss_pred CchhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 042235 65 SSVDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDKKI 108 (225)
Q Consensus 65 psv~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle~l 108 (225)
++|-.|++........ ...+...+..+..||++++.+
T Consensus 52 ~~~~~vV~~~FddkVn-------qSALteqQ~kasELEKqLaaL 88 (475)
T PRK13729 52 PDMTGVVDTTFDDKVR-------QHATTEMQVTAAQMQKQYEEI 88 (475)
T ss_pred CCccceecchhHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence 4666666655443211 112233445556666666665
No 15
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=54.59 E-value=1.1e+02 Score=24.45 Aligned_cols=95 Identities=17% Similarity=0.160 Sum_probs=55.6
Q ss_pred cceeeeeccCCCCCceeeeCCCchhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhcCccccCch
Q 042235 44 SQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDKKISKAIKSDGNLEREGF 123 (225)
Q Consensus 44 ~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~ 123 (225)
++-+.|++-..|+-+.|.+....+. ..+..+ ...+..++..+..++..|+.+...+.....
T Consensus 43 ~~~g~i~~K~~GKqkiY~~~Q~~~~-------~~s~ee--l~~ld~ei~~L~~el~~l~~~~k~l~~eL~---------- 103 (169)
T PF07106_consen 43 VEEGKIVEKEYGKQKIYFANQDELE-------VPSPEE--LAELDAEIKELREELAELKKEVKSLEAELA---------- 103 (169)
T ss_pred HhCCCeeeeeecceEEEeeCccccC-------CCCchh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------
Confidence 3445666666654445544322221 111111 234455556666666666666655532221
Q ss_pred hhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Q 042235 124 WEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLTDLLA 163 (225)
Q Consensus 124 ~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~~l~~ 163 (225)
.|. ..++.+||......|...+..+..|+..+..
T Consensus 104 -----~L~-~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 104 -----SLS-SEPTNEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred -----HHh-cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 111 1588899999999999999999999998875
No 16
>PRK04098 sec-independent translocase; Provisional
Probab=49.55 E-value=41 Score=27.23 Aligned_cols=29 Identities=10% Similarity=0.131 Sum_probs=15.8
Q ss_pred ceeeeeccCCCCCceeeeCCCchhhHHHHHhhc
Q 042235 45 QLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNN 77 (225)
Q Consensus 45 ~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~ 77 (225)
=||||||+|. ++=..+ -.+...+..|++.
T Consensus 14 vVaLlvfGP~---KLP~~~-r~lGk~ir~~K~~ 42 (158)
T PRK04098 14 VVAIIFLGPD---KLPQAM-VDIAKFFKAVKKT 42 (158)
T ss_pred HHHHhhcCch---HHHHHH-HHHHHHHHHHHHH
Confidence 4788999886 332211 2344555555554
No 17
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=48.18 E-value=1.3e+02 Score=25.38 Aligned_cols=29 Identities=28% Similarity=0.377 Sum_probs=19.5
Q ss_pred ccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhhc
Q 042235 41 RTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNN 77 (225)
Q Consensus 41 LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~ 77 (225)
--||++||+|||..+ .|+| +.+++=|.+.
T Consensus 90 yrgaqa~vLVFSTTD---r~SF-----ea~~~w~~kv 118 (246)
T KOG4252|consen 90 YRGAQASVLVFSTTD---RYSF-----EATLEWYNKV 118 (246)
T ss_pred hccccceEEEEeccc---HHHH-----HHHHHHHHHH
Confidence 357899999999874 4444 5555555544
No 18
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=47.27 E-value=1e+02 Score=27.14 Aligned_cols=20 Identities=15% Similarity=0.170 Sum_probs=15.0
Q ss_pred cCccccccCCCCCCccccch
Q 042235 200 CGERFKFGNNHIHEDDNKKE 219 (225)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~ 219 (225)
-+++..||+-|.|+|---.+
T Consensus 230 r~~d~~~g~~pltp~aRisa 249 (333)
T KOG1853|consen 230 RSEDVFMGDVPLTPDARISA 249 (333)
T ss_pred cccccccCCCCCCchhhHHH
Confidence 46788899999998865443
No 19
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=46.83 E-value=41 Score=27.61 Aligned_cols=13 Identities=15% Similarity=0.353 Sum_probs=11.3
Q ss_pred cCcceeeeeccCC
Q 042235 42 TRSQLALLVSSPV 54 (225)
Q Consensus 42 C~~~valIvfs~~ 54 (225)
.++..|+|||-|+
T Consensus 11 ~~~k~C~IC~Kps 23 (182)
T PF08432_consen 11 TDAKACFICYKPS 23 (182)
T ss_pred CCCCceeEecCCC
Confidence 7888999999886
No 20
>PTZ00046 rifin; Provisional
Probab=43.47 E-value=26 Score=32.07 Aligned_cols=29 Identities=17% Similarity=0.312 Sum_probs=19.8
Q ss_pred hcccCcceeeeeccCCCCCceeee-CCCchhhHHHHHhhcC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTF-GHSSVDAVLDAFVNNR 78 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f-~spsv~~Vl~Ry~~~~ 78 (225)
-+||.+|. |+|. | ..|.|++|.+.|.+..
T Consensus 39 R~LcECeL----Y~pn-------YDNDPeMK~Vme~F~rqT 68 (358)
T PTZ00046 39 RLLCECEL----YSSN-------YDNDPEMKSVMENFDRQT 68 (358)
T ss_pred hhhhhhhc----CCCC-------CCCcHHHHHHHHHHhHHH
Confidence 36787776 3331 2 2389999999997765
No 21
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=43.20 E-value=33 Score=24.42 Aligned_cols=72 Identities=14% Similarity=0.290 Sum_probs=34.0
Q ss_pred hhhhhcccCcceeee-------eccCCCC-CceeeeCCCchhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHH
Q 042235 35 AAEYCLRTRSQLALL-------VSSPVSD-TTFYTFGHSSVDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDK 106 (225)
Q Consensus 35 a~ELs~LC~~~valI-------vfs~~~~-gk~~~f~spsv~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle 106 (225)
..|+|..|+++...| +..|.+. +.+| |+...+.. +.++.+....-.-+-.-..-.-.+..+++.|++++.
