Query psy6754
Match_columns 79
No_of_seqs 52 out of 54
Neff 3.8
Searched_HMMs 46136
Date Fri Aug 16 17:35:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6754.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6754hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2548|consensus 100.0 7E-37 1.5E-41 251.1 5.9 76 1-79 1-76 (653)
2 PF09750 DRY_EERY: Alternative 99.8 2.9E-22 6.3E-27 137.0 2.2 41 39-79 1-41 (122)
3 KOG1847|consensus 99.0 5.5E-11 1.2E-15 101.1 1.4 43 37-79 30-72 (878)
4 PF08216 CTNNBL: Catenin-beta- 60.2 16 0.00035 25.0 3.6 33 9-41 25-57 (108)
5 PF06886 TPX2: Targeting prote 56.3 11 0.00025 22.8 2.2 15 20-34 4-18 (57)
6 cd01234 PH_CADPS CADPS (Ca2+-d 42.4 9.8 0.00021 26.7 0.3 19 30-48 39-57 (117)
7 KOG2570|consensus 34.2 92 0.002 26.1 4.8 38 4-42 330-367 (420)
8 PF02216 B: B domain; InterPr 33.0 17 0.00037 22.4 0.3 27 23-49 24-50 (54)
9 PF04991 LicD: LicD family; I 32.0 16 0.00036 24.8 0.2 17 63-79 21-37 (205)
10 PF14402 7TM_transglut: 7 tran 31.2 24 0.00052 28.3 1.0 43 33-75 27-69 (313)
11 PF07225 NDUF_B4: NADH-ubiquin 30.3 1.7E+02 0.0036 20.4 5.0 32 19-59 33-64 (125)
12 cd02683 MIT_1 MIT: domain cont 28.0 1.4E+02 0.0031 18.5 4.0 26 10-35 50-75 (77)
13 cd03441 R_hydratase_like (R)-h 28.0 48 0.001 20.3 1.8 29 39-67 17-45 (127)
14 PF15084 DUF4550: Domain of un 27.0 22 0.00047 24.2 0.1 26 41-73 23-48 (99)
15 COG3805 DodA Aromatic ring-cle 25.5 44 0.00094 23.5 1.4 23 39-61 4-26 (120)
16 PF07845 DUF1636: Protein of u 25.4 32 0.0007 23.4 0.7 20 57-76 87-106 (116)
17 PF09043 Lys-AminoMut_A: D-Lys 24.7 92 0.002 26.6 3.3 62 8-76 116-177 (509)
18 PF11538 Snurportin1: Snurport 24.4 77 0.0017 18.2 2.1 16 22-37 16-31 (40)
19 cd03449 R_hydratase (R)-hydrat 22.4 71 0.0015 19.7 1.8 29 39-67 20-48 (128)
20 PF04212 MIT: MIT (microtubule 22.4 1.7E+02 0.0038 17.0 4.1 20 10-29 49-68 (69)
21 COG5469 Predicted metal-bindin 21.6 41 0.00089 24.4 0.6 19 58-76 108-126 (143)
22 PF12286 DUF3622: Protein of u 21.4 1.1E+02 0.0024 19.8 2.5 20 9-28 51-70 (71)
No 1
>KOG2548|consensus
Probab=100.00 E-value=7e-37 Score=251.15 Aligned_cols=76 Identities=66% Similarity=1.070 Sum_probs=74.9
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcchhhhheeccceeeeChHHHhhhcCCCceeccCCCCCCcccC
Q psy6754 1 MWHEARKQEKKIRGLMVDYKRRAERRRDYYEKIRADPTQFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDIMIDR 79 (79)
Q Consensus 1 MwhEARkqEk~ir~~m~d~rkRaErr~~~~e~~k~DP~q~Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~dilIDR 79 (79)
||||||+|||+||+|||||+||||||+.||||+++||+|||||||++|+||+|++||+|+|+ ++|| |||.+|||||
T Consensus 1 MWHEARrqEkkvr~~mvd~rKRAERRr~yyekirkDP~QflQ~hGrr~kvhlD~gva~AaEd-~~lm--QGd~~n~idr 76 (653)
T KOG2548|consen 1 MWHEARRQEKKVRDMMVDYRKRAERRRIYYEKIRKDPIQFLQAHGRRYKVHLDDGVAQAAED-NILM--QGDSTNQIDR 76 (653)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHhchhheeeccHHHHHhccc-hhhh--cccccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999 8888 9999999997
No 2
>PF09750 DRY_EERY: Alternative splicing regulator ; InterPro: IPR019147 This entry represents the conserved N-terminal region of SWAP (suppressor-of-white-apricot protein) splice factor proteins. This region contains two highly conserved motifs, viz: DRY and EERY, which appear to be the sites for alternative splicing of exons 2 and 3 of the SWAP mRNA []. These proteins are thus thought to be involved in auto-regulation of pre-mRNA splicing. Most family members are associated with two Surp domains (IPR000061 from INTERPRO) and an arginine/serine-rich binding region towards the C terminus.
