Query psy1929
Match_columns 95
No_of_seqs 63 out of 65
Neff 3.2
Searched_HMMs 46136
Date Fri Aug 16 19:53:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1929.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1929hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1869|consensus 98.8 6E-09 1.3E-13 87.4 3.8 66 13-78 109-176 (425)
2 smart00581 PSP proline-rich do 66.2 3.4 7.3E-05 26.4 1.1 14 34-47 10-23 (54)
3 PF04046 PSP: PSP; InterPro: 61.5 4.8 0.0001 25.1 1.2 13 34-46 6-18 (48)
4 PF10159 MMtag: Kinase phospho 49.3 20 0.00044 24.4 2.7 21 22-42 58-78 (78)
5 COG3954 PrkB Phosphoribulokina 46.1 21 0.00046 29.2 2.8 21 35-55 26-46 (289)
6 PF12556 CobS_N: Cobaltochelat 45.2 13 0.00027 22.0 1.1 11 37-47 14-24 (36)
7 PRK02134 hypothetical protein; 35.9 54 0.0012 25.5 3.6 29 23-51 98-126 (249)
8 PF01466 Skp1: Skp1 family, di 32.8 27 0.00058 22.3 1.3 17 32-48 46-62 (78)
9 PF10945 DUF2629: Protein of u 30.8 35 0.00077 21.0 1.5 17 33-49 5-22 (44)
10 PF13223 DUF4031: Protein of u 30.1 22 0.00048 24.3 0.5 32 22-54 15-50 (83)
11 PRK14161 heat shock protein Gr 28.9 63 0.0014 24.3 2.8 36 24-59 101-137 (178)
12 smart00530 HTH_XRE Helix-turn- 25.9 75 0.0016 16.0 2.1 17 31-47 39-55 (56)
13 KOG4520|consensus 25.4 83 0.0018 25.4 3.1 34 21-54 64-97 (238)
14 PF12860 PAS_7: PAS fold 24.7 31 0.00067 22.0 0.5 21 34-54 21-42 (115)
15 cd00446 GrpE GrpE is the adeni 24.7 1.4E+02 0.0031 20.6 3.9 39 21-59 62-100 (137)
16 PF04794 YdjC: YdjC-like prote 22.5 55 0.0012 24.7 1.5 35 22-57 100-137 (261)
17 PF07517 SecA_DEAD: SecA DEAD- 21.4 77 0.0017 25.1 2.2 33 22-54 126-158 (266)
18 PHA01976 helix-turn-helix prot 21.1 62 0.0013 19.0 1.3 19 32-50 45-63 (67)
19 PF01381 HTH_3: Helix-turn-hel 20.1 55 0.0012 18.4 0.9 16 32-47 39-54 (55)
No 1
>KOG1869|consensus
Probab=98.76 E-value=6e-09 Score=87.38 Aligned_cols=66 Identities=27% Similarity=0.277 Sum_probs=52.8
Q ss_pred CCCCCCChhhhHHHHHHHHHHHHHHHHHhCCCCccccCCCCChhHHHHHHHHH--HHhhcchhccCCC
Q psy1929 13 RVGSYISVKETHQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQ--AAAKKYALVRTPS 78 (95)
Q Consensus 13 ~~~~r~~~~etH~lA~ak~~en~rlr~AfGIs~dYveGssFd~er~~kea~~~--~~~k~y~lv~~~s 78 (95)
.+..+++.++||++|++.++.++.+|.||||+.+||.|++|+....+-..... .....|.++.+.+
T Consensus 109 ~~~qe~S~teThqlara~eeq~e~~raAlgL~e~qv~gSs~~~~n~~~~~g~~~r~e~r~~hsk~d~d 176 (425)
T KOG1869|consen 109 QEDQEMSSTETHQLARATEEQHEHERAALGLKELQVQGSSEKGKNFESILGPQKRKETRGFHSKNDDD 176 (425)
T ss_pred cccchhhhhhhHHHHHHHHHHHHHHHHHhCcchhhcccccccccchhhhhccccccCCccccchhccc
Confidence 44568999999999999999999999999999999999999988766665442 3344455555444
No 2
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=66.22 E-value=3.4 Score=26.42 Aligned_cols=14 Identities=29% Similarity=0.465 Sum_probs=11.7
Q ss_pred HHHHHHHhCCCCcc
Q psy1929 34 NARLRDAFGISEYF 47 (95)
Q Consensus 34 n~rlr~AfGIs~dY 47 (95)
++.||+||||+.+.
