Query 033800
Match_columns 111
No_of_seqs 142 out of 357
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 06:26:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033800.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033800hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06203 CCT: CCT motif; Inte 99.9 9.4E-23 2E-27 127.2 3.4 45 58-102 1-45 (45)
2 KOG1601 GATA-4/5/6 transcripti 96.9 0.00029 6.3E-09 51.1 0.5 41 55-95 290-330 (340)
3 PF09425 CCT_2: Divergent CCT 95.9 0.0054 1.2E-07 34.9 1.7 25 56-81 2-26 (27)
4 smart00521 CBF CCAAT-Binding t 52.7 22 0.00048 23.7 3.3 25 75-99 36-61 (62)
5 PF02045 CBFB_NFYA: CCAAT-bind 41.6 43 0.00094 22.0 3.3 22 76-97 36-58 (58)
6 KOG4571 Activating transcripti 31.4 78 0.0017 26.8 4.1 19 54-72 231-249 (294)
7 PF15321 ATAD4: ATPase family 26.6 14 0.0003 25.9 -1.0 11 63-73 69-79 (84)
8 PF09692 Arb1: Argonaute siRNA 22.0 50 0.0011 28.6 1.3 15 56-70 46-61 (396)
9 KOG1561 CCAAT-binding factor, 19.5 1E+02 0.0022 25.9 2.7 49 56-104 190-246 (307)
10 PF02009 Rifin_STEVOR: Rifin/s 19.4 60 0.0013 27.1 1.2 12 62-73 278-289 (299)
No 1
>PF06203 CCT: CCT motif; InterPro: IPR010402 The CCT (CONSTANS, CO-like, and TOC1) domain is a highly conserved basic module of ~43 amino acids, which is found near the C terminus of plant proteins often involved in light signal transduction. The CCT domain is found in association with other domains, such as the B-box zinc finger, the GATA-type zinc finger, the ZIM motif or the response regulatory domain. The CCT domain contains a putative nuclear localisation signal within the second half of the CCT motif and has been shown to be involved in nuclear localization and probably also has a role in protein-protein interaction [].; GO: 0005515 protein binding
Probab=99.86 E-value=9.4e-23 Score=127.19 Aligned_cols=45 Identities=53% Similarity=0.846 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHhhhccCCcccccchhhhhhhccCCCcceecCCC
Q 033800 58 RENAMMRYKEKKKARRQDKQIQYPSRKARADARKRVQGRFLKTEG 102 (111)
Q Consensus 58 R~~~v~RYreKkk~R~f~KkIrY~~RK~~Ad~RpRvKGRFvk~~~ 102 (111)
|+++|+||+|||++|+|+|+|+|++||++||.|||||||||+.++
T Consensus 1 R~~~l~Ry~~Kr~~R~f~kkirY~~Rk~~A~~R~RvkGRFvk~~e 45 (45)
T PF06203_consen 1 REEKLQRYREKRKRRNFEKKIRYESRKAVADKRPRVKGRFVKKSE 45 (45)
T ss_pred CHHHHHHHHHHHHhhcccccCCcchHHHHHhhCCccCCcccCCCC
Confidence 689999999999999999999999999999999999999999853
No 2
>KOG1601 consensus GATA-4/5/6 transcription factors [Transcription]
Probab=96.90 E-value=0.00029 Score=51.05 Aligned_cols=41 Identities=39% Similarity=0.653 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHhhhccCCcccccchhhhhhhccCCCc
Q 033800 55 LEARENAMMRYKEKKKARRQDKQIQYPSRKARADARKRVQG 95 (111)
Q Consensus 55 ~~~R~~~v~RYreKkk~R~f~KkIrY~~RK~~Ad~RpRvKG 95 (111)
...|+..+.||++++..+.|.++|+|..|+..|+.+++++|
T Consensus 290 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (340)
T KOG1601|consen 290 SHQRVAEVRRYRESRDGRYFDKGIRYASRKSNAESRPRLKG 330 (340)
T ss_pred cchHHHHHhhccCccCCcccccccccccccccchhcccccc
Confidence 68999999999999999999999999999999999999999
No 3
>PF09425 CCT_2: Divergent CCT motif; InterPro: IPR018467 The short CCT (CO, COL, TOC1) motif is found in a number of plant proteins, including Constans (CO), Constans-like (COL) and TOC1. The CCT motif is about 45 amino acids long and contains a putative nuclear localisation signal within the second half of the CCT motif []. The CCT motif is found in the Arabidopsis circadian rhythm protein TOC1, an autoregulatory response regulator homologue the controls the photoperiodic flowering through its clock function []. ; GO: 0005515 protein binding; PDB: 3OGK_V 3OGL_S 3OGM_W.
Probab=95.89 E-value=0.0054 Score=34.87 Aligned_cols=25 Identities=32% Similarity=0.500 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHhhhccCCccccc
Q 033800 56 EARENAMMRYKEKKKARRQDKQIQYP 81 (111)
Q Consensus 56 ~~R~~~v~RYreKkk~R~f~KkIrY~ 81 (111)
.+|.+.|+||.||||.|... +.-|.