Probab=99.85 E-value=2.9e-22 Score=136.96 Aligned_cols=41 Identities=46% Similarity=0.880 Sum_probs=40.5
Q ss_pred hhhhheeccceeeeChHHHhhhcCCCceeccCCCCCCcccC
Q psy6754 39 QFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDIMIDR 79 (79)
Q Consensus 39 q~Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~dilIDR 79 (79)
|||+|||++||||+|+++|.|++++++|||||||++|||||
T Consensus 1 q~L~V~G~~cklf~D~~~a~~~~~~~~LiPW~Gd~~~lIDR 41 (122)
T PF09750_consen 1 QFLQVFGYACKLFRDDEVAQAIESGKHLIPWQGDPDLLIDR 41 (122)
T ss_pred CceEEEeEeeeeecCHHHHHHHhCcCCcccCCCCcccceeH
Confidence 79999999999999999999999999999999999999998
No 3
>KOG1847|consensus
Probab=99.04 E-value=5.5e-11 Score=101.07 Aligned_cols=43 Identities=30% Similarity=0.534 Sum_probs=41.2
Q ss_pred cchhhhheeccceeeeChHHHhhhcCCCceeccCCCCCCcccC
Q psy6754 37 PTQFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDIMIDR 79 (79)
Q Consensus 37 P~q~Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~dilIDR 79 (79)
.+--|.||||+|+||.|+..|.+.+++.+||||+||++|+|||
T Consensus 30 ~~~dLlVfGya~~~F~dD~~a~~v~~~~hlVpw~GDp~~~IDR 72 (878)
T KOG1847|consen 30 HTMDLLVFGYAALFFDDDSMATFVNSPTHLVPWNGDPSLFIDR 72 (878)
T ss_pred ceeeEEEeeeehhccCchHHHHhhcCCceecccCCChhhhccc
Confidence 5667999999999999999999999999999999999999998
No 4
>PF08216 CTNNBL: Catenin-beta-like, Arm-motif containing nuclear; InterPro: IPR013180 This domain is found in eukaryotic proteins. A human nuclear protein with this domain (Q8WYA6 from SWISSPROT) is thought to have a role in apoptosis [].
Probab=60.18 E-value=16 Score=25.00 Aligned_cols=33 Identities=21% Similarity=0.534 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCcchhh
Q psy6754 9 EKKIRGLMVDYKRRAERRRDYYEKIRADPTQFI 41 (79)
Q Consensus 9 Ek~ir~~m~d~rkRaErr~~~~e~~k~DP~q~L 41 (79)
++.||++...-.|+..+=++-=.|...||+.||
T Consensus 25 ~~~lkklvl~fek~i~kN~e~R~K~~ddP~KFm 57 (108)
T PF08216_consen 25 EAWLKKLVLSFEKRINKNQEMRIKYPDDPEKFM 57 (108)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHhCCCCHHHHH
Confidence 578999999999988887777788899999998
No 5
>PF06886 TPX2: Targeting protein for Xklp2 (TPX2); InterPro: IPR009675 This family represents a conserved region approximately 60 residues long within the eukaryotic targeting protein for Xklp2 (TPX2). Xklp2 is a kinesin-like protein localised on centrosomes throughout the cell cycle and on spindle pole microtubules during metaphase. In Xenopus, it has been shown that Xklp2 protein is required for centrosome separation and maintenance of spindle bi-polarity []. TPX2 is a microtubule-associated protein that mediates the binding of the C-terminal domain of Xklp2 to microtubules. It is phosphorylated during mitosis in a microtubule-dependent way [].
Probab=56.31 E-value=11 Score=22.77 Aligned_cols=15 Identities=33% Similarity=0.711 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHh
Q psy6754 20 KRRAERRRDYYEKIR 34 (79)
Q Consensus 20 rkRaErr~~~~e~~k 34 (79)
-.||+.|+.||.+..