T Consensus 3 ~~e~~~~~~i~~~~l~~lve~Gli~p~~~~~~~~-f~~~~l~r-l~~~~rL~~Dl~in~~gi~lil~LLd~i~~L~~el~ 80 (84)
T PF13591_consen 3 LEEFCEACGIEPEFLRELVEEGLIEPEGEEEEWY-FSEEDLAR-LRRIRRLHRDLGINLEGIALILDLLDRIEQLRRELR 80 (84)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeeecCCCCeee-ECHHHHHH-HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999875544 2223221 2333 55443322 233433321110000001223457777888877776
Q ss_pred HH
Q 042235 107 KI 108 (225)
Q Consensus 107 ~l 108 (225)
.+
T Consensus 81 ~L 82 (84)
T PF13591_consen 81 EL 82 (84)
T ss_pred Hh
Confidence 65
No 22
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=40.76 E-value=81 Score=19.62 Aligned_cols=23 Identities=17% Similarity=0.172 Sum_probs=14.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Q 042235 135 ESIGELGVIVDKLAKAKEKAILR 157 (225)
Q Consensus 135 lsl~EL~~l~~~Le~~l~~i~~R 157 (225)
.-++||.+|++.|+..+......
T Consensus 4 ~~ieelkqll~rle~eirett~s 26 (46)
T PF08181_consen 4 KKIEELKQLLWRLENEIRETTDS 26 (46)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888888887665544433
No 23
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=40.25 E-value=67 Score=25.13 Aligned_cols=25 Identities=4% Similarity=0.347 Sum_probs=19.7
Q ss_pred eeeeeccCCCCCceeeeCCCchhhHHHHH
Q 042235 46 LALLVSSPVSDTTFYTFGHSSVDAVLDAF 74 (225)
Q Consensus 46 valIvfs~~~~gk~~~f~spsv~~Vl~Ry 74 (225)
+|||+.+|. ++.|.+|+-+.++.+|
T Consensus 16 ~~ii~~G~~----l~~y~tPTeEeL~~r~ 40 (128)
T PF07960_consen 16 AVIIGGGPA----LVKYTTPTEEELFKRY 40 (128)
T ss_pred ceeEeechH----HheecCCCHHHHHHhc
Confidence 455666554 7889999999999998
No 24
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=39.92 E-value=1.8e+02 Score=22.74 Aligned_cols=27 Identities=26% Similarity=0.340 Sum_probs=20.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 134 DESIGELGVIVDKLAKAKEKAILRLTD 160 (225)
Q Consensus 134 ~lsl~EL~~l~~~Le~~l~~i~~R~~~ 160 (225)
.++.+.|+.++.+|++....+...+..
T Consensus 50 ~Ms~~~l~~llkqLEkeK~~Le~qlk~ 76 (129)
T PF15372_consen 50 QMSVESLNQLLKQLEKEKRSLENQLKD 76 (129)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999887766554443
No 25
>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=39.28 E-value=27 Score=20.49 Aligned_cols=30 Identities=7% Similarity=0.165 Sum_probs=19.7
Q ss_pred hhhcccCcceeeeeccCCCCCceeeeCCCc
Q 042235 37 EYCLRTRSQLALLVSSPVSDTTFYTFGHSS 66 (225)
Q Consensus 37 ELs~LC~~~valIvfs~~~~gk~~~f~sps 66 (225)
.||--||+-|.+-||...|+-++|--++|.
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvfrcsnpa 31 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVFRCSNPA 31 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEEEES-TT
T ss_pred ccCCccCceEEEEeecCCCcEEEEEcCCCc
Confidence 477889999999999988655666656663
No 26
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=39.26 E-value=1.9e+02 Score=23.96 Aligned_cols=30 Identities=20% Similarity=0.154 Sum_probs=25.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Q 042235 134 DESIGELGVIVDKLAKAKEKAILRLTDLLA 163 (225)
Q Consensus 134 ~lsl~EL~~l~~~Le~~l~~i~~R~~~l~~ 163 (225)
.|+++|++.-.+.|.+....-++|+..+..
T Consensus 115 ~Lt~eemQe~i~~L~kev~~~~erl~~~k~ 144 (201)
T KOG4603|consen 115 ALTTEEMQEEIQELKKEVAGYRERLKNIKA 144 (201)
T ss_pred hcChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999998888888888888888887753
No 27
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=39.21 E-value=17 Score=32.56 Aligned_cols=52 Identities=8% Similarity=0.049 Sum_probs=28.4
Q ss_pred cccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHH
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDK 106 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle 106 (225)
+||.+|.-.-.|. ..|.|++|++.|.+... +.++..-+.++..-++.++|.|
T Consensus 20 ~LcECely~snYD----------NDPeMK~Vme~F~rqTs-----QRF~EYdErm~~kRqkcKEqcD 71 (299)
T PF02009_consen 20 SLCECELYTSNYD----------NDPEMKSVMENFDRQTS-----QRFEEYDERMQEKRQKCKEQCD 71 (299)
T ss_pred chhhhcccccCCC----------CcHHHHHHHHHHHHHHH-----HHHHHHHhhhhhhHHHHHHHhc
Confidence 5676665433332 23899999999987652 2222222334444555555544
No 28
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=39.00 E-value=51 Score=28.69 Aligned_cols=70 Identities=9% Similarity=0.002 Sum_probs=31.8
Q ss_pred hhhhcccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhhcCccchh-hHHHHHHHHhHHHHHHHHHHHHHHH
Q 042235 36 AEYCLRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNNRAPEAA-DKELVRLGISMFNEVKDLELYDKKI 108 (225)
Q Consensus 36 ~ELs~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~~~~e~~-~~~l~~~~~~l~kEl~~Le~qle~l 108 (225)
--|++|++|-+...++.|. .+..-++++++.-+.+..+....... ...|.++++.++.|+..|.-+++.+
T Consensus 10 ~~~~~l~~~~~~~~~~a~a---~v~~~~~~~~~~r~~~le~~~~~~~~~~~~l~~ql~~lq~ev~~LrG~~E~~ 80 (263)
T PRK10803 10 LSLSLLVGVAAPWAAFAQA---PISSVGSGSVEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQEN 80 (263)
T ss_pred HHHHHHHHHhhhHHHhcCC---cHHHcCCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 4456666654444444443 22223445566555555444321111 1233444455555555555544433
No 29
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=38.75 E-value=31 Score=31.58 Aligned_cols=29 Identities=10% Similarity=0.112 Sum_probs=19.2
Q ss_pred cccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhhcC
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVNNR 78 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~~~ 78 (225)
+||.+|.-...|. ..|.|++|.+.|.+..
