Query psy11816
Match_columns 209
No_of_seqs 139 out of 615
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 19:43:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11816.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11816hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3489|consensus 99.9 2.1E-23 4.6E-28 159.2 9.2 76 60-136 3-83 (86)
2 KOG1733|consensus 99.9 8.5E-22 1.8E-26 152.8 9.4 82 59-140 8-95 (97)
3 PF02953 zf-Tim10_DDP: Tim10/D 99.8 1.1E-19 2.4E-24 128.4 7.9 59 74-132 4-66 (66)
4 KOG3480|consensus 99.6 6.5E-16 1.4E-20 118.9 8.4 68 68-136 10-82 (90)
5 KOG3479|consensus 99.6 1.7E-15 3.6E-20 115.4 7.5 61 77-137 5-69 (83)
6 PF05811 DUF842: Eukaryotic pr 92.9 0.64 1.4E-05 37.6 7.7 58 75-132 65-130 (131)
7 KOG3377|consensus 91.6 1.2 2.5E-05 37.7 7.9 63 73-135 71-141 (143)
8 PF05811 DUF842: Eukaryotic pr 48.3 1E+02 0.0022 24.9 7.1 65 69-133 4-74 (131)
9 PF09889 DUF2116: Uncharacteri 45.9 31 0.00068 25.0 3.4 30 97-126 5-36 (59)
10 PRK09706 transcriptional repre 41.6 29 0.00064 27.2 3.0 32 61-92 96-127 (135)
11 PRK13840 sucrose phosphorylase 41.3 17 0.00036 35.8 1.9 37 34-76 279-321 (495)
12 KOG3377|consensus 35.5 1.7E+02 0.0037 24.9 6.7 47 83-131 34-80 (143)
13 KOG3196|consensus 31.1 76 0.0016 28.8 4.2 63 89-151 131-213 (233)
14 cd01388 SOX-TCF_HMG-box SOX-TC 26.3 21 0.00045 25.2 -0.1 52 33-85 3-64 (72)
15 PF04300 FBA: F-box associated 25.5 26 0.00057 29.9 0.3 41 165-207 139-182 (184)
16 TIGR03852 sucrose_gtfA sucrose 25.4 37 0.00081 33.2 1.4 31 46-77 282-312 (470)
17 KOG3048|consensus 23.2 70 0.0015 27.5 2.4 33 59-91 8-40 (153)
18 KOG0258|consensus 22.4 32 0.0007 33.9 0.3 42 147-198 432-473 (475)
19 PF12422 Condensin2nSMC: Conde 22.1 1.5E+02 0.0032 24.3 4.1 94 42-136 5-103 (152)
20 PLN02301 pectinesterase/pectin 21.4 4.5E+02 0.0098 26.4 7.9 33 101-133 111-143 (548)
21 PF07544 Med9: RNA polymerase 21.1 1E+02 0.0022 23.0 2.7 30 65-94 53-82 (83)
No 1
>KOG3489|consensus
Probab=99.89 E-value=2.1e-23 Score=159.18 Aligned_cols=76 Identities=43% Similarity=0.807 Sum_probs=68.8
Q ss_pred hhcCCCCCChHHHHHH--HHhcHHHHHHHHHHHHHHHHHhcc---CCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy11816 60 DLAIMFADSRPESTFW--IFGKPTYIETHMFEFNDICWDKCQ---SDKVDSKTETCLTNCVNRFIDVSLFITNRYGQLLS 134 (209)
Q Consensus 60 dL~~Ls~dqq~EL~q~--~EqQ~aq~QelvnkLTE~CFdKCV---sssLsskEesCLsNCVdKFmDts~~VsqRfqe~~q 134 (209)
++++| +.+.+|++++ +|+|++++|+++|++|+.||+||| +++||++|++||+|||+||||++.+|.+||+++.+
T Consensus 3 ~~a~l-~~~~~el~~fl~~E~qk~k~~~~VHqft~~CWdKCi~~~~sklds~~e~ClsnCV~RfiDts~~I~~r~~~~~~ 81 (86)
T KOG3489|consen 3 DLAAL-DANDPELQQFLEAETQKQKFQEQVHQFTEICWDKCIEKPGSKLDSSEETCLSNCVNRFIDTSLFIVKRLAQMNQ 81 (86)
T ss_pred chhhc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45666 5667788886 588999999999999999999999 99999999999999999999999999999999887
Q ss_pred cc
Q psy11816 135 KS 136 (209)
Q Consensus 135 qe 136 (209)
..