T Consensus 4 ~~RA~~R~eF~~kl~ 18 (57)
T PF06886_consen 4 DERAEERKEFDKKLE 18 (57)
T ss_pred HHHHHHHHHHHHHHH
Confidence 469999999998864
No 6
>cd01234 PH_CADPS CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS is a calcium-dependent activator involved in secretion. It contains a central PH domain that binds to phosphoinositide 4,5 bisphosphate containing liposomes. However, membrane association may also be mediated by binding to phosphatidlyserine via general electrostatic interactions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=42.36 E-value=9.8 Score=26.72 Aligned_cols=19 Identities=42% Similarity=0.854 Sum_probs=15.6
Q ss_pred HHHHhCCcchhhhheeccc
Q psy6754 30 YEKIRADPTQFIQIHGRPC 48 (79)
Q Consensus 30 ~e~~k~DP~q~Lqv~G~~c 48 (79)
|...|.||+.+||+.|+--
T Consensus 39 y~ekks~P~e~~qldGyTv 57 (117)
T cd01234 39 YREKKAEPTEFIQLDGYTV 57 (117)
T ss_pred hhhhcCCchhheeecceEE
Confidence 4556889999999999853
No 7
>KOG2570|consensus
Probab=34.16 E-value=92 Score=26.05 Aligned_cols=38 Identities=29% Similarity=0.595 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcchhhh
Q psy6754 4 EARKQEKKIRGLMVDYKRRAERRRDYYEKIRADPTQFIQ 42 (79)
Q Consensus 4 EARkqEk~ir~~m~d~rkRaErr~~~~e~~k~DP~q~Lq 42 (79)
|-....++|.+++.. =.+-++|++||-+.+.||..||.
T Consensus 330 eI~alD~kI~~li~~-ine~~~rr~Ff~~Fs~dPvefin 367 (420)
T KOG2570|consen 330 EIAALDRKITELIQQ-INESKERRDFFLEFSKDPVEFIN 367 (420)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhCHHHHHH
Confidence 445667888887544 45677888999999999999984
No 8
>PF02216 B: B domain; InterPro: IPR003132 This entry represents the immunoglobulin-binding domain found in the Staphylococcus aureus virulence factor protein A (SpA). Protein A contains five highly homologous Ig-binding domains in tandem (designated domains E, D, A, B and C), which share a common structure consisting of three helices in a closed left-handed twist. Protein A can exist in both secreted and membrane-bound forms, and has two distinct Ig-binding activities: each domain can bind Fc-gamma (the constant region of IgG involved in effector functions) and Fab (the Ig fragment responsible for antigen recognition) [].; GO: 0019865 immunoglobulin binding, 0009405 pathogenesis; PDB: 1EDL_A 1EDI_A 1EDJ_A 1EDK_A 2B88_A 2B87_A 2B89_A 1FC2_C 1DEE_H 1ZXG_A ....
Probab=32.99 E-value=17 Score=22.45 Aligned_cols=27 Identities=22% Similarity=0.496 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHhCCcchhhhheeccce
Q psy6754 23 AERRRDYYEKIRADPTQFIQIHGRPCK 49 (79)
Q Consensus 23 aErr~~~~e~~k~DP~q~Lqv~G~~ck 49 (79)
.|+|-.|...+|.||.++-.|++.+-|
T Consensus 24 eeQrn~yI~~lKddPs~sq~v~~ea~k 50 (54)
T PF02216_consen 24 EEQRNGYIQSLKDDPSRSQNVFSEAKK 50 (54)
T ss_dssp HHHHHHHHHHHHH-GCCHHHHHHHHHH
T ss_pred HHHHHhHHHHHhhChHHHHHHHHHHHH
Confidence 578999999999999999888776543
No 9
>PF04991 LicD: LicD family; InterPro: IPR007074 The LicD family of proteins show high sequence similarity and are involved in phosphorylcholine metabolism. There is evidence to show that LicD2 mutants have a reduced ability to take up choline, have decreased ability to adhere to host cells and are less virulent []. Fukutin, which is a member of the LicD family, is a human protein which may be involved in the modification of glycan moieties of alpha-dystroglycan; defects in Fukutin are associated with congential muscular dystrophy [].