T Consensus 43 ~LcECeLy~~nYD----------NDPeMK~Vm~nF~rqT 71 (353)
T TIGR01477 43 SLCECELYSSNYD----------NDPEMKSVMEQFDRQT 71 (353)
T ss_pred hhhhhhcccccCC----------CcHHHHHHHHHHhHHH
Confidence 5787776322221 2388999999997765
No 30
>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=37.87 E-value=33 Score=31.04 Aligned_cols=27 Identities=15% Similarity=0.171 Sum_probs=23.4
Q ss_pred cccCcceeeeeccCCCCCceee-eCCCc
Q 042235 40 LRTRSQLALLVSSPVSDTTFYT-FGHSS 66 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~-f~sps 66 (225)
++.|..++|++|.+.|.||.|+ ||.+.
T Consensus 84 ~l~G~n~~i~ayGqtGSGKT~Tm~G~~~ 111 (356)
T cd01365 84 AFEGYNVCLFAYGQTGSGKSYTMMGYKE 111 (356)
T ss_pred HhCCCceEEEEecCCCCCCeEEecCCCC
Confidence 7889999999999999899998 56643
No 31
>PRK10884 SH3 domain-containing protein; Provisional
Probab=35.16 E-value=1.5e+02 Score=25.03 Aligned_cols=18 Identities=28% Similarity=0.095 Sum_probs=9.2
Q ss_pred HHhHHHHHHHHHHHHHHH
Q 042235 91 GISMFNEVKDLELYDKKI 108 (225)
Q Consensus 91 ~~~l~kEl~~Le~qle~l 108 (225)
...+.+|++.|+.+++.+
T Consensus 95 lp~le~el~~l~~~l~~~ 112 (206)
T PRK10884 95 VPDLENQVKTLTDKLNNI 112 (206)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555555444
No 32
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=33.46 E-value=3.4e+02 Score=23.93 Aligned_cols=65 Identities=18% Similarity=0.153 Sum_probs=40.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 85 KELVRLGISMFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLTDLL 162 (225)
Q Consensus 85 ~~l~~~~~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~~l~ 162 (225)
+.|.++-+.++.+|++||.+.+.+.+++|+.- .|. -++|. .-.+.+.+.|-..|..+..-..+|.
T Consensus 7 ~eL~qrk~~Lq~eIe~LerR~~ri~~EmrtsF--aG~--Sq~lA---------~RVqGFkdYLvGsLQDLa~saEqLe 71 (283)
T PF11285_consen 7 KELEQRKQALQIEIEQLERRRERIEKEMRTSF--AGQ--SQDLA---------IRVQGFKDYLVGSLQDLAQSAEQLE 71 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--ccc--hHHHH---------HHHhhhHHHHHHHHHHHHHHHHhhc
Confidence 55667778899999999998888877776542 222 11211 1223355566666666655555654
No 33
>PLN02346 histidine biosynthesis bifunctional protein hisIE
Probab=33.11 E-value=1.9e+02 Score=25.48 Aligned_cols=36 Identities=22% Similarity=0.435 Sum_probs=27.0
Q ss_pred cccc-hhccccchhhh---------hhhhhcccCcceeeeeccCCC
Q 042235 20 RAVS-FSKRRHGLLNK---------AAEYCLRTRSQLALLVSSPVS 55 (225)
Q Consensus 20 R~~t-f~kRr~gl~KK---------a~ELs~LC~~~valIvfs~~~ 55 (225)
..+| ||+-|+.|-.| ..++.+-||.+.-++..-|.|
T Consensus 85 g~~~y~SRSR~~LW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G 130 (271)
T PLN02346 85 RKATFYSRSRSGLWTKGETSGNFINVHDIYLDCDRDSIIYLGTPDG 130 (271)
T ss_pred CcEEEEeCCCCccccCCCCcCCeEEEEEEEecCCCCeEEEEEEecC
Confidence 3444 68888888666 568999999998888776653
No 34
>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=32.38 E-value=45 Score=29.45 Aligned_cols=26 Identities=15% Similarity=0.239 Sum_probs=22.2
Q ss_pred cccCcceeeeeccCCCCCceee-eCCC
Q 042235 40 LRTRSQLALLVSSPVSDTTFYT-FGHS 65 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~-f~sp 65 (225)
++.|..+||++|++.+.||.|+ ||++
T Consensus 74 ~~~G~~~~i~~yG~tgSGKT~tl~G~~ 100 (328)
T cd00106 74 VLEGYNGTIFAYGQTGSGKTYTMFGSP 100 (328)
T ss_pred HhCCCceeEEEecCCCCCCeEEecCCC
Confidence 5779999999999998899999 5654
No 35
>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=31.39 E-value=46 Score=29.76 Aligned_cols=27 Identities=7% Similarity=0.028 Sum_probs=23.1
Q ss_pred hcccCcceeeeeccCCCCCceee-eCCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYT-FGHS 65 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~-f~sp 65 (225)
+++-|..+||++|++.|.||.|+ ||++
T Consensus 76 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 103 (333)
T cd01371 76 SVLEGYNGTIFAYGQTGTGKTFTMEGVR 103 (333)
T ss_pred HHhCCCceeEEecCCCCCCCcEeecCCC
Confidence 57889999999999998899999 4543
No 36
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=30.37 E-value=3.3e+02 Score=26.99 Aligned_cols=29 Identities=21% Similarity=0.245 Sum_probs=18.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 042235 85 KELVRLGISMFNEVKDLELYDKKISKAIK 113 (225)
Q Consensus 85 ~~l~~~~~~l~kEl~~Le~qle~l~k~~r 113 (225)
+.|......+.+++++|+.+++.+..+++
T Consensus 439 ~~L~~~~ee~k~eie~L~~~l~~~~r~~~ 467 (652)
T COG2433 439 SELKRELEELKREIEKLESELERFRREVR 467 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555667777777777776654443
No 37
>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=29.23 E-value=43 Score=27.21 Aligned_cols=26 Identities=12% Similarity=0.213 Sum_probs=21.6
Q ss_pred cccCcceeeeeccCCCCCceeee-CCC
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTF-GHS 65 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f-~sp 65 (225)
++.|-.+||++|.+.|.||.|+- +.+
T Consensus 19 ~~~G~n~~i~~yG~tGsGKT~Tm~G~~ 45 (186)
T cd01363 19 ALDGYNVCIFAYGQTGSGKTYTMEGKR 45 (186)
T ss_pred HhCCcceeEEEECCCCCcceEecCCCC
Confidence 56788999999999988999884 444
No 38
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=28.55 E-value=2.1e+02 Score=24.93 Aligned_cols=47 Identities=11% Similarity=0.064 Sum_probs=26.1
Q ss_pred CCC-chhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHHHHH
Q 042235 63 GHS-SVDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDKKIS 109 (225)
Q Consensus 63 ~sp-sv~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle~l~ 109 (225)
+.| .+..+|+-..+.-...-++..|.++.+.+..+++++.+|+++..