T Consensus 82 ~~ 83 (86)
T KOG3489|consen 82 GH 83 (86)
T ss_pred cc
Confidence 66
No 2
>KOG1733|consensus
Probab=99.86 E-value=8.5e-22 Score=152.76 Aligned_cols=82 Identities=16% Similarity=0.331 Sum_probs=71.0
Q ss_pred hhhcCCCCCChH-HHHHHH--HhcHHHHHHHHHHHHHHHHHhcc---CCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 59 ADLAIMFADSRP-ESTFWI--FGKPTYIETHMFEFNDICWDKCQ---SDKVDSKTETCLTNCVNRFIDVSLFITNRYGQL 132 (209)
Q Consensus 59 ~dL~~Ls~dqq~-EL~q~~--EqQ~aq~QelvnkLTE~CFdKCV---sssLsskEesCLsNCVdKFmDts~~VsqRfqe~ 132 (209)
...+..+.+..+ +++.++ |.+++++|+|+++|+|+||+||| |++|+++|++||++|++||||+|+.|++.|..+
T Consensus 8 ~~g~~~s~~~~~~~~m~qVkqqlAvAnAqeLv~kisekCf~KCit~PGssl~~~e~~Cis~CmdRyMdawniVSrty~sR 87 (97)
T KOG1733|consen 8 QKGGAGSSKTTEGELMNQVKQQLAVANAQELVSKISEKCFDKCITKPGSSLDSSEKSCISRCMDRYMDAWNIVSRTYISR 87 (97)
T ss_pred cccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555 777774 55788999999999999999999 999999999999999999999999999999999
Q ss_pred HhccccCC
Q psy11816 133 LSKSMEGE 140 (209)
Q Consensus 133 ~qqe~~g~ 140 (209)
+|+++..+
T Consensus 88 lQre~a~~ 95 (97)
T KOG1733|consen 88 LQREQASG 95 (97)
T ss_pred HHHHHHcc
Confidence 99988654
No 3
>PF02953 zf-Tim10_DDP: Tim10/DDP family zinc finger; InterPro: IPR004217 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a putative zinc binding domain with four conserved cysteine residues. Members of this family include subunits 8, 9, 10 and 13 of the mitochondrial inner membrane translocase complex, which are involved in mitochondrial protein import [, ]. Defects in TIM8 are the cause of 2 human syndromes: Mohr-Tranebjaerg syndrome (MTS) [MIM:304700]; also known as dystonia-deafness syndrome (DDS) or X-linked progressive deafness type 1 (DFN-1). It is a recessive neurodegenerative syndrome characterised by postlingual progressive sensorineural deafness as the first presenting symptom in early childhood, followed by progressive dystonia, spasticity, dysphagia, mental deterioration, paranoia and cortical blindness. Jensen syndrome [MIM:311150]; also known as opticoacoustic nerve atrophy with dementia. This X-linked disease is characterised by deafness, blindness and muscle weakness. The small alpha helical proteins Tim8 and Tim13 assemble into a hexameric complex which can bind Tim23 as its substrate and chaperone the hydrophobic Tim23 across the aqueous membrane space []. More information on zinc fingers can be found at Protein of the Month: Zinc Fingers [].; GO: 0006626 protein targeting to mitochondrion, 0045039 protein import into mitochondrial inner membrane, 0042719 mitochondrial intermembrane space protein transporter complex; PDB: 2BSK_B 3CJH_A 3DXR_A.
