Query psy11715
Match_columns 118
No_of_seqs 29 out of 31
Neff 2.2
Searched_HMMs 46136
Date Fri Aug 16 17:06:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11715.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11715hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3038|consensus 99.2 2E-11 4.4E-16 100.3 3.5 57 60-117 68-128 (264)
2 KOG3362|consensus 33.0 19 0.00041 28.5 0.7 26 34-59 116-143 (156)
3 PF05179 CDC73: RNA pol II acc 27.0 24 0.00053 28.8 0.4 12 35-46 215-226 (273)
4 COG0647 NagD Predicted sugar p 26.6 48 0.001 27.2 2.0 27 74-100 167-193 (269)
5 PRK09993 C-lysozyme inhibitor; 26.4 36 0.00077 26.7 1.2 26 76-103 39-64 (153)
6 PHA00687 hypothetical protein 25.6 37 0.0008 22.8 1.0 12 79-90 14-25 (56)
7 cd08806 CARD_CARD14_CARMA2 Cas 20.0 54 0.0012 23.6 1.0 33 55-87 27-62 (86)
8 PF08199 E2: Bacteriophage E2- 19.5 35 0.00076 21.4 -0.1 13 36-48 21-33 (37)
9 cd02929 TMADH_HD_FMN Trimethyl 18.0 40 0.00086 28.0 -0.1 14 45-58 338-351 (370)
10 PF06217 GAGA_bind: GAGA bindi 17.7 76 0.0016 27.2 1.5 29 60-90 247-275 (301)
No 1
>KOG3038|consensus
Probab=99.16 E-value=2e-11 Score=100.28 Aligned_cols=57 Identities=42% Similarity=0.730 Sum_probs=52.9
Q ss_pred ccchhhhhhcc----ccchhhhhHHHHHHHhhccccceeccCCCCCCCCcccccCCCCCCcc
Q psy11715 60 NNLFTLARITG----CKEVMRKSAYMKMLKSSAHTLPLWVGKPGQKPAALVGAIPADPSHIA 117 (118)
Q Consensus 60 eErRiaAkiAG----prktMRRGVLMkmLQqsA~TLPLWIGKpgekPPpLCGAIPA~~~YvA 117 (118)
.|+.|.+.++| +.++|||+++|.++++++.+||+|+|+++ .||++|||||++++|++
T Consensus 68 ~e~l~~~~~~~~~~~~~~~~~r~~~~el~k~~~~~lp~~~~~~~-~~p~~~gaip~~~~~~~ 128 (264)
T KOG3038|consen 68 SEILITQLDLGRPEGPTGQMRRGVLMELLKQKAMTLPLWIGKPG-KPPPLCGAIPAQGDYVL 128 (264)
T ss_pred HHHHHHHHHhcccCCccchhhhhhhhhHHhhhccccccccCCCC-CCCcccccccccCCccc
Confidence 56778888888 77899999999999999999999999999 99999999999999975
No 2
>KOG3362|consensus
Probab=33.03 E-value=19 Score=28.53 Aligned_cols=26 Identities=31% Similarity=0.717 Sum_probs=21.3
Q ss_pred hhhhhhhccccchhhhhhhcC--CCccc
Q psy11715 34 KAELFHNFCGYHSITKCLLCN--QCPFF 59 (118)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~--~~sl~ 59 (118)
-..-|-+.|||-|+.-|..|+ .||+.
T Consensus 116 P~r~fCaVCG~~S~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 116 PLRKFCAVCGYDSKYSCVNCGTKYCSVR 143 (156)
T ss_pred CcchhhhhcCCCchhHHHhcCCceeech
Confidence 345578899999999999997 58775
No 3
>PF05179 CDC73: RNA pol II accessory factor, Cdc73 family; InterPro: IPR007852 Paf1 is an RNA polymerase II-associated protein in yeast, which defines a complex that is distinct from the Srb/Mediator holoenzyme. The Paf1 complex, which also contains Cdc73, Ctr9, Hpr1, Ccr4, Rtf1 and Leo1, is required for full expression of a subset of yeast genes, particularly those responsive to signals from the Pkc1/MAP kinase cascade. The complex appears to play an essential role in RNA elongation []. ; PDB: 3V46_A.
Probab=26.98 E-value=24 Score=28.80 Aligned_cols=12 Identities=33% Similarity=0.625 Sum_probs=10.7
Q ss_pred hhhhhhccccch
Q psy11715 35 AELFHNFCGYHS 46 (118)
Q Consensus 35 ~~~~~~~~~~~~ 46 (118)
+|||++.||||-
T Consensus 215 ~~LF~~v~gf~~ 226 (273)
T PF05179_consen 215 VELFQKVKGFYV 226 (273)
T ss_dssp HHHHHHSEEEEE
T ss_pred HHHhhcCcEEEE
Confidence 589999999985
No 4
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=26.60 E-value=48 Score=27.16 Aligned_cols=27 Identities=22% Similarity=0.311 Sum_probs=23.6
Q ss_pred hhhhhHHHHHHHhhccccceeccCCCC
Q psy11715 74 VMRKSAYMKMLKSSAHTLPLWVGKPGQ 100 (118)
Q Consensus 74 tMRRGVLMkmLQqsA~TLPLWIGKpge 100 (118)
..--|.++.++.+....-|.|+|||..