Probab=31.98 E-value=16 Score=24.83 Aligned_cols=17 Identities=29% Similarity=0.626 Sum_probs=14.2
Q ss_pred CCceeccCCCCCCcccC
Q psy6754 63 PSTMMSWQGDRDIMIDR 79 (79)
Q Consensus 63 ~~~liPWqGd~dilIDR 79 (79)
-++.|||--|-||.+-|
T Consensus 21 h~gfIPWDDDiDi~m~r 37 (205)
T PF04991_consen 21 HGGFIPWDDDIDIGMPR 37 (205)
T ss_pred cCCCCCCCCcccEEeeH
Confidence 47899999999998754
No 10
>PF14402 7TM_transglut: 7 transmembrane helices usually fused to an inactive transglutaminase
Probab=31.22 E-value=24 Score=28.31 Aligned_cols=43 Identities=12% Similarity=0.319 Sum_probs=33.7
Q ss_pred HhCCcchhhhheeccceeeeChHHHhhhcCCCceeccCCCCCC
Q psy6754 33 IRADPTQFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDI 75 (79)
Q Consensus 33 ~k~DP~q~Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~di 75 (79)
+++.|+++++|+--.-=+..||.-+...-..+.|+=|.|+.+.
T Consensus 27 r~q~l~~~lev~~~~~W~~f~p~tg~~g~p~n~L~W~~g~~~l 69 (313)
T PF14402_consen 27 RRQSLEPWLEVFNGGKWVLFNPRTGEQGLPENFLLWWRGDESL 69 (313)
T ss_pred cccCcHhHHheeeCCeEEEECCCCCCcCCCCCEEEEEECCccc
Confidence 6789999999999999999999887766655666656666554
No 11
>PF07225 NDUF_B4: NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4); InterPro: IPR009866 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 contains human NADH-ubiquinone oxidoreductase subunit NDUFB4 and related sequences.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=30.28 E-value=1.7e+02 Score=20.41 Aligned_cols=32 Identities=25% Similarity=0.325 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHhCCcchhhhheeccceeeeChHHHhh
Q psy6754 19 YKRRAERRRDYYEKIRADPTQFIQIHGRPCKIHLDPSVALA 59 (79)
Q Consensus 19 ~rkRaErr~~~~e~~k~DP~q~Lqv~G~~cki~~D~~~a~a 59 (79)
++.||+=|++ |-+...||. .+-+-.||++..-
T Consensus 33 ~a~Ra~Lk~e-Ylkq~~nP~--------~~gli~DPAL~Rw 64 (125)
T PF07225_consen 33 AAIRARLKRE-YLKQYNNPH--------RKGLIFDPALQRW 64 (125)
T ss_pred HHHHHHHHHH-HHHHcCCCC--------CCCccCChHHHHH
Confidence 3444444444 578899999 6677889998743
No 12
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=27.98 E-value=1.4e+02 Score=18.51 Aligned_cols=26 Identities=23% Similarity=0.411 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy6754 10 KKIRGLMVDYKRRAERRRDYYEKIRA 35 (79)
Q Consensus 10 k~ir~~m~d~rkRaErr~~~~e~~k~ 35 (79)
..|+..+..|..|||.-+.+..+.+.
T Consensus 50 ~~~r~ki~eY~~RAE~Lk~~l~~~~~ 75 (77)
T cd02683 50 KNLRQKISEYMDRAEAIKKRLDQEKE 75 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 45899999999999999999876553
No 13
>cd03441 R_hydratase_like (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel beta-sheet wrapped around a central alpha helix, referred to as a hot dog fold. The active site lies within a substrate-binding tunnel formed by the homodimer. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit.
Probab=27.96 E-value=48 Score=20.31 Aligned_cols=29 Identities=34% Similarity=0.532 Sum_probs=20.2
Q ss_pred hhhhheeccceeeeChHHHhhhcCCCcee
Q psy6754 39 QFIQIHGRPCKIHLDPSVALAADSPSTMM 67 (79)
Q Consensus 39 q~Lqv~G~~cki~~D~~~a~a~e~~~~li 67 (79)
.|-.+.|-.-.||.|++.|.....+...+
T Consensus 17 ~fa~~~gd~npiH~d~~~A~~~~~~~~i~ 45 (127)
T cd03441 17 LFARLSGDPNPIHVDPEYAKAAGFGGRIA 45 (127)
T ss_pred HHHHHhCCCCccccCHHHHHhCCCCCcee
Confidence 45566777888999999887655444443
No 14
>PF15084 DUF4550: Domain of unknown function (DUF4550)
Probab=27.01 E-value=22 Score=24.17 Aligned_cols=26 Identities=19% Similarity=0.501 Sum_probs=19.3
Q ss_pred hhheeccceeeeChHHHhhhcCCCceeccCCCC
Q psy6754 41 IQIHGRPCKIHLDPSVALAADSPSTMMSWQGDR 73 (79)
Q Consensus 41 Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~ 73 (79)
+-|+|..+|||.+.+. .+..||.-+.