Probab=99.81 E-value=1.1e-19 Score=128.38 Aligned_cols=59 Identities=29% Similarity=0.678 Sum_probs=53.7
Q ss_pred HHHHhcHHHHHHHHHHHHHHHHHhcc----CCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 74 FWIFGKPTYIETHMFEFNDICWDKCQ----SDKVDSKTETCLTNCVNRFIDVSLFITNRYGQL 132 (209)
Q Consensus 74 q~~EqQ~aq~QelvnkLTE~CFdKCV----sssLsskEesCLsNCVdKFmDts~~VsqRfqe~ 132 (209)
.++|+|+++++++++++++.||+||| +++|+++|++||+||++||+|++++|+++|+++
T Consensus 4 ~~~~~q~~~~~~~~~~~t~~Cf~kCv~~~~~~~L~~~E~~Ci~~C~~ky~~~~~~v~~~~~~~ 66 (66)
T PF02953_consen 4 LMQEQQMKDFQELFNKLTERCFDKCVTKFPSSSLSSKEESCIDNCVDKYIDTNQFVSKRFQQM 66 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHS-TTSSSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 35678999999999999999999999 899999999999999999999999999999874
No 4
>KOG3480|consensus
Probab=99.64 E-value=6.5e-16 Score=118.91 Aligned_cols=68 Identities=12% Similarity=0.337 Sum_probs=61.2
Q ss_pred ChHHHHHHHHhcHHHHHHHHHHHHHHHHHhcc-----CCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy11816 68 SRPESTFWIFGKPTYIETHMFEFNDICWDKCQ-----SDKVDSKTETCLTNCVNRFIDVSLFITNRYGQLLSKS 136 (209)
Q Consensus 68 qq~EL~q~~EqQ~aq~QelvnkLTE~CFdKCV-----sssLsskEesCLsNCVdKFmDts~~VsqRfqe~~qqe 136 (209)
+++.++ .+|.++..+.++||+|+..|++||| +++|+++|..||+|||.||+|++..|+++++++.+..
T Consensus 10 ~~~k~q-~Ae~E~emm~d~fNrl~~tC~~KCI~~~y~EaeLtKGE~~CiDRCVaKy~~~n~~vG~~lq~~~~~~ 82 (90)
T KOG3480|consen 10 DQQKAQ-MAELEVEMMSDMFNRLTNTCHKKCIPPRYKEAELTKGESVCIDRCVAKYLDVNEKVGKKLQAMGQGD 82 (90)
T ss_pred CHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhCCcccccccccCchhhHHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 344444 7799999999999999999999999 8999999999999999999999999999999876543
No 5
>KOG3479|consensus
Probab=99.61 E-value=1.7e-15 Score=115.40 Aligned_cols=61 Identities=18% Similarity=0.501 Sum_probs=57.0
Q ss_pred HhcHHHHHHHHHHHHHHHHHhcc----CCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q psy11816 77 FGKPTYIETHMFEFNDICWDKCQ----SDKVDSKTETCLTNCVNRFIDVSLFITNRYGQLLSKSM 137 (209)
Q Consensus 77 EqQ~aq~QelvnkLTE~CFdKCV----sssLsskEesCLsNCVdKFmDts~~VsqRfqe~~qqe~ 137 (209)
..++.++..+||++||+||..|| .++|+++|++|+.+|++||+..+++|++||++.+....
T Consensus 5 ~k~lkDFl~~YN~ltE~CF~dCV~dft~r~l~~~Ee~C~~~C~~Kflk~nqRv~qrf~e~~~~~~ 69 (83)
T KOG3479|consen 5 IKQLKDFLTLYNKLTELCFSDCVDDFTTRDLSGKEETCVMRCAEKFLKMNQRVSQRFQELQAALN 69 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35888999999999999999999 99999999999999999999999999999999887653
No 6
>PF05811 DUF842: Eukaryotic protein of unknown function (DUF842); InterPro: IPR008560 This family consists of a number of conserved eukaryotic proteins of unknown function. The sequences carry three sets of CxxxC motifs, which might suggest a type of zinc-finger formation.