T Consensus 167 ~pgaGai~~~~~~~tg~~~~~~GKP~~ 193 (269)
T COG0647 167 RPGAGAIAALLEQATGREPTVIGKPSP 193 (269)
T ss_pred ccCcHHHHHHHHHhhCCcccccCCCCH
Confidence 355799999999999999999999964
No 5
>PRK09993 C-lysozyme inhibitor; Provisional
Probab=26.38 E-value=36 Score=26.73 Aligned_cols=26 Identities=35% Similarity=0.643 Sum_probs=21.4
Q ss_pred hhhHHHHHHHhhccccceeccCCCCCCC
Q psy11715 76 RKSAYMKMLKSSAHTLPLWVGKPGQKPA 103 (118)
Q Consensus 76 RRGVLMkmLQqsA~TLPLWIGKpgekPP 103 (118)
=|-++.+|++.+ +||.||-+.|..+|
T Consensus 39 yk~aw~~mvkg~--~LP~WV~~gGtssP 64 (153)
T PRK09993 39 TKAAFNQMVQGH--KLPAWVMKGGTYSP 64 (153)
T ss_pred HHHHHHHHHcCC--CCcHHHHcCCCCCc
Confidence 456788999888 69999998777776
No 6
>PHA00687 hypothetical protein
Probab=25.62 E-value=37 Score=22.83 Aligned_cols=12 Identities=33% Similarity=0.570 Sum_probs=9.9
Q ss_pred HHHHHHHhhccc
Q psy11715 79 AYMKMLKSSAHT 90 (118)
Q Consensus 79 VLMkmLQqsA~T 90 (118)
..|.+|||.|+|
T Consensus 14 eamrllqqaaqt 25 (56)
T PHA00687 14 EAMRLLQQAAQT 25 (56)
T ss_pred HHHHHHHHHhcC
Confidence 457899999987
No 7
>cd08806 CARD_CARD14_CARMA2 Caspase activation and recruitment domain of CARD14-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD14, also known as BIMP2 or CARMA2 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 2). CARD14 has been identified as a novel member of the MAGUK (membrane-associated guanylate kinase) family that functions as upstream activators of BCL10 (B-cell lymphoma 10) and NF-kB signaling. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways
Probab=19.97 E-value=54 Score=23.64 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=24.0
Q ss_pred CCccc---ccchhhhhhccccchhhhhHHHHHHHhh
Q psy11715 55 QCPFF---NNLFTLARITGCKEVMRKSAYMKMLKSS 87 (118)
Q Consensus 55 ~~sl~---eErRiaAkiAGprktMRRGVLMkmLQqs 87 (118)
||-++ .|..|.+......++||-|.|+.+|+-.
T Consensus 27 Q~~IL~~~deeeIls~~t~~~r~~k~g~LLDIL~tr 62 (86)
T cd08806 27 QAKVLDQLDEEEVLHSPRLTNRAMRVGHLLDLLKTR 62 (86)
T ss_pred HcCCCChhhHHHHHccchHHHHHHHHHHHHHHHHhc
Confidence 55555 4555666656677899999999999854
No 8
>PF08199 E2: Bacteriophage E2-like protein; InterPro: IPR013184 This is a family of short conserved proteins of 37 amino acids, described in Lactococcus phage c2 and in related phage. The function of these proteins is unknown.
Probab=19.46 E-value=35 Score=21.42 Aligned_cols=13 Identities=46% Similarity=0.935 Sum_probs=10.2
Q ss_pred hhhhhccccchhh
Q psy11715 36 ELFHNFCGYHSIT 48 (118)
Q Consensus 36 ~~~~~~~~~~~~~ 48 (118)
+-|.|||-|..|.
T Consensus 21 dnfsnfc~ynfi~ 33 (37)
T PF08199_consen 21 DNFSNFCHYNFIG 33 (37)
T ss_pred hccccceeeeeee
Confidence 4588999998764
No 9
>cd02929 TMADH_HD_FMN Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a symetrical dimer with each subunit containing one 4Fe-4S cluster and one FMN cofactor. It contains a unique flavin, in the form of a 6-S-cysteinyl FMN which is bent by ~25 degrees along the N5-N10 axis of the flavin isoalloxazine ring. This modification of the conformation of the flavin is thought to facilitate catalysis.The closely related histamine dehydrogenase catalyzes oxidative deamination of histamine.
Probab=18.02 E-value=40 Score=27.96 Aligned_cols=14 Identities=36% Similarity=0.840 Sum_probs=11.3
Q ss_pred chhhhhhhcCCCcc
Q psy11715 45 HSITKCLLCNQCPF 58 (118)
Q Consensus 45 ~~~~~~~~~~~~sl 58 (118)
..|..|..||+|-.
T Consensus 338 ~~i~~Ci~Cn~C~~ 351 (370)
T cd02929 338 DDIRECIGCNICIS 351 (370)
T ss_pred cccccCCchhhhhc
Confidence 35888999999943
No 10
>PF06217 GAGA_bind: GAGA binding protein-like family; InterPro: IPR010409 This family includes gbp a protein from Soybean that binds to GAGA element dinucleotide repeat DNA []. It seems likely that the region which defines this family mediates DNA binding. This putative domain contains several conserved cysteines and a histidine suggesting this may be a zinc-binding DNA interaction domain.
Probab=17.66 E-value=76 Score=27.15 Aligned_cols=29 Identities=34% Similarity=0.307 Sum_probs=23.3
Q ss_pred ccchhhhhhccccchhhhhHHHHHHHhhccc
Q psy11715 60 NNLFTLARITGCKEVMRKSAYMKMLKSSAHT 90 (118)
Q Consensus 60 eErRiaAkiAGprktMRRGVLMkmLQqsA~T 90 (118)
.-.|--|||+|-| |..||+.+||.--|..
T Consensus 247 ~~nkRgaRi~GRK--MS~gAF~KlL~rLAaE 275 (301)
T PF06217_consen 247 SPNKRGARIGGRK--MSGGAFKKLLERLAAE 275 (301)
T ss_pred CCCCCcccccccc--ccHHHHHHHHHHHHhc
Confidence 4455568899988 9999999999877653
Done!