T Consensus 10 S~~LR~ALG~~~~~ 23 (54)
T smart00581 10 SDELREALGLPPGQ 23 (54)
T ss_pred CHHHHHHcCCCCCC
Confidence 46899999999873
No 3
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=61.55 E-value=4.8 Score=25.10 Aligned_cols=13 Identities=38% Similarity=0.726 Sum_probs=11.0
Q ss_pred HHHHHHHhCCCCc
Q psy1929 34 NARLRDAFGISEY 46 (95)
Q Consensus 34 n~rlr~AfGIs~d 46 (95)
++.||+||||+.+
T Consensus 6 S~~LR~ALg~~~~ 18 (48)
T PF04046_consen 6 SDELREALGMQEN 18 (48)
T ss_pred CHHHHHHcCCCCC
Confidence 4689999999875
No 4
>PF10159 MMtag: Kinase phosphorylation protein; InterPro: IPR019315 This entry represents a glycine-rich domain that is the most highly conserved region of a family of proteins that, in vertebrates, are associated with tumours in multiple myelomas. The region may contain phosphorylation sites for several protein kinases, as well as N-myristoylation sites and nuclear localisation signals, so it might act as a signal molecule in the nucleus [].
Probab=49.32 E-value=20 Score=24.39 Aligned_cols=21 Identities=14% Similarity=0.346 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhC
Q psy1929 22 ETHQIAEAQLEKNARLRDAFG 42 (95)
Q Consensus 22 etH~lA~ak~~en~rlr~AfG 42 (95)
.--+|+..|+.|.+.|..|||
T Consensus 58 ~~eE~~~iK~~E~eam~~ALG 78 (78)
T PF10159_consen 58 RKEEIRRIKEAEEEAMAEALG 78 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHcC
Confidence 346899999999999999998
No 5
>COG3954 PrkB Phosphoribulokinase [Energy production and conversion]
Probab=46.10 E-value=21 Score=29.19 Aligned_cols=21 Identities=24% Similarity=0.305 Sum_probs=17.0
Q ss_pred HHHHHHhCCCCccccCCCCCh
Q psy1929 35 ARLRDAFGISEYFVEGSSLDP 55 (95)
Q Consensus 35 ~rlr~AfGIs~dYveGssFd~ 55 (95)
.++-.-+.|+..+|||+||++
T Consensus 26 rKiF~~~~I~aa~iEGDsFHR 46 (289)
T COG3954 26 RKIFAQLNIHAAEVEGDSFHR 46 (289)
T ss_pred HHHHHhcCccHhhhccccccc
Confidence 345666789999999999983
No 6
>PF12556 CobS_N: Cobaltochelatase CobS subunit N terminal
Probab=45.19 E-value=13 Score=22.00 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=9.7
Q ss_pred HHHHhCCCCcc
Q psy1929 37 LRDAFGISEYF 47 (95)
Q Consensus 37 lr~AfGIs~dY 47 (95)
.|+.|||.+|.
T Consensus 14 vre~FGiDsDm 24 (36)
T PF12556_consen 14 VREVFGIDSDM 24 (36)
T ss_pred HHHhcCCCcCC
Confidence 68999999986
No 7
>PRK02134 hypothetical protein; Provisional
Probab=35.87 E-value=54 Score=25.50 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHHHhCCCCccccCC
Q psy1929 23 THQIAEAQLEKNARLRDAFGISEYFVEGS 51 (95)
Q Consensus 23 tH~lA~ak~~en~rlr~AfGIs~dYveGs 51 (95)
..++...=..+.+++.+.+|+..+|++|=
T Consensus 98 ~~ev~~E~~aQi~~f~~~~G~~p~hiD~H 126 (249)
T PRK02134 98 LEEIAQELAAQYERFLSLFGRKPTHLDSH 126 (249)
T ss_pred HHHHHHHHHHHHHHHHHhhCCCCCeeecc
Confidence 45666666778899999999999999994
No 8
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=32.84 E-value=27 Score=22.28 Aligned_cols=17 Identities=24% Similarity=0.481 Sum_probs=10.6
Q ss_pred HHHHHHHHHhCCCCccc
Q psy1929 32 EKNARLRDAFGISEYFV 48 (95)
Q Consensus 32 ~en~rlr~AfGIs~dYv 48 (95)
+--+.+|..|||+.||.
T Consensus 46 ks~eeir~~fgi~~d~t 62 (78)
T PF01466_consen 46 KSPEEIRKYFGIENDLT 62 (78)
T ss_dssp S-HHHHHHHHT---TSS
T ss_pred CCHHHHHHHcCCCCCCC
Confidence 45678999999999864
No 9
>PF10945 DUF2629: Protein of unknown function (DUF2629); InterPro: IPR024487 Some members in this family of proteins are annotated as YhjR however currently no function is known.