Probab=92.87 E-value=0.64 Score=37.57 Aligned_cols=58 Identities=17% Similarity=0.349 Sum_probs=43.2
Q ss_pred HHHhcHHHHHHHHHHHHHHHHHhcc-CCCCCchh-------hHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 75 WIFGKPTYIETHMFEFNDICWDKCQ-SDKVDSKT-------ETCLTNCVNRFIDVSLFITNRYGQL 132 (209)
Q Consensus 75 ~~EqQ~aq~QelvnkLTE~CFdKCV-sssLsskE-------esCLsNCVdKFmDts~~VsqRfqe~ 132 (209)
.++.++.+||+-+++=+-.|.+|=- .-..++.| +.|...|+++|+..--.+.+|+.+.
T Consensus 65 ~vq~El~~FQ~rlqrC~~~C~dk~~d~~~~~~~~~~~~~~~e~C~~~Cvd~hi~llP~l~~r~k~~ 130 (131)
T PF05811_consen 65 YVQNELEQFQNRLQRCVMHCQDKAKDKMDPNPNESDAEKQLESCVNKCVDDHIKLLPSLTKRMKKS 130 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Confidence 4678888999888877777777643 11123333 6799999999999999999988753
No 7
>KOG3377|consensus
Probab=91.63 E-value=1.2 Score=37.69 Aligned_cols=63 Identities=17% Similarity=0.332 Sum_probs=49.2
Q ss_pred HHHHHhcHHHHHHHHHHHHHHHHHhccCCC--------CCchhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy11816 73 TFWIFGKPTYIETHMFEFNDICWDKCQSDK--------VDSKTETCLTNCVNRFIDVSLFITNRYGQLLSK 135 (209)
Q Consensus 73 ~q~~EqQ~aq~QelvnkLTE~CFdKCVsss--------LsskEesCLsNCVdKFmDts~~VsqRfqe~~qq 135 (209)
++..+.++.+||+-+++=+-.|-+|=-.+. .-.-.+.|+++|++.++.+---+.+++.+.+..
T Consensus 71 Q~~~~~El~~FQ~RL~Rc~m~C~Dk~~~~~~~~~~~~~~~~~~e~Cvn~cvd~~v~liP~m~k~MK~al~~ 141 (143)
T KOG3377|consen 71 QQYVQSELGKFQDRLNRCLMVCNDKFEASKLQGSKRLKAVQQFESCVNKCVDDHVGLIPTMVKRMKEALSI 141 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHhcccCCchHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhc
Confidence 334678999999999998888888764222 233467899999999999999999998887654
No 8
>PF05811 DUF842: Eukaryotic protein of unknown function (DUF842); InterPro: IPR008560 This family consists of a number of conserved eukaryotic proteins of unknown function. The sequences carry three sets of CxxxC motifs, which might suggest a type of zinc-finger formation.
Probab=48.30 E-value=1e+02 Score=24.90 Aligned_cols=65 Identities=14% Similarity=0.225 Sum_probs=36.2
Q ss_pred hHHHHHHHHhcHHHHHHHH----HHHHHHHHHhccCCCCCc--hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 69 RPESTFWIFGKPTYIETHM----FEFNDICWDKCQSDKVDS--KTETCLTNCVNRFIDVSLFITNRYGQLL 133 (209)
Q Consensus 69 q~EL~q~~EqQ~aq~Qelv----nkLTE~CFdKCVsssLss--kEesCLsNCVdKFmDts~~VsqRfqe~~ 133 (209)
+.+++..++..+..++..+ .+-.-.|=.+|.+.+-.+ .=+.|+.||...-..+...|..-+.+.+
T Consensus 4 ~~rvq~av~~mv~~ld~~~lr~mQ~~~f~C~a~Ccdd~~~s~e~V~~Cve~C~~pl~~aq~~vq~El~~FQ 74 (131)
T PF05811_consen 4 QQRVQKAVEKMVDDLDRKYLRKMQKKMFKCAAKCCDDSSASMEQVQRCVERCQQPLQQAQNYVQNELEQFQ 74 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhcChHHHHHHHHHHHHHHHH
Confidence 3445444444444443322 222335666666222223 3478999999888888888766554433
No 9
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=45.95 E-value=31 Score=24.99 Aligned_cols=30 Identities=10% Similarity=0.367 Sum_probs=26.8
Q ss_pred hcc--CCCCCchhhHHHHHHHHHHHHHHHHHH
Q psy11816 97 KCQ--SDKVDSKTETCLTNCVNRFIDVSLFIT 126 (209)
Q Consensus 97 KCV--sssLsskEesCLsNCVdKFmDts~~Vs 126 (209)
.|+ |..+...|.-|-+.|-+.|..-..+..