T Consensus 184 PDP~AAa~vve~lnk~~~l~V~td~L~keAe~i~~~lekl~eq~~~~~ 231 (244)
T COG1938 184 PDPRAAARVVEALNKMLGLNVDTDKLEKEAEEIEEQLEKLAEQLEKEE 231 (244)
T ss_pred CChHHHHHHHHHHHHHhcCccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 24444443333322222335666777777788888877776653
No 39
>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=28.03 E-value=55 Score=29.07 Aligned_cols=27 Identities=11% Similarity=0.165 Sum_probs=22.7
Q ss_pred cccCcceeeeeccCCCCCceeee-CCCc
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTF-GHSS 66 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f-~sps 66 (225)
++-|..++|++|++.|.||.|+. |.+.
T Consensus 72 ~~~G~n~~i~ayG~tgSGKT~Tm~G~~~ 99 (325)
T cd01369 72 VLNGYNGTIFAYGQTGSGKTYTMEGPPG 99 (325)
T ss_pred HHcCccceEEEeCCCCCCceEEecCCCC
Confidence 68899999999999988999994 5443
No 40
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=27.92 E-value=2.1e+02 Score=26.87 Aligned_cols=28 Identities=18% Similarity=0.293 Sum_probs=16.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 134 DESIGELGVIVDKLAKAKEKAILRLTDL 161 (225)
Q Consensus 134 ~lsl~EL~~l~~~Le~~l~~i~~R~~~l 161 (225)
...+.+++..+..|+.....-+.++..+
T Consensus 93 ~~~I~~~~~~l~~l~~q~r~qr~~La~~ 120 (420)
T COG4942 93 RKQIADLNARLNALEVQEREQRRRLAEQ 120 (420)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777777777666554444444443
No 41
>KOG4191 consensus Histone acetyltransferases PCAF/SAGA/ADA, subunit TADA3L/NGG1 [Chromatin structure and dynamics]
Probab=27.87 E-value=2.1e+02 Score=27.17 Aligned_cols=60 Identities=17% Similarity=0.180 Sum_probs=38.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 92 ISMFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLT 159 (225)
Q Consensus 92 ~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~ 159 (225)
.....||.+|..+++..-++.+.++ ++++- -.++ ++..+|+.+.++.|++.+.....+..
T Consensus 404 DEvlaeLR~lqaeLk~vS~~N~k~k---~~Ll~-la~e----E~a~qe~~q~lddlDkqI~qaYvKr~ 463 (516)
T KOG4191|consen 404 DEVLAELRKLQAELKAVSAHNRKKK---HDLLR-LAPE----EMARQEFQQVLDDLDKQIEQAYVKRN 463 (516)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHH---HHHHH-hhHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467777777777777666666655 33221 1122 57788999999888887765544433
No 42
>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=27.54 E-value=62 Score=29.18 Aligned_cols=27 Identities=19% Similarity=0.133 Sum_probs=23.1
Q ss_pred hcccCcceeeeeccCCCCCceee-eCCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYT-FGHS 65 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~-f~sp 65 (225)
.++-|..++|++|.+.|.||.|+ ||.+
T Consensus 83 ~~l~G~n~ti~aYGqtGSGKTyTm~G~~ 110 (345)
T cd01368 83 DLLKGKNSLLFTYGVTNSGKTYTMQGSP 110 (345)
T ss_pred HHhCCCceEEEEeCCCCCCCeEEecCCC
Confidence 36789999999999999899999 5655
No 43
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=27.44 E-value=3.5e+02 Score=22.28 Aligned_cols=54 Identities=19% Similarity=0.242 Sum_probs=31.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 92 ISMFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLTDL 161 (225)
Q Consensus 92 ~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~~l 161 (225)
..+.+++..|+-+++++.+.+...+ .+++. ++++.+...|...+..-..+.+.|
T Consensus 108 ~s~~~ei~~L~~kI~~L~~~in~~~---k~~~n-------------~~i~slk~EL~d~iKe~e~~emeL 161 (181)
T PF04645_consen 108 KSIKKEIEILRLKISSLQKEINKNK---KKDLN-------------EEIESLKSELNDLIKEREIREMEL 161 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhh---hhhhh-------------hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467888888888888876665543 22222 244555555555555444455544
No 44
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=26.98 E-value=25 Score=26.77 Aligned_cols=36 Identities=22% Similarity=0.333 Sum_probs=27.2
Q ss_pred cccc-hhccccchhhh---------hhhhhcccCcceeeeeccCCC
Q 042235 20 RAVS-FSKRRHGLLNK---------AAEYCLRTRSQLALLVSSPVS 55 (225)
Q Consensus 20 R~~t-f~kRr~gl~KK---------a~ELs~LC~~~valIvfs~~~ 55 (225)
+.++ ||+-|+-|-+| +-|+.+-||.++-+++..+.+
T Consensus 49 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~g 94 (111)
T COG0139 49 GEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIG 94 (111)
T ss_pred CeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCC
Confidence 4444 57767655555 789999999999999888854
No 45
>PRK02759 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed
Probab=26.86 E-value=3.2e+02 Score=23.05 Aligned_cols=37 Identities=22% Similarity=0.390 Sum_probs=28.3
Q ss_pred Ccccc-hhccccchhhh---------hhhhhcccCcceeeeeccCCC
Q 042235 19 QRAVS-FSKRRHGLLNK---------AAEYCLRTRSQLALLVSSPVS 55 (225)
Q Consensus 19 ~R~~t-f~kRr~gl~KK---------a~ELs~LC~~~valIvfs~~~ 55 (225)
.+.+| ||+-|+.|-.| ..++.+-||.+.-++..-|.|
T Consensus 46 tg~~~~~SRSr~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G 92 (203)
T PRK02759 46 TGEVTFFSRSKQRLWTKGETSGNTQKVVSIRLDCDNDTLLVLVEPIG 92 (203)
T ss_pred cCcEEEEeCCCCcccCCCCCCCCeEEEEEEEecCCCCeEEEEEEecC
Confidence 35566 57778888766 568999999999888887764
No 46
>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=26.60 E-value=59 Score=28.86 Aligned_cols=26 Identities=12% Similarity=0.195 Sum_probs=22.1
Q ss_pred hcccCcceeeeeccCCCCCceeee-CC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTF-GH 64 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f-~s 64 (225)
+++-|..+||+.|.+.|.||.|+. +.