T Consensus 23 vV~f~~~AKvF~e~~~-------K~~~~w~~gd 48 (99)
T PF15084_consen 23 VVVFGNVAKVFLENES-------KTVKPWHEGD 48 (99)
T ss_pred EEEecceeeEEEcCCc-------eEeeeEecCC
Confidence 5689999999998733 6777777433
No 15
>COG3805 DodA Aromatic ring-cleaving dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.54 E-value=44 Score=23.52 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=19.2
Q ss_pred hhhhheeccceeeeChHHHhhhc
Q psy6754 39 QFIQIHGRPCKIHLDPSVALAAD 61 (79)
Q Consensus 39 q~Lqv~G~~cki~~D~~~a~a~e 61 (79)
..|-|.|..+.||.|++.+.-+|
T Consensus 4 es~nIt~fHAHvYFD~a~~~~Ae 26 (120)
T COG3805 4 ESLNITMFHAHVYFDPAQAIVAE 26 (120)
T ss_pred cccceeeEEEEEEEChHHHHHHH
Confidence 34789999999999998877665
No 16
>PF07845 DUF1636: Protein of unknown function (DUF1636); InterPro: IPR012863 The sequences featured in this family are derived from a number of hypothetical prokaryotic proteins. The region in question is approximately 130 amino acids long.
Probab=25.43 E-value=32 Score=23.40 Aligned_cols=20 Identities=30% Similarity=0.584 Sum_probs=15.5
Q ss_pred HhhhcCCCceeccCCCCCCc
Q psy6754 57 ALAADSPSTMMSWQGDRDIM 76 (79)
Q Consensus 57 a~a~e~~~~liPWqGd~dil 76 (79)
.++++++.+++||..-|..|
T Consensus 87 ~~Y~~s~dG~vp~~~rP~~l 106 (116)
T PF07845_consen 87 ALYAASPDGLVPWRERPEGL 106 (116)
T ss_pred HHHHhCCCCccccccCCHHH
Confidence 45678899999999877543
No 17
>PF09043 Lys-AminoMut_A: D-Lysine 5,6-aminomutase alpha subunit; InterPro: IPR015130 This domain is found in proteins involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as cofactors. The structure is predominantly a PLP-binding TIM barrel domain, with several additional alpha-helices and beta-strands at the N and C termini. These helices and strands form an intertwined accessory clamp structure that wraps around the sides of the TIM barrel and extends up toward the Ado ligand of the Cbl cofactor, providing most of the interactions observed between the protein and the Ado ligand of the Cbl, suggesting that its role is mainly in stabilising AdoCbl in the precatalytic resting state. ; PDB: 3KP1_A 3KOW_A 3KOZ_A 3KOY_B 3KOX_A 3KP0_C 1XRS_A.
Probab=24.71 E-value=92 Score=26.64 Aligned_cols=62 Identities=23% Similarity=0.196 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCcchhhhheeccceeeeChHHHhhhcCCCceeccCCCCCCc
Q psy6754 8 QEKKIRGLMVDYKRRAERRRDYYEKIRADPTQFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDIM 76 (79)
Q Consensus 8 qEk~ir~~m~d~rkRaErr~~~~e~~k~DP~q~Lqv~G~~cki~~D~~~a~a~e~~~~liPWqGd~dil 76 (79)
-+..++..+.--+++-+.|.+|.+++-.-|..+|-|.=-.-.||-|--.++|+ .|+|-.-|+
T Consensus 116 ~~~~~~~~~~~i~~~r~~Re~~~~~~g~~p~P~iy~iVAtG~iyeDi~qaraA-------A~~GAD~Ia 177 (509)
T PF09043_consen 116 LRPYAKEGIERIDANRKEREEYIERIGPGPKPVIYVIVATGNIYEDIRQARAA-------ARQGADIIA 177 (509)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH--ECSSEEEEEE-SS-HHHHHHHHHHH-------HHTT-SEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEecCchHHHHHHHHHH-------HHcCCCEEE
Confidence 34556677777778888899999999888888888888888899888777766 477655443
No 18
>PF11538 Snurportin1: Snurportin1; InterPro: IPR024721 Snurportin-1 is a nuclear import receptor that contains an N-terminal importin beta binding domain which is essential for its function as an snRNP-specific nuclear import receptor []. Snurportin-1 interacts with m3G-cap where it enhances the m3G-cap dependent nuclear import of U snRNPs in Xenopus laevis oocytes and digitonin-permeabilized HeLa cells []. This entry represents the snurportin-1 N-terminal importin beta binding domain (IBB). The essential role of the IBB domain for snurportin-1 function suggests that snurportin-1 cooperates with importin beta in mediating nuclear import of snRNPs.; GO: 0005515 protein binding; PDB: 3LWW_D 3NC0_E 3NBZ_E 2Q5D_C 3NBY_B 3GB8_B 3GJX_B 2QNA_B 2P8Q_B.