T Consensus 5 HC~~CG~~Ip~~~~fCS~~C~~~~~k~qk~~~ 36 (59)
T PF09889_consen 5 HCPVCGKPIPPDESFCSPKCREEYRKRQKRMR 36 (59)
T ss_pred cCCcCCCcCCcchhhhCHHHHHHHHHHHHHHH
Confidence 577 999999999999999999998887766
No 10
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=41.61 E-value=29 Score=27.15 Aligned_cols=32 Identities=3% Similarity=-0.067 Sum_probs=25.7
Q ss_pred hcCCCCCChHHHHHHHHhcHHHHHHHHHHHHH
Q psy11816 61 LAIMFADSRPESTFWIFGKPTYIETHMFEFND 92 (209)
Q Consensus 61 L~~Ls~dqq~EL~q~~EqQ~aq~QelvnkLTE 92 (209)
+..|++++|..+...++..+..+-++++++..
T Consensus 96 ~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~ 127 (135)
T PRK09706 96 FDALPESEQDAQLSEMRARVENFNKLFEELLK 127 (135)
T ss_pred HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888888888888888888887764
No 11
>PRK13840 sucrose phosphorylase; Provisional
Probab=41.27 E-value=17 Score=35.76 Aligned_cols=37 Identities=22% Similarity=0.224 Sum_probs=26.0
Q ss_pred CCCCCccccCCCceeeccccccc---Chh---hhcCCCCCChHHHHHHH
Q psy11816 34 RPESTFWIFGKPTYIDTHADLAI---MFA---DLAIMFADSRPESTFWI 76 (209)
Q Consensus 34 ~p~s~~w~~~~p~y~~~~~~~gl---d~~---dL~~Ls~dqq~EL~q~~ 76 (209)
+|..++ |||++||++|+ ... ..+.|+++++..+....
T Consensus 279 ~p~~~~------n~L~~HDgIgl~d~~~~~~~~~gll~~~e~~~l~~~~ 321 (495)
T PRK13840 279 RPRNAV------TVLDTHDGIGIIDVGADDRGLAGLLPDEQIDNLVETI 321 (495)
T ss_pred CCCccE------EeeecCCCCCcccccccccccccCCCHHHHHHHHHHH
Confidence 366663 99999999999 222 24567777777776654
No 12
>KOG3377|consensus
Probab=35.51 E-value=1.7e+02 Score=24.91 Aligned_cols=47 Identities=19% Similarity=0.524 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhccCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 83 IETHMFEFNDICWDKCQSDKVDSKTETCLTNCVNRFIDVSLFITNRYGQ 131 (209)
Q Consensus 83 ~QelvnkLTE~CFdKCVsssLsskEesCLsNCVdKFmDts~~VsqRfqe 131 (209)
+|..+++=...||++ +..--..-+.|+..|+..-.++.+++..-+.+
T Consensus 34 mQ~~mfrCaa~Ccdd--~r~~~e~v~~ci~~c~~pl~~aQ~~~~~El~~ 80 (143)
T KOG3377|consen 34 MQQAMFRCAAECCDD--SRASEEAVNCCIECCVPPLTKAQQYVQSELGK 80 (143)
T ss_pred HHHHHHHHHHHHHcc--ccccHHHHHHHHHhcchHHHHHHHHHHHHHHH
Confidence 344444444444432 33333344789999999999888888765443
No 13
>KOG3196|consensus
Probab=31.10 E-value=76 Score=28.77 Aligned_cols=63 Identities=14% Similarity=0.216 Sum_probs=43.5
Q ss_pred HHHHHHHHhcc--------CCCCCchhhHHHHHHHH--------HHHHH--HHHHHHHHHHHHhcc--ccCCccceeecc
Q psy11816 89 EFNDICWDKCQ--------SDKVDSKTETCLTNCVN--------RFIDV--SLFITNRYGQLLSKS--MEGERARVTCCA 148 (209)
Q Consensus 89 kLTE~CFdKCV--------sssLsskEesCLsNCVd--------KFmDt--s~~VsqRfqe~~qqe--~~g~~~~v~~~~ 148 (209)
.+.|.|-++|- ....+-.|..|+-+|++ +|.+- ...+.+-+.+..+.. ..|-|++=.+|+
T Consensus 131 ~i~ea~~k~lgi~~Gett~d~~Ftl~e~eClGaCvnaPmi~IND~yyedlt~k~l~eIle~L~~~k~pp~GprngR~a~e 210 (233)