T Consensus 72 ~~~~G~~~~i~ayG~tgSGKT~tl~G~ 98 (329)
T cd01366 72 SALDGYNVCIFAYGQTGSGKTYTMEGP 98 (329)
T ss_pred HHhCCCceEEEEeCCCCCCCcEEecCC
Confidence 367899999999999988999984 54
No 47
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=26.46 E-value=1.2e+02 Score=28.63 Aligned_cols=16 Identities=6% Similarity=0.262 Sum_probs=9.8
Q ss_pred hHHHHHHHHHHHHHHH
Q 042235 93 SMFNEVKDLELYDKKI 108 (225)
Q Consensus 93 ~l~kEl~~Le~qle~l 108 (225)
.|.++++.|.+..+++
T Consensus 104 tLlkkiqal~keketl 119 (552)
T KOG2129|consen 104 TLLKKIQALFKEKETL 119 (552)
T ss_pred HHHHHHHHhhcccccc
Confidence 4667777776554444
No 48
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=26.42 E-value=1.7e+02 Score=19.69 Aligned_cols=27 Identities=15% Similarity=0.043 Sum_probs=21.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 134 DESIGELGVIVDKLAKAKEKAILRLTD 160 (225)
Q Consensus 134 ~lsl~EL~~l~~~Le~~l~~i~~R~~~ 160 (225)
.+|++||..-...|+..+.+++..+..
T Consensus 20 ~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 20 LLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 599999999999999888877765443
No 49
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=26.32 E-value=3.9e+02 Score=25.04 Aligned_cols=46 Identities=15% Similarity=0.137 Sum_probs=24.8
Q ss_pred hhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 042235 67 VDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDLELYDKKISKAIK 113 (225)
Q Consensus 67 v~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle~l~k~~r 113 (225)
++.+++.|......... .....-..++.+++..++++++.....++
T Consensus 140 ~n~l~~~yi~~~~~~~~-~~~~~~~~fl~~ql~~~~~~L~~ae~~l~ 185 (498)
T TIGR03007 140 VQTLLTIFVEETLGSKR-QDSDSAQRFIDEQIKTYEKKLEAAENRLK 185 (498)
T ss_pred HHHHHHHHHHhhcccch-hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666668776532211 22223345666677777766665544443
No 50
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. 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 sec
Probab=26.12 E-value=65 Score=28.92 Aligned_cols=27 Identities=7% Similarity=0.047 Sum_probs=22.8
Q ss_pred hcccCcceeeeeccCCCCCceeee-CCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTF-GHS 65 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f-~sp 65 (225)
+++-|..+||++|++.|.||.|+. |.+
T Consensus 82 ~~~~G~n~~i~ayGqtGSGKTyTm~G~~ 109 (338)
T cd01370 82 GVLNGYNATVFAYGATGAGKTHTMLGTD 109 (338)
T ss_pred HHHCCCCceEEeeCCCCCCCeEEEcCCC
Confidence 467899999999999998999994 554
No 51
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=25.74 E-value=3.4e+02 Score=22.81 Aligned_cols=19 Identities=11% Similarity=0.062 Sum_probs=10.7
Q ss_pred HHHhHHHHHHHHHHHHHHH
Q 042235 90 LGISMFNEVKDLELYDKKI 108 (225)
Q Consensus 90 ~~~~l~kEl~~Le~qle~l 108 (225)
....+.+++..++++++.+
T Consensus 144 ~~~~le~~l~~~k~~ie~v 162 (221)
T PF05700_consen 144 MLKRLEKELAKLKKEIEEV 162 (221)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344566666666665544
No 52
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=25.68 E-value=37 Score=30.13 Aligned_cols=26 Identities=15% Similarity=0.277 Sum_probs=21.2
Q ss_pred hcccCcceeeeeccCCCCCceee-eCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYT-FGH 64 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~-f~s 64 (225)
+++-|..+||++|.+.|.||.|+ ||+
T Consensus 69 ~~l~G~n~~i~ayG~tgSGKT~Tm~G~ 95 (335)
T PF00225_consen 69 SVLDGYNATIFAYGQTGSGKTYTMFGS 95 (335)
T ss_dssp HHHTT-EEEEEEEESTTSSHHHHHTBS
T ss_pred HhhcCCceEEEeecccccccccccccc
Confidence 46789999999999988899997 565
No 53
>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=25.10 E-value=67 Score=28.48 Aligned_cols=26 Identities=12% Similarity=0.125 Sum_probs=22.1
Q ss_pred cccCcceeeeeccCCCCCceeee-CCC
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTF-GHS 65 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f-~sp 65 (225)
++-|..++|++|++.|.||.|+. |++
T Consensus 69 ~l~G~n~~i~ayG~tgSGKT~T~~G~~ 95 (321)
T cd01374 69 ALEGYNGTIFAYGQTSSGKTFTMSGDE 95 (321)
T ss_pred HHCCCceeEEeecCCCCCCceeccCCC
Confidence 57899999999999988999995 543
No 54
>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=25.06 E-value=72 Score=28.32 Aligned_cols=25 Identities=12% Similarity=0.212 Sum_probs=21.5
Q ss_pred cccCcceeeeeccCCCCCceeee-CC
Q 042235 40 LRTRSQLALLVSSPVSDTTFYTF-GH 64 (225)
Q Consensus 40 ~LC~~~valIvfs~~~~gk~~~f-~s 64 (225)