Probab=24.45 E-value=77 Score=18.22 Aligned_cols=16 Identities=31% Similarity=0.696 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhCCc
Q psy6754 22 RAERRRDYYEKIRADP 37 (79)
Q Consensus 22 RaErr~~~~e~~k~DP 37 (79)
-+|||+.++|..+.-=
T Consensus 16 Q~eRR~~~Le~QK~kR 31 (40)
T PF11538_consen 16 QEERRREFLERQKNKR 31 (40)
T ss_dssp HHHHHHHHHHHHHSHH
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4789999998887643
No 19
>cd03449 R_hydratase (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase II, and beta-hydroxydecanoyl-ACP dehydratase, MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit. The active site lies within a substrate-binding tunnel formed by the (R)-hydratase homodimer. A subset of the bacterial (R)-hydratases contain a C-terminal phosphotransacetylase (PTA) domain.
Probab=22.42 E-value=71 Score=19.71 Aligned_cols=29 Identities=24% Similarity=0.279 Sum_probs=19.8
Q ss_pred hhhhheeccceeeeChHHHhhhcCCCcee
Q psy6754 39 QFIQIHGRPCKIHLDPSVALAADSPSTMM 67 (79)
Q Consensus 39 q~Lqv~G~~cki~~D~~~a~a~e~~~~li 67 (79)
.|-.+.|-.--||.|++.|.++.-+....
T Consensus 20 ~fa~~~gd~npiH~D~~~A~~~g~~~~i~ 48 (128)
T cd03449 20 LFAELSGDFNPIHLDEEYAKKTRFGGRIA 48 (128)
T ss_pred HHHHHhCCCCCccCCHHHHhhCCCCCcee
Confidence 45566777778999999887654444433
No 20
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=22.38 E-value=1.7e+02 Score=16.99 Aligned_cols=20 Identities=35% Similarity=0.689 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy6754 10 KKIRGLMVDYKRRAERRRDY 29 (79)
Q Consensus 10 k~ir~~m~d~rkRaErr~~~ 29 (79)
..|+..|..|-.|||-.+.+
T Consensus 49 ~~l~~k~~~yl~RAE~lk~~ 68 (69)
T PF04212_consen 49 QALRQKMKEYLERAEKLKEY 68 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 45999999999999988765
No 21
>COG5469 Predicted metal-binding protein [Function unknown]
Probab=21.64 E-value=41 Score=24.36 Aligned_cols=19 Identities=21% Similarity=0.517 Sum_probs=15.1
Q ss_pred hhhcCCCceeccCCCCCCc
Q psy6754 58 LAADSPSTMMSWQGDRDIM 76 (79)
Q Consensus 58 ~a~e~~~~liPWqGd~dil 76 (79)
.+..+..+|+||-+-|+-|
T Consensus 108 ly~~~~dG~~pw~~rPe~L 126 (143)
T COG5469 108 LYANSADGLVPWRKRPEPL 126 (143)
T ss_pred HhhhcccCccccccCChhH
Confidence 3467889999999988754
No 22
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=21.44 E-value=1.1e+02 Score=19.79 Aligned_cols=20 Identities=25% Similarity=0.581 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy6754 9 EKKIRGLMVDYKRRAERRRD 28 (79)
Q Consensus 9 Ek~ir~~m~d~rkRaErr~~ 28 (79)
|+-|++.+-..-.|++|+++
T Consensus 51 e~eL~~fl~n~~~RN~Rka~ 70 (71)
T PF12286_consen 51 EKELKSFLENQAERNERKAE 70 (71)
T ss_pred HHHHHHHHHHHHHHhHhhhc
Confidence 78899999999999999863
Done!