T KOG3196|consen 131 DILEACKKQLGIKVGETTKDGLFTLEEVECLGACVNAPMIAINDDYYEDLTPKKLVEILEDLKAGKKPPAGPRNGRFASE 210 (233)
T ss_pred HHHHHHHHHhCccccccccccceeeecchhhhhhccCceeeecchhhccCCHHHHHHHHHHHhcCCCCCCCCCCCccccC
Confidence 67889999996 45677889999999984 55542 344555555544433 466777778888
Q ss_pred ccc
Q psy11816 149 HVT 151 (209)
Q Consensus 149 ~v~ 151 (209)
|-+
T Consensus 211 P~G 213 (233)
T KOG3196|consen 211 PKG 213 (233)
T ss_pred CCC
Confidence 764
No 14
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=26.32 E-value=21 Score=25.17 Aligned_cols=52 Identities=13% Similarity=0.057 Sum_probs=26.9
Q ss_pred CCCCCCcccc----------CCCceeecccccccChhhhcCCCCCChHHHHHHHHhcHHHHHH
Q psy11816 33 SRPESTFWIF----------GKPTYIDTHADLAIMFADLAIMFADSRPESTFWIFGKPTYIET 85 (209)
Q Consensus 33 ~~p~s~~w~~----------~~p~y~~~~~~~gld~~dL~~Ls~dqq~EL~q~~EqQ~aq~Qe 85 (209)
.||.++|=+| .+|+ +......-+-...=..||+++++.-....+..+++.++
T Consensus 3 KrP~naf~~F~~~~r~~~~~~~p~-~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~ 64 (72)
T cd01388 3 KRPMNAFMLFSKRHRRKVLQEYPL-KENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMK 64 (72)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence 4677776554 5565 11111111223344577777777666655555555443
No 15
>PF04300 FBA: F-box associated region; InterPro: IPR007397 Proteins containing this domain are associated with F-box domains (IPR001810 from INTERPRO), hence the name FBA. This domain is probably involved in binding other proteins that will be targeted for ubiquitination. Q9UK22 from SWISSPROT is involved in binding to N-glycosylated proteins.; GO: 0030163 protein catabolic process; PDB: 1UMI_A 2RJ2_A 2E33_A 1UMH_A 2E32_A 2E31_A.
Probab=25.51 E-value=26 Score=29.88 Aligned_cols=41 Identities=34% Similarity=0.593 Sum_probs=27.9
Q ss_pred hhhhhheeecccCCcc---hhhhhhhhhhhcccccCccccceEEEE
Q psy11816 165 KSVRLTLRMTEYSPGI---AFKHAQKSTKFQNEFLDPSLKNIIVVV 207 (209)
Q Consensus 165 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 (209)
.++.|+ |..|.||+ .|.|.-|.++|-.++.-+-.-|.-|.|
T Consensus 139 ~qvsh~--F~~Yg~GVR~I~f~h~GkD~~fw~G~yG~rvt~ssV~V 182 (184)
T PF04300_consen 139 KQVSHT--FSNYGPGVRFIRFEHGGKDTQFWAGHYGSRVTNSSVIV 182 (184)
T ss_dssp EEEEEE--E-S--TTEEEEEEEEEEEESS--SSS-SEEEEEEEEEE
T ss_pred EEEEEE--EeCCCCCCEEEEEEEeeeccccCCcccCCeEeceEEEE
Confidence 345555 67999995 678999999999999999988887765
No 16
>TIGR03852 sucrose_gtfA sucrose phosphorylase. In the forward direction, this enzyme uses phosphate to cleave sucrose into D-fructose + alpha-D-glucose 1-phosphate. Characterized representatives from Streptococcus mutans and Bifidobacterium adolescentis represent well-separated branches of a molecular phylogenetic tree. In S. mutans, the region including this gene has been associated with neighboring transporter genes and multiple sugar metabolism.