Probab=30.81 E-value=35 Score=21.04 Aligned_cols=17 Identities=24% Similarity=0.577 Sum_probs=13.7
Q ss_pred HHHHHHHHhCCCC-cccc
Q psy1929 33 KNARLRDAFGISE-YFVE 49 (95)
Q Consensus 33 en~rlr~AfGIs~-dYve 49 (95)
....|+++||++. +|++
T Consensus 5 Di~~L~~~fslp~~~Y~D 22 (44)
T PF10945_consen 5 DIAALSQAFSLPDINYID 22 (44)
T ss_pred HHHHHHHHhCCCCccHHH
Confidence 4568999999987 7775
No 10
>PF13223 DUF4031: Protein of unknown function (DUF4031)
Probab=30.08 E-value=22 Score=24.26 Aligned_cols=32 Identities=16% Similarity=0.350 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhCCCCccccC----CCCC
Q psy1929 22 ETHQIAEAQLEKNARLRDAFGISEYFVEG----SSLD 54 (95)
Q Consensus 22 etH~lA~ak~~en~rlr~AfGIs~dYveG----ssFd 54 (95)
-.|-+|+- -+|.-.|.+.+||+..+.+| ++||
T Consensus 15 w~HL~aDt-~~ELHafA~riGv~rr~fq~~~~~~HYD 50 (83)
T PF13223_consen 15 WSHLVADT-LDELHAFAARIGVPRRWFQRGASGDHYD 50 (83)
T ss_pred eeeeccCC-HHHHHHHHHHcCCCHHHHcCCCCCCCcc
Confidence 35667777 77888888999999999999 9999
No 11
>PRK14161 heat shock protein GrpE; Provisional
Probab=28.92 E-value=63 Score=24.34 Aligned_cols=36 Identities=14% Similarity=0.027 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCccc-cCCCCChhHHH
Q psy1929 24 HQIAEAQLEKNARLRDAFGISEYFV-EGSSLDPTRRE 59 (95)
Q Consensus 24 H~lA~ak~~en~rlr~AfGIs~dYv-eGssFd~er~~ 59 (95)
.+=-++=.++...+-..|||..-.. .|..|||...+
T Consensus 101 ~~Gv~mi~k~l~~vL~~~Gv~~I~~~~G~~FDP~~HE 137 (178)
T PRK14161 101 IAGVQMTKDELDKVFHKHHIEEIKPEIGSMFDYNLHN 137 (178)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEecCCCCCCCChHHhh
Confidence 3333444566777778999998776 59999999754
No 12
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=25.94 E-value=75 Score=16.01 Aligned_cols=17 Identities=35% Similarity=0.348 Sum_probs=12.8
Q ss_pred HHHHHHHHHHhCCCCcc
Q psy1929 31 LEKNARLRDAFGISEYF 47 (95)
Q Consensus 31 ~~en~rlr~AfGIs~dY 47 (95)
.....++.++|||+.+|
T Consensus 39 ~~~~~~i~~~~~~~~~~ 55 (56)
T smart00530 39 LETLKKLAKALGVSLDE 55 (56)
T ss_pred HHHHHHHHHHhCCChhh
Confidence 45567788899988765
No 13
>KOG4520|consensus
Probab=25.41 E-value=83 Score=25.37 Aligned_cols=34 Identities=24% Similarity=0.281 Sum_probs=25.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHhCCCCccccCCCCC
Q psy1929 21 KETHQIAEAQLEKNARLRDAFGISEYFVEGSSLD 54 (95)
Q Consensus 21 ~etH~lA~ak~~en~rlr~AfGIs~dYveGssFd 54 (95)
.---+|++.++.|..-|+.|||+...-.--+.++
T Consensus 64 ~~keEi~~vkE~E~~al~eALGl~k~stqP~gL~ 97 (238)
T KOG4520|consen 64 KYKEEILEVKEREQRALAEALGLPKSSTQPSGLL 97 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccccCCcchh
Confidence 3446899999999999999999985433333333
No 14
>PF12860 PAS_7: PAS fold
Probab=24.71 E-value=31 Score=21.96 Aligned_cols=21 Identities=33% Similarity=0.708 Sum_probs=18.4
Q ss_pred HHHHHHHhCCCCccc-cCCCCC
Q psy1929 34 NARLRDAFGISEYFV-EGSSLD 54 (95)
Q Consensus 34 n~rlr~AfGIs~dYv-eGssFd 54 (95)
|.++++.||++.+.+ .|-+|.
T Consensus 21 N~~~~~l~~~~~~~~~~G~~~~ 42 (115)
T PF12860_consen 21 NQRFRELFGLPPEMLRPGASFR 42 (115)
T ss_pred cHHHHHHhCCCHHHhcCCCCHH
Confidence 789999999999887 788876
No 15
>cd00446 GrpE GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding. In eukaryotes, only the mitochondrial Hsp70, not the cytosolic form, is GrpE dependent.
