Query psy13770
Match_columns 168
No_of_seqs 2 out of 4
Neff 1.4
Searched_HMMs 46136
Date Fri Aug 16 20:04:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15140 DUF4573: Domain of un 31.9 90 0.002 24.4 4.3 32 129-160 98-129 (174)
2 KOG2916|consensus 5.8 5.4E+02 0.012 23.3 2.7 38 9-46 199-236 (304)
3 PF08122 NDUF_B12: NADH-ubiqui 3.7 4.5E+02 0.0097 17.6 0.5 13 10-22 1-13 (57)
4 smart00246 WH2 Wiskott Aldrich 3.5 3E+02 0.0065 16.7 -0.4 11 2-12 7-17 (26)
5 PRK01773 hscB co-chaperone Hsc 3.1 5E+02 0.011 20.5 0.3 15 8-22 60-74 (173)
6 KOG4727|consensus 3.0 6.1E+02 0.013 21.7 0.9 24 3-27 35-58 (193)
7 KOG1830|consensus 3.0 4E+02 0.0086 25.6 -0.3 22 1-22 460-483 (518)
8 cd01816 Raf_RBD Ubiquitin doma 2.6 6.5E+02 0.014 18.4 0.5 24 4-27 16-39 (74)
9 KOG3192|consensus 2.6 5.7E+02 0.012 21.4 0.2 11 9-19 67-77 (168)
10 KOG4612|consensus 2.5 1E+03 0.022 18.7 1.5 28 137-164 25-52 (105)
No 1
>PF15140 DUF4573: Domain of unknown function (DUF4573)
Probab=31.89 E-value=90 Score=24.40 Aligned_cols=32 Identities=34% Similarity=0.445 Sum_probs=11.9
Q ss_pred eeecCCceeeeecCCccccccCCCccccccCC
Q psy13770 129 VLTYPPLKGVLTYPPLKGVLTSPPLKGVLTSP 160 (168)
Q Consensus 129 VL~~P~~K~VL~ypplkgvltspplkgvltsp 160 (168)
+-...++..+-.-.|+.++-..-|...+-+-+
T Consensus 98 v~~i~Pl~~v~~~~P~~~v~~~~p~~~v~~v~ 129 (174)
T PF15140_consen 98 VSNIDPLQAVSEIQPLEAVSKVEPSQPVETVP 129 (174)
T ss_pred ccccCCCcccccccccccccccCccccccccC
Confidence 33333333333333333333333333333333
No 2
>KOG2916|consensus
Probab=5.76 E-value=5.4e+02 Score=23.27 Aligned_cols=38 Identities=29% Similarity=0.375 Sum_probs=31.0
Q ss_pred cccchhhhhhhhhcccCceEEEEecCceeeEeeCCccc
Q psy13770 9 QLKDSLRRTELKRDLTSPLKVVLTSPPLKVVLTSPPLK 46 (168)
Q Consensus 9 ~LK~~L~r~E~K~~L~~PLKVVL~sP~~KVVL~sP~~K 46 (168)
..|+.|..+|.--.=..|+|+-|-+||+-|+.|.-+-|
T Consensus 199 aIK~alk~a~~~~te~~piki~LIApPlYVlTT~tldK 236 (304)
T KOG2916|consen 199 AIKAALKAALNLSTEECPIKIKLIAPPLYVLTTQTLDK 236 (304)
T ss_pred HHHHHHHHHHhCCcccCceEEEEecCceEEEEEeeccc
Confidence 35788888887777788999999999999998876544
No 3
>PF08122 NDUF_B12: NADH-ubiquinone oxidoreductase B12 subunit family; InterPro: IPR012576 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family consists of the B12 subunit of NADH:ubiquinone oxidoreductase proteins. The function of this subunit is unclear [].; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=3.66 E-value=4.5e+02 Score=17.57 Aligned_cols=13 Identities=46% Similarity=0.437 Sum_probs=9.3
Q ss_pred ccchhhhhhhhhc
Q psy13770 10 LKDSLRRTELKRD 22 (168)
Q Consensus 10 LK~~L~r~E~K~~ 22 (168)
||||-+|.|+=|-
T Consensus 1 lkDPW~RneaWRy 13 (57)
T PF08122_consen 1 LKDPWARNEAWRY 13 (57)
T ss_pred CCChHhhhHHHhC
Confidence 5778888777654
No 4
>smart00246 WH2 Wiskott Aldrich syndrome homology region 2. Wiskott Aldrich syndrome homology region 2 / actin-binding motif
Probab=3.51 E-value=3e+02 Score=16.70 Aligned_cols=11 Identities=36% Similarity=0.676 Sum_probs=7.3
Q ss_pred ccccccccccc
Q psy13770 2 RALRSGAQLKD 12 (168)
Q Consensus 2 ralRs~~~LK~ 12 (168)
.++|+|.+||-
T Consensus 7 a~Ir~G~~LKk 17 (26)
T smart00246 7 AQIRQGKKLKK 17 (26)
T ss_pred HHHHcccccCc
Confidence 45677777764
No 5
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=3.07 E-value=5e+02 Score=20.51 Aligned_cols=15 Identities=33% Similarity=0.306 Sum_probs=11.0
Q ss_pred ccccchhhhhhhhhc
Q psy13770 8 AQLKDSLRRTELKRD 22 (168)
Q Consensus 8 ~~LK~~L~r~E~K~~ 22 (168)
..||+|++||+-=-.