Probab=25.44 E-value=37 Score=33.18 Aligned_cols=31 Identities=13% Similarity=0.250 Sum_probs=24.9
Q ss_pred ceeecccccccChhhhcCCCCCChHHHHHHHH
Q psy11816 46 TYIDTHADLAIMFADLAIMFADSRPESTFWIF 77 (209)
Q Consensus 46 ~y~~~~~~~gld~~dL~~Ls~dqq~EL~q~~E 77 (209)
|+|++||++||-+.. +.|+++++.++....+
T Consensus 282 nfL~sHDgigl~~~~-glL~~~ei~~l~~~~~ 312 (470)
T TIGR03852 282 TTLDTHDGIGVVDVK-DLLTDEEIDYTSEELY 312 (470)
T ss_pred EEeecCCCCCCcccc-ccCCHHHHHHHHHHHH
Confidence 899999999997543 6788888888877654
No 17
>KOG3048|consensus
Probab=23.20 E-value=70 Score=27.50 Aligned_cols=33 Identities=6% Similarity=0.034 Sum_probs=29.1
Q ss_pred hhhcCCCCCChHHHHHHHHhcHHHHHHHHHHHH
Q psy11816 59 ADLAIMFADSRPESTFWIFGKPTYIETHMFEFN 91 (209)
Q Consensus 59 ~dL~~Ls~dqq~EL~q~~EqQ~aq~QelvnkLT 91 (209)
.||..|++++=.++.++.++++..+|+.++.|.
T Consensus 8 idltkLsleQL~~lk~q~dqEl~~lq~Sl~~L~ 40 (153)
T KOG3048|consen 8 IDLTKLSLEQLGALKKQFDQELNFLQDSLNALK 40 (153)
T ss_pred CChhhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468889999999999999999999999999865
No 18
>KOG0258|consensus
Probab=22.43 E-value=32 Score=33.94 Aligned_cols=42 Identities=31% Similarity=0.526 Sum_probs=34.9
Q ss_pred cccccccCCCCCCcchhhhhhhhheeecccCCcchhhhhhhhhhhcccccCc
Q psy11816 147 CAHVTTKNNPPPGLQSHVKSVRLTLRMTEYSPGIAFKHAQKSTKFQNEFLDP 198 (209)
Q Consensus 147 ~~~v~~~~~~~~G~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 (209)
|---++--+++|| .|| +|+|.-.||+ .--+|-++|.+||+|.