Probab=24.66 E-value=1.4e+02 Score=20.61 Aligned_cols=39 Identities=23% Similarity=0.320 Sum_probs=29.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHhCCCCccccCCCCChhHHH
Q psy1929 21 KETHQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRRE 59 (95)
Q Consensus 21 ~etH~lA~ak~~en~rlr~AfGIs~dYveGssFd~er~~ 59 (95)
...+.--.+=......+-..+||..--..|..|||...+
T Consensus 62 ~~~~~g~~~i~~~l~~~L~~~Gv~~i~~~g~~FDp~~He 100 (137)
T cd00446 62 KNLVEGVEMTLKQLLDVLEKHGVEKIEPEGEPFDPNLHE 100 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCHHHhe
Confidence 344444456667778888899999988899999999843
No 16
>PF04794 YdjC: YdjC-like protein; InterPro: IPR006879 This entry contains ChbG (YdjC), which is is an uncharacterised protein encoded by the chb (N,N'-diacetylchitobiose, also called [GlcNAc]2) or cel operon, which encodes enzymes involved in growth on an N,N'-diacetylchitobiose carbon source [, ]. The entry also contains HpnK, which is a protein associated with hopanoid biosynthesis.; PDB: 2E67_C 2I5I_B.
Probab=22.48 E-value=55 Score=24.70 Aligned_cols=35 Identities=14% Similarity=0.317 Sum_probs=26.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhCCCCccccCC---CCChhH
Q psy1929 22 ETHQIAEAQLEKNARLRDAFGISEYFVEGS---SLDPTR 57 (95)
Q Consensus 22 etH~lA~ak~~en~rlr~AfGIs~dYveGs---sFd~er 57 (95)
...++...=..+.+++.+ +|+..+|++|= ++.|..
T Consensus 100 ~~~ev~~E~~AQi~~f~~-~G~~P~hiD~H~h~h~~p~v 137 (261)
T PF04794_consen 100 DYEEVERELRAQIERFLD-MGRKPDHIDGHQHVHFHPPV 137 (261)
T ss_dssp -HHHHHHHHHHHHHHHHC-CSS-ECEEEEGGGGGCSHHH
T ss_pred CHHHHHHHHHHHHHHHHH-cCCCCCeEecccccccChHH
Confidence 457777777888999999 99999998874 445653
No 17
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=21.41 E-value=77 Score=25.13 Aligned_cols=33 Identities=12% Similarity=0.166 Sum_probs=26.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhCCCCccccCCCCC
Q psy1929 22 ETHQIAEAQLEKNARLRDAFGISEYFVEGSSLD 54 (95)
Q Consensus 22 etH~lA~ak~~en~rlr~AfGIs~dYveGssFd 54 (95)
-.--||.+-.+++..|-++|||+..++-++.-.
T Consensus 126 ~NdyLA~RD~~~~~~~y~~LGlsv~~~~~~~~~ 158 (266)
T PF07517_consen 126 SNDYLAKRDAEEMRPFYEFLGLSVGIITSDMSS 158 (266)
T ss_dssp SSHHHHHHHHHHHHHHHHHTT--EEEEETTTEH
T ss_pred ccHHHhhccHHHHHHHHHHhhhccccCccccCH
Confidence 345699999999999999999999998876553
No 18
>PHA01976 helix-turn-helix protein
Probab=21.09 E-value=62 Score=19.05 Aligned_cols=19 Identities=32% Similarity=0.508 Sum_probs=14.1
Q ss_pred HHHHHHHHHhCCCCccccC
Q psy1929 32 EKNARLRDAFGISEYFVEG 50 (95)
Q Consensus 32 ~en~rlr~AfGIs~dYveG 50 (95)
....+|.++|||+.+|.-+
T Consensus 45 ~~l~~ia~~l~v~~~~l~~ 63 (67)
T PHA01976 45 KTLLRLADALGVTLDWLCG 63 (67)
T ss_pred HHHHHHHHHHCcCHHHHhc
Confidence 4566788899999887543
No 19
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=20.06 E-value=55 Score=18.45 Aligned_cols=16 Identities=19% Similarity=0.480 Sum_probs=11.5
Q ss_pred HHHHHHHHHhCCCCcc
Q psy1929 32 EKNARLRDAFGISEYF 47 (95)
Q Consensus 32 ~en~rlr~AfGIs~dY 47 (95)
....+|..+||++.+|
T Consensus 39 ~~~~~ia~~l~~~~~~ 54 (55)
T PF01381_consen 39 DTLKKIAKALGVSPEY 54 (55)
T ss_dssp HHHHHHHHHHTSEHHH
T ss_pred HHHHHHHHHHCCCHHH
Confidence 3456778888888766
Done!