++-|..+||++|.+.+.||.|+. |+
T Consensus 75 ~~~G~~~~i~~yG~tgSGKT~tl~G~ 100 (335)
T smart00129 75 VLEGYNATIFAYGQTGSGKTYTMSGT 100 (335)
T ss_pred HhcCCceeEEEeCCCCCCCceEecCC
Confidence 57888999999999988999984 54
No 55
>PRK11637 AmiB activator; Provisional
Probab=25.02 E-value=4.5e+02 Score=24.25 Aligned_cols=18 Identities=22% Similarity=0.305 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 042235 137 IGELGVIVDKLAKAKEKA 154 (225)
Q Consensus 137 l~EL~~l~~~Le~~l~~i 154 (225)
+.+|......|...++.+
T Consensus 235 l~~l~~~~~~L~~~I~~l 252 (428)
T PRK11637 235 LSELRANESRLRDSIARA 252 (428)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555544443
No 56
>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=24.45 E-value=67 Score=28.56 Aligned_cols=26 Identities=12% Similarity=0.130 Sum_probs=22.4
Q ss_pred hcccCcceeeeeccCCCCCceeee-CC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTF-GH 64 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f-~s 64 (225)
+++.|..+||++|.+.|.||.|+. |+
T Consensus 79 ~~~~G~n~~i~ayGqtGSGKTyTm~G~ 105 (322)
T cd01367 79 HVFEGGVATCFAYGQTGSGKTYTMLGD 105 (322)
T ss_pred HHhCCCceEEEeccCCCCCCceEecCc
Confidence 377899999999999988999994 54
No 57
>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=23.83 E-value=78 Score=28.08 Aligned_cols=27 Identities=11% Similarity=0.129 Sum_probs=22.6
Q ss_pred hcccCcceeeeeccCCCCCceeee-CCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTF-GHS 65 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f-~sp 65 (225)
+++-|..+||++|.+.|.||.|+. |.+
T Consensus 75 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 102 (319)
T cd01376 75 HLLSGQNATVFAYGSTGAGKTHTMLGDP 102 (319)
T ss_pred HHhCCCceEEEEECCCCCCCcEEEeCCc
Confidence 467799999999999988999995 543
No 58
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=23.42 E-value=1.7e+02 Score=24.11 Aligned_cols=11 Identities=18% Similarity=0.413 Sum_probs=6.4
Q ss_pred hhhHHHHHhhc
Q 042235 67 VDAVLDAFVNN 77 (225)
Q Consensus 67 v~~Vl~Ry~~~ 77 (225)
+..++.-|+..
T Consensus 110 mr~~ln~FR~q 120 (179)
T PF14723_consen 110 MRRSLNSFREQ 120 (179)
T ss_pred HHHHHHHHHHH
Confidence 55566666554
No 59
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=23.40 E-value=61 Score=32.12 Aligned_cols=45 Identities=13% Similarity=0.286 Sum_probs=38.4
Q ss_pred cchhhhhhhhhcccCcceeeeeccCCCCCceeeeCCCchhhHHHHHhh
Q 042235 29 HGLLNKAAEYCLRTRSQLALLVSSPVSDTTFYTFGHSSVDAVLDAFVN 76 (225)
Q Consensus 29 ~gl~KKa~ELs~LC~~~valIvfs~~~~gk~~~f~spsv~~Vl~Ry~~ 76 (225)
.+++++|.||.+---+++.++=||.. .|+..+.|.|...|.-|-+
T Consensus 446 ~e~i~t~~elTvgDtsp~~L~EySEe---~P~~Lsn~GMas~l~nYYR 490 (968)
T COG5179 446 QEIIKTAGELTVGDTSPFSLFEYSEE---EPFFLSNPGMASLLNNYYR 490 (968)
T ss_pred hhhhccccceeccCCCceeeeeeccc---CceeecCchHHHHHHHHHH
Confidence 67999999999988899999999986 6888899988887766643
No 60
>KOG0432 consensus Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=23.35 E-value=2.1e+02 Score=29.61 Aligned_cols=24 Identities=13% Similarity=0.062 Sum_probs=16.4
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHH
Q 042235 89 RLGISMFNEVKDLELYDKKISKAI 112 (225)
Q Consensus 89 ~~~~~l~kEl~~Le~qle~l~k~~ 112 (225)
.+...+.+.+.+|++|++++..++
T Consensus 930 ~e~~kl~kkl~klqk~~~~l~~r~ 953 (995)
T KOG0432|consen 930 SEIQKLAKKLEKLQKQLDKLQARI 953 (995)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334556777888888888875444
No 61
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.22 E-value=5.2e+02 Score=22.75 Aligned_cols=61 Identities=21% Similarity=0.256 Sum_probs=32.0
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHhcCccccCchhhhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042235 87 LVRLGISMFNEVKDLELYDKKISKAIKSDGNLEREGFWEDYEKLGNSDESIGELGVIVDKLAKAKEKAILRLTDL 161 (225)
Q Consensus 87 l~~~~~~l~kEl~~Le~qle~l~k~~r~~k~l~~~~~~~~i~~Lq~~~lsl~EL~~l~~~Le~~l~~i~~R~~~l 161 (225)
+.......+++|+.|..+++.+...+...+ ..++ .+=.++..+...++..-+.|++|..-|
T Consensus 43 ~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~--------~~i~------~~~~eik~l~~eI~~~~~~I~~r~~~l 103 (265)
T COG3883 43 LQKEKKNIQNEIESLDNQIEEIQSKIDELQ--------KEID------QSKAEIKKLQKEIAELKENIVERQELL 103 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445566777777776666544433221 2222 222455556666666666666655544
No 62