T Consensus 432 cvVPGSGFGQ~~G-tyH-------~R~TiLp~~~--~~i~~~~~fH~~f~~~ 473 (475)
T KOG0258|consen 432 CVVPGSGFGQKEG-TYH-------FRTTILPPGL--EIIEKFKKFHAEFMDE 473 (475)
T ss_pred EEecCCCCCCCCc-eeE-------EEEeecCchh--HHHHHHHHHHHHHHHh
Confidence 4556778899999 467 5999999994 8899999999999874
No 19
>PF12422 Condensin2nSMC: Condensin II non structural maintenance of chromosomes subunit; InterPro: IPR024741 Subunit G2 is a non-SMC subunit of condensin II, which is involved in maintenance of the structural integrity of chromosomes. Condensin II is made up of SMC (structural maintenance of chromosomes) and non-SMC subunits. The non-SMC subunits bind to the catalytic ends of the SMC subunit dimer. The condensin holocomplex is able to introduce superhelical tension into DNA in an ATP hydrolysis- dependent manner, resulting in the formation of positive supercoils in the presence of topoisomerase I and of positive knots in the presence of topoisomerase II [].; GO: 0005634 nucleus
Probab=22.11 E-value=1.5e+02 Score=24.27 Aligned_cols=94 Identities=16% Similarity=0.192 Sum_probs=61.6
Q ss_pred cCCCceeecccccccChhhhcCCCCCChHHHHHHHHh----cHHHHHHHHHHHHHHHHHhccCCCCCchhhHHHHHHHHH
Q psy11816 42 FGKPTYIDTHADLAIMFADLAIMFADSRPESTFWIFG----KPTYIETHMFEFNDICWDKCQSDKVDSKTETCLTNCVNR 117 (209)
Q Consensus 42 ~~~p~y~~~~~~~gld~~dL~~Ls~dqq~EL~q~~Eq----Q~aq~QelvnkLTE~CFdKCVsssLsskEesCLsNCVdK 117 (209)
+..|+||.+-.+-++=+-=.. ++..-..+.-..++. ......+.|..+--.=|+++.++.+.+.|+.||..=++-
T Consensus 5 f~~p~~i~~~~g~~fls~l~~-~~~~~~~~~~~~i~~~~~~~~~~~le~y~ei~~~aWk~a~~~~~~~~e~~~iq~~~~~ 83 (152)
T PF12422_consen 5 FMPPSFIKTFEGRKFLSFLFS-LSGIFIKKIHKLIKCQIPQVSKSVLELYGEILFRAWKKASKDKLEEIEEVCIQDLMEA 83 (152)
T ss_pred hcchhhcCcHHHHHHHHHHHH-hhHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHHHH
Confidence 456777776665333322222 233333333333332 223367777787788888887888899999999999999
Q ss_pred HHHH-HHHHHHHHHHHHhcc
Q psy11816 118 FIDV-SLFITNRYGQLLSKS 136 (209)
Q Consensus 118 FmDt-s~~VsqRfqe~~qqe 136 (209)
.+.+ +..+..++.+.+..-
T Consensus 84 a~~~~~~~~~~~~R~~L~~f 103 (152)
T PF12422_consen 84 AIHLEYLPLHSKFREVLLSF 103 (152)
T ss_pred hHHhcchHhHHHHHHHHHHH
Confidence 9999 888888887777543
No 20
>PLN02301 pectinesterase/pectinesterase inhibitor
Probab=21.36 E-value=4.5e+02 Score=26.43 Aligned_cols=33 Identities=18% Similarity=0.156 Sum_probs=28.0
Q ss_pred CCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy11816 101 DKVDSKTETCLTNCVNRFIDVSLFITNRYGQLL 133 (209)
Q Consensus 101 ssLsskEesCLsNCVdKFmDts~~VsqRfqe~~ 133 (209)
..++..+..++..|.+-|-++-..+.+.+.+..
T Consensus 111 ~~~~~~~~aAL~DC~ELl~davd~L~~Sl~~l~ 143 (548)
T PLN02301 111 RINDPRDKAALADCVELMDLSKDRIKDSVEALG 143 (548)
T ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 457889999999999999999999887776554
No 21
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.06 E-value=1e+02 Score=23.03 Aligned_cols=30 Identities=7% Similarity=-0.035 Sum_probs=21.7
Q ss_pred CCCChHHHHHHHHhcHHHHHHHHHHHHHHH
Q psy11816 65 FADSRPESTFWIFGKPTYIETHMFEFNDIC 94 (209)
Q Consensus 65 s~dqq~EL~q~~EqQ~aq~QelvnkLTE~C 94 (209)
|.+++.+-.+..|.+++.-++++.++-+.|
T Consensus 53 s~eeq~~~i~~Le~~i~~k~~~L~~~~~~~ 82 (83)
T PF07544_consen 53 SVEEQEEEIEELEEQIRKKREVLQKFKERV 82 (83)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445555555566788888888888888876
Done!