T Consensus 2 ~aRK~SLqRFLeKRK~R~~~-~~PY~ 26 (27)
T PF09425_consen 2 IARKASLQRFLEKRKDRLAA-KSPYQ 26 (27)
T ss_dssp ----HHHHHHHHHH------------
T ss_pred chHHHHHHHHHHHHHHhhcc-CCCCC
Confidence 57999999999999999977 55553
No 4
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=52.68 E-value=22 Score=23.70 Aligned_cols=25 Identities=40% Similarity=0.445 Sum_probs=21.9
Q ss_pred CCcccccchhhhhhhccC-CCcceec
Q 033800 75 DKQIQYPSRKARADARKR-VQGRFLK 99 (111)
Q Consensus 75 ~KkIrY~~RK~~Ad~RpR-vKGRFvk 99 (111)
.|..-+++|-..|-.|+| --|||.+
T Consensus 36 rkpYlhESRH~HAm~R~Rg~gGRFl~ 61 (62)
T smart00521 36 RKPYLHESRHLHAMRRPRGSGGRFLN 61 (62)
T ss_pred cCCcccchhHHHHHccCcCCCCCCCC
Confidence 567889999999999999 6789975
No 5
>PF02045 CBFB_NFYA: CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B; InterPro: IPR001289 The CCAAT-binding factor (CBFB/NF-YA) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin []. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding []. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The B subunit contains a region of similarity with the yeast protein HAP2 []. For the B subunit it has been suggested that the N-terminal portion of the conserved region is involved in subunit interaction and the C-terminal region involved in DNA-binding [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=41.61 E-value=43 Score=22.03 Aligned_cols=22 Identities=41% Similarity=0.437 Sum_probs=18.3
Q ss_pred CcccccchhhhhhhccC-CCcce
Q 033800 76 KQIQYPSRKARADARKR-VQGRF 97 (111)
Q Consensus 76 KkIrY~~RK~~Ad~RpR-vKGRF 97 (111)
|+.-+++|-..|-.|+| --|||
T Consensus 36 k~YlheSRH~HA~~R~Rg~gGRF 58 (58)
T PF02045_consen 36 KPYLHESRHKHAMRRPRGPGGRF 58 (58)
T ss_pred HHHHHHHHHHHHHcCccCCCCCC
Confidence 44578999999999999 66777
No 6
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=31.45 E-value=78 Score=26.75 Aligned_cols=19 Identities=32% Similarity=0.545 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHHHHHHhhh
Q 033800 54 HLEARENAMMRYKEKKKAR 72 (111)
Q Consensus 54 ~~~~R~~~v~RYreKkk~R 72 (111)
..+.|..|-.|||+||+.-
T Consensus 231 kr~qnk~AAtRYRqKkRae 249 (294)
T KOG4571|consen 231 KRQQNKAAATRYRQKKRAE 249 (294)
T ss_pred HHHHhHHHHHHHHHHHHHH
Confidence 3456666779999999764
No 7
>PF15321 ATAD4: ATPase family AAA domain containing 4
Probab=26.64 E-value=14 Score=25.87 Aligned_cols=11 Identities=55% Similarity=0.800 Sum_probs=8.7
Q ss_pred HHHHHHHhhhc
Q 033800 63 MRYKEKKKARR 73 (111)
Q Consensus 63 ~RYreKkk~R~ 73 (111)
=||+||||-|-
T Consensus 69 GRFKEKrKvRa 79 (84)
T PF15321_consen 69 GRFKEKRKVRA 79 (84)
T ss_pred ccccccccccc
Confidence 48999998764
No 8
>PF09692 Arb1: Argonaute siRNA chaperone (ARC) complex subunit Arb1; InterPro: IPR018606 Arb1 is required for histone H3 Lys9 (H3-K9) methylation, heterochromatin, assembly and siRNA generation in fission yeast [].
Probab=21.95 E-value=50 Score=28.60 Aligned_cols=15 Identities=27% Similarity=0.724 Sum_probs=11.6
Q ss_pred HHH-HHHHHHHHHHHh
Q 033800 56 EAR-ENAMMRYKEKKK 70 (111)
Q Consensus 56 ~~R-~~~v~RYreKkk 70 (111)
.+| +.+|+||+.||+
T Consensus 46 ~~RiE~~IQRyr~rRR 61 (396)
T PF09692_consen 46 VERIEECIQRYRARRR 61 (396)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 344 678999999885
No 9
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=19.49 E-value=1e+02 Score=25.95 Aligned_cols=49 Identities=27% Similarity=0.375 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHhhhc-------cCCcccccchhhhhhhccC-CCcceecCCCCC
Q 033800 56 EARENAMMRYKEKKKARR-------QDKQIQYPSRKARADARKR-VQGRFLKTEGYD 104 (111)
Q Consensus 56 ~~R~~~v~RYreKkk~R~-------f~KkIrY~~RK~~Ad~RpR-vKGRFvk~~~~d 104 (111)
+.--.+|+|=|+-|.+-- =-|+---++|-..|-+|+| --|||....+++
T Consensus 190 aKQY~~IlrRRq~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~ 246 (307)
T KOG1561|consen 190 AKQYHRILRRRQARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYH 246 (307)
T ss_pred HHHHHHHHHHHHHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhh
Confidence 344555666555443221 1234456899999999999 999999996544
No 10
>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=19.44 E-value=60 Score=27.08 Aligned_cols=12 Identities=42% Similarity=0.977 Sum_probs=9.2
Q ss_pred HHHHHHHHhhhc
Q 033800 62 MMRYKEKKKARR 73 (111)
Q Consensus 62 v~RYreKkk~R~ 73 (111)
|+|||-|||..+
T Consensus 278 ILRYRRKKKmkK 289 (299)
T PF02009_consen 278 ILRYRRKKKMKK 289 (299)
T ss_pred HHHHHHHhhhhH
Confidence 489999887643
Done!