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=22.66 E-value=16 Score=25.82 Aligned_cols=36 Identities=22% Similarity=0.291 Sum_probs=26.8
Q ss_pred cccc-hhccccchhhh---------hhhhhcccCcceeeeeccCCC
Q 042235 20 RAVS-FSKRRHGLLNK---------AAEYCLRTRSQLALLVSSPVS 55 (225)
Q Consensus 20 R~~t-f~kRr~gl~KK---------a~ELs~LC~~~valIvfs~~~ 55 (225)
+.+| ||+-|++|-.| +.|+.+-||.|+-++..-|.|
T Consensus 17 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G 62 (75)
T PF01502_consen 17 GRATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVG 62 (75)
T ss_dssp SB-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS
T ss_pred CcEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCC
Confidence 3445 68888777666 688999999999988888874
No 63
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=22.58 E-value=2.2e+02 Score=19.11 Aligned_cols=19 Identities=11% Similarity=0.204 Sum_probs=8.4
Q ss_pred HHHhHHHHHHHHHHHHHHH
Q 042235 90 LGISMFNEVKDLELYDKKI 108 (225)
Q Consensus 90 ~~~~l~kEl~~Le~qle~l 108 (225)
+.+.+.++++.++++.+.+
T Consensus 25 ei~~l~~~i~~l~~e~~~L 43 (80)
T PF04977_consen 25 EIAELQKEIEELKKENEEL 43 (80)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444
No 64
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=22.56 E-value=3.1e+02 Score=24.84 Aligned_cols=77 Identities=10% Similarity=0.089 Sum_probs=47.5
Q ss_pred hhhhhhhhhcccC-----cceeeeeccCCCCCceeeeCCCc----hhhHHHHHhhcCccchhhHHHHHHHHhHHHHHHHH
Q 042235 31 LLNKAAEYCLRTR-----SQLALLVSSPVSDTTFYTFGHSS----VDAVLDAFVNNRAPEAADKELVRLGISMFNEVKDL 101 (225)
Q Consensus 31 l~KKa~ELs~LC~-----~~valIvfs~~~~gk~~~f~sps----v~~Vl~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~L 101 (225)
||.+.+|+-+-.. +-|||+.|-.+. .|.- +++ --.-|.||..... ..+.++.++..+++++.
T Consensus 100 lie~~~e~LT~nn~p~gqCvICLygfa~~~---~ft~-T~C~Hy~H~~ClaRyl~~~~-----~~lrqe~q~~~~~~qh~ 170 (368)
T KOG4445|consen 100 LIEHCSEFLTENNHPNGQCVICLYGFASSP---AFTV-TACDHYMHFACLARYLTECL-----TGLRQEIQDAQKERQHM 170 (368)
T ss_pred HHHHHHHHcccCCCCCCceEEEEEeecCCC---ceee-ehhHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHh
Confidence 5666666554433 337888886642 2221 121 2234677876642 56778888889999999
Q ss_pred HHHHHHHHHHHHhcC
Q 042235 102 ELYDKKISKAIKSDG 116 (225)
Q Consensus 102 e~qle~l~k~~r~~k 116 (225)
..+.+..-...|.+.
T Consensus 171 ~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 171 KEQVEAVCPVCRERI 185 (368)
T ss_pred hhhHhhhhhHhhhhc
Confidence 888887755555553
No 65
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=22.51 E-value=3.2e+02 Score=21.25 Aligned_cols=31 Identities=3% Similarity=0.020 Sum_probs=20.7
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHhcC
Q 042235 86 ELVRLGISMFNEVKDLELYDKKISKAIKSDG 116 (225)
Q Consensus 86 ~l~~~~~~l~kEl~~Le~qle~l~k~~r~~k 116 (225)
.+...+...+..+..+++.+......+..++
T Consensus 76 ~i~~~i~~sq~~i~~lK~~L~~ak~~L~~~~ 106 (142)
T PF04048_consen 76 QILSSISESQERIRELKESLQEAKSLLGCRR 106 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3444556678888888888877766555544
No 66
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=22.21 E-value=55 Score=30.27 Aligned_cols=39 Identities=5% Similarity=0.223 Sum_probs=27.8
Q ss_pred hhhhcccCcc--eeeeeccCCCCCceeeeCCC-----chhhHHHHHhhcC
Q 042235 36 AEYCLRTRSQ--LALLVSSPVSDTTFYTFGHS-----SVDAVLDAFVNNR 78 (225)
Q Consensus 36 ~ELs~LC~~~--valIvfs~~~~gk~~~f~sp-----sv~~Vl~Ry~~~~ 78 (225)
+-|||+||-+ .|||--...| |-|..| ++.+++..|...+
T Consensus 367 yalSV~~~~~V~HClIy~tatG----~GFa~pyn~y~tlk~lV~hY~h~S 412 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATG----FGFAEPYNLYSTLKELVLHYQHTS 412 (464)
T ss_pred eEEEEEECCceeeeEEeecccc----ccccchhHHHHHHHHHHHHHhhhh
Confidence 6799999955 5777655543 777776 4777888887765
No 67
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=21.48 E-value=5.2e+02 Score=22.12 Aligned_cols=16 Identities=13% Similarity=-0.056 Sum_probs=7.2
Q ss_pred HhHHHHHHHHHHHHHH
Q 042235 92 ISMFNEVKDLELYDKK 107 (225)
Q Consensus 92 ~~l~kEl~~Le~qle~ 107 (225)
+.--.+||+|+++++.
T Consensus 84 EkrD~~IQqLqk~LK~ 99 (272)
T KOG4552|consen 84 EKRDEVIQQLQKNLKS 99 (272)
T ss_pred HHhHHHHHHHHHHHHH
Confidence 3334444555544443
No 68
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=21.13 E-value=36 Score=18.54 Aligned_cols=14 Identities=14% Similarity=0.247 Sum_probs=9.7
Q ss_pred eeeeeccCCCCCceee
Q 042235 46 LALLVSSPVSDTTFYT 61 (225)
Q Consensus 46 valIvfs~~~~gk~~~ 61 (225)
..+.+|||. |++|.