T Consensus 60 ~tLkdPl~RA~YLL~ 74 (173)
T PRK01773 60 QILKDPILRAEAIIA 74 (173)
T ss_pred HHHCChHHHHHHHHH
Confidence 468999999875433
No 6
>KOG4727|consensus
Probab=3.05 E-value=6.1e+02 Score=21.65 Aligned_cols=24 Identities=29% Similarity=0.371 Sum_probs=19.3
Q ss_pred cccccccccchhhhhhhhhcccCce
Q psy13770 3 ALRSGAQLKDSLRRTELKRDLTSPL 27 (168)
Q Consensus 3 alRs~~~LK~~L~r~E~K~~L~~PL 27 (168)
+.-+.+| .+.|.+-+.|+||.+-|
T Consensus 35 k~~~~vq-re~L~~rdykvdl~sKL 58 (193)
T KOG4727|consen 35 KDGPPVQ-REHLKHRDYKVDLESKL 58 (193)
T ss_pred hcCCchh-HHHHhhhhhhhHhHhhc
Confidence 3445666 78899999999999988
No 7
>KOG1830|consensus
Probab=3.03 E-value=4e+02 Score=25.64 Aligned_cols=22 Identities=45% Similarity=0.690 Sum_probs=14.9
Q ss_pred Cccccccccccch--hhhhhhhhc
Q psy13770 1 MRALRSGAQLKDS--LRRTELKRD 22 (168)
Q Consensus 1 mralRs~~~LK~~--L~r~E~K~~ 22 (168)
|.|+|+|.|||.- -+..|+|+.
T Consensus 460 L~aIr~GiqLrKVeeqreqeakr~ 483 (518)
T KOG1830|consen 460 LAAIRSGIQLRKVEEQREQEAKRE 483 (518)
T ss_pred HHHHHhcchhHHHHHHHHHHHhhc
Confidence 4689999999864 334455654
No 8
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=2.64 E-value=6.5e+02 Score=18.40 Aligned_cols=24 Identities=29% Similarity=0.454 Sum_probs=19.9
Q ss_pred ccccccccchhhhhhhhhcccCce
Q psy13770 4 LRSGAQLKDSLRRTELKRDLTSPL 27 (168)
Q Consensus 4 lRs~~~LK~~L~r~E~K~~L~~PL 27 (168)
.|+|..++|.|.|+=-+|-|+--.
T Consensus 16 vrpG~tl~daL~KaLk~R~l~pe~ 39 (74)
T cd01816 16 VRPGMTLRDALAKALKVRGLQPEC 39 (74)
T ss_pred ecCCcCHHHHHHHHHHHcCCChhH
Confidence 589999999999998888887444
No 9
>KOG3192|consensus
Probab=2.60 E-value=5.7e+02 Score=21.37 Aligned_cols=11 Identities=45% Similarity=0.649 Sum_probs=8.8
Q ss_pred cccchhhhhhh
Q psy13770 9 QLKDSLRRTEL 19 (168)
Q Consensus 9 ~LK~~L~r~E~ 19 (168)
.|||+|+||+-
T Consensus 67 TLk~pL~RA~Y 77 (168)
T KOG3192|consen 67 TLKDPLARARY 77 (168)
T ss_pred HHHhHHHHHHH
Confidence 48899999873
No 10
>KOG4612|consensus
Probab=2.52 E-value=1e+03 Score=18.66 Aligned_cols=28 Identities=39% Similarity=0.567 Sum_probs=0.0
Q ss_pred eeeecCCccccccCCCccccccCCCCCC
Q psy13770 137 GVLTYPPLKGVLTSPPLKGVLTSPPLKG 164 (168)
Q Consensus 137 ~VL~ypplkgvltspplkgvltspplkg 164 (168)
+|+.+++-...+.|+|+++-+-+|-.-|
T Consensus 25 ~~~R~~qtr~~ln~~~l~~~lpTp~~fg 52 (105)
T KOG4612|consen 25 SVLRWPQTRMLLNSSPLKTPLPTPLGFG 52 (105)
T ss_pred cccccCCCcCccCCccccCCCCCccchh
Done!