T Consensus 3 ~~~t~FSp~--Grl~Q 16 (23)
T PF10584_consen 3 RSITTFSPD--GRLFQ 16 (23)
T ss_dssp SSTTSBBTT--SSBHH
T ss_pred CCceeECCC--CeEEe
Confidence 346789998 47664
No 69
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=20.93 E-value=4.1e+02 Score=21.75 Aligned_cols=35 Identities=9% Similarity=0.105 Sum_probs=22.8
Q ss_pred cceeeeeccCCCCCceeeeCCC----------chhhHHHHHhhcC
Q 042235 44 SQLALLVSSPVSDTTFYTFGHS----------SVDAVLDAFVNNR 78 (225)
Q Consensus 44 ~~valIvfs~~~~gk~~~f~sp----------sv~~Vl~Ry~~~~ 78 (225)
+++++|+..++.+||=|..-.+ +...++.||.+..
T Consensus 96 veaGLI~rrDS~NgkRy~~R~~~G~I~~A~GfdLsPL~~R~~El~ 140 (177)
T PF03428_consen 96 VEAGLIVRRDSPNGKRYARRDRGGRIVEAFGFDLSPLIARAEELA 140 (177)
T ss_pred HHCCCeeeccCCCCCccCccCCCCCEEeEeCcCHHHHHHHHHHHH
Confidence 5788999876655776664221 3567777776653
No 70
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.89 E-value=5.3e+02 Score=21.99 Aligned_cols=54 Identities=11% Similarity=0.073 Sum_probs=33.4
Q ss_pred ceeeeCCCc-hhhHH----HHHhhcCccchhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 042235 58 TFYTFGHSS-VDAVL----DAFVNNRAPEAADKELVRLGISMFNEVKDLELYDKKISKAIK 113 (225)
Q Consensus 58 k~~~f~sps-v~~Vl----~Ry~~~~~~e~~~~~l~~~~~~l~kEl~~Le~qle~l~k~~r 113 (225)
.|+.|-+|. +..++ +.+.+.. |+. .....+..+...++|+.|.++++..+....
T Consensus 111 dPH~Wldp~~~~~~a~~I~~~L~~~d-P~~-~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~ 169 (266)
T cd01018 111 DPHIWLSPANAKIMAENIYEALAELD-PQN-ATYYQANLDALLAELDALDSEIRTILSKLK 169 (266)
T ss_pred CCccCcCHHHHHHHHHHHHHHHHHhC-ccc-HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 689998883 33333 3333332 221 244556667788899999888877765543
No 71
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=20.82 E-value=2.7e+02 Score=18.60 Aligned_cols=22 Identities=18% Similarity=0.080 Sum_probs=15.3
Q ss_pred HHHHhHHHHHHHHHHHHHHHHH
Q 042235 89 RLGISMFNEVKDLELYDKKISK 110 (225)
Q Consensus 89 ~~~~~l~kEl~~Le~qle~l~k 110 (225)
.+...+.+++.+++.+++.+.+
T Consensus 4 ~E~~rL~Kel~kl~~~i~~~~~ 25 (66)
T PF10458_consen 4 AEIERLEKELEKLEKEIERLEK 25 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677888888887776643
No 72
>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=20.50 E-value=1.1e+02 Score=27.33 Aligned_cols=26 Identities=19% Similarity=0.207 Sum_probs=22.3
Q ss_pred hcccCcceeeeeccCCCCCceeeeCC
Q 042235 39 CLRTRSQLALLVSSPVSDTTFYTFGH 64 (225)
Q Consensus 39 s~LC~~~valIvfs~~~~gk~~~f~s 64 (225)
+++-|..+||++|++.|.||.|+...
T Consensus 68 ~~~~G~n~~i~ayG~tgSGKT~Tm~G 93 (341)
T cd01372 68 GLFEGYNATVLAYGQTGSGKTYTMGT 93 (341)
T ss_pred HHhCCCccceeeecCCCCCCcEEecC
Confidence 36889999999999998899999643
No 73
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=20.39 E-value=4.2e+02 Score=23.77 Aligned_cols=65 Identities=11% Similarity=0.109 Sum_probs=33.9
Q ss_pred ccCcceeeeeccCCCCCceeeeCC-------------CchhhHHHHHhhcCccchhh--HHHHHHHHhHHHHHHHHHHHH
Q 042235 41 RTRSQLALLVSSPVSDTTFYTFGH-------------SSVDAVLDAFVNNRAPEAAD--KELVRLGISMFNEVKDLELYD 105 (225)
Q Consensus 41 LC~~~valIvfs~~~~gk~~~f~s-------------psv~~Vl~Ry~~~~~~e~~~--~~l~~~~~~l~kEl~~Le~ql 105 (225)
|-|=.++||+...+ -.|.|.. .+++.|.+++..++.++-.. .++..-+....+.|+.++.++
T Consensus 21 LvGGp~Gl~ml~Ag---A~Y~~yQ~~EQAr~~A~~fA~~ld~~~~kl~~Ms~~ql~~~~~k~~~si~~q~~~i~~l~~~i 97 (301)
T PF06120_consen 21 LVGGPPGLVMLGAG---AWYYFYQNAEQARQEAIEFADSLDELKEKLKEMSSTQLRANIAKAEESIAAQKRAIEDLQKKI 97 (301)
T ss_pred hhcchHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445566655432 3566541 25888999999998654221 233333333444444444444
Q ss_pred HHH
Q 042235 106 KKI 108 (225)
Q Consensus 106 e~l 108 (225)
+.+
T Consensus 98 ~~l 100 (301)
T PF06120_consen 98 DSL 100 (301)
T ss_pred HHH
Confidence 443
No 74
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=20.11 E-value=1.8e+02 Score=22.35 Aligned_cols=26 Identities=15% Similarity=0.271 Sum_probs=21.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHhcC
Q 042235 91 GISMFNEVKDLELYDKKISKAIKSDG 116 (225)
Q Consensus 91 ~~~l~kEl~~Le~qle~l~k~~r~~k 116 (225)
.+.|.+||++|+-+++.|.+.+++.-
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl~~~~ 30 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKLRQSV 30 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 36789999999999999988888763
Done!