Query psy13200
Match_columns 142
No_of_seqs 105 out of 123
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 22:43:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13200.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13200hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05811 DUF842: Eukaryotic pr 100.0 1.3E-55 2.8E-60 330.4 16.1 131 3-136 1-131 (131)
2 KOG3377|consensus 100.0 2.6E-54 5.6E-59 324.7 16.7 137 1-140 7-143 (143)
3 PF02953 zf-Tim10_DDP: Tim10/D 95.4 0.17 3.6E-06 33.0 7.6 59 69-134 7-65 (66)
4 PF05811 DUF842: Eukaryotic pr 88.3 0.85 1.8E-05 34.1 4.2 49 76-126 45-93 (131)
5 KOG3489|consensus 87.2 6.3 0.00014 27.8 7.7 68 63-138 13-82 (86)
6 KOG3479|consensus 74.1 23 0.00049 24.9 6.7 44 80-134 20-63 (83)
7 PF02953 zf-Tim10_DDP: Tim10/D 73.9 21 0.00045 22.9 6.3 40 34-73 23-64 (66)
8 KOG3480|consensus 73.1 27 0.00058 24.9 6.9 65 62-133 12-76 (90)
9 KOG3377|consensus 68.3 4.9 0.00011 30.9 2.6 33 100-132 75-107 (143)
10 PF02970 TBCA: Tubulin binding 50.1 50 0.0011 23.0 5.0 56 65-139 16-71 (90)
11 PF02320 UCR_hinge: Ubiquinol- 47.8 24 0.00052 23.4 2.9 31 85-119 26-57 (65)
12 PF07445 priB_priC: Primosomal 43.0 63 0.0014 25.1 5.0 32 49-83 127-158 (173)
13 PRK10093 primosomal replicatio 32.6 49 0.0011 26.1 2.9 33 49-83 124-156 (171)
14 COG1544 Ribosome-associated pr 30.3 40 0.00086 24.5 2.0 28 3-31 66-93 (110)
15 COG3923 PriC Primosomal replic 29.8 62 0.0013 25.7 3.0 21 63-83 140-160 (175)
16 PF01484 Col_cuticle_N: Nemato 27.3 1.4E+02 0.0031 17.7 4.0 27 67-93 23-49 (53)
17 PF01031 Dynamin_M: Dynamin ce 26.9 3E+02 0.0066 22.4 6.9 74 45-138 169-249 (295)
18 KOG0804|consensus 25.3 5E+02 0.011 23.8 8.2 63 57-137 369-431 (493)
19 PF14644 DUF4456: Domain of un 22.2 3.9E+02 0.0086 21.0 13.5 85 55-139 80-182 (208)
20 PF03172 Sp100: Sp100 domain; 20.9 2.1E+02 0.0045 20.8 4.2 25 9-33 55-79 (103)
21 PF05482 Serendipity_A: Serend 20.1 6.4E+02 0.014 23.6 8.0 69 10-81 281-368 (552)
No 1
>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=100.00 E-value=1.3e-55 Score=330.42 Aligned_cols=131 Identities=51% Similarity=0.970 Sum_probs=128.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhhccccCCCHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHH
Q psy13200 3 EAANQKINNAVMKIMVDIDKQFLRKMQADMHRCSVKCCENKDATMEGVQECLEVCSAPFMRAQKYLQMEFEQYQTRLQRC 82 (142)
Q Consensus 3 e~~q~rvq~av~~mv~~ldr~~lR~mQ~~~f~Caa~Ccd~~~~s~~~v~~Cve~C~~pl~~aq~~vq~El~~FQ~RLqRC 82 (142)
|++++||+.||++||++||++||||||++||+|+|+||||+++|+++||+||++|+.||.+||++|++||++||+||+||
T Consensus 1 ~~~~~rvq~av~~mv~~ld~~~lr~mQ~~~f~C~a~Ccdd~~~s~e~V~~Cve~C~~pl~~aq~~vq~El~~FQ~rlqrC 80 (131)
T PF05811_consen 1 EQQQQRVQKAVEKMVDDLDRKYLRKMQKKMFKCAAKCCDDSSASMEQVQRCVERCQQPLQQAQNYVQNELEQFQNRLQRC 80 (131)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHHHH
Q psy13200 83 VLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKKYL 136 (142)
Q Consensus 83 ~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~~l 136 (142)
+|+|+|+++|++++++++.++.+ +||+||++|||+||++||+|++|||++|
T Consensus 81 ~~~C~dk~~d~~~~~~~~~~~~~---~~e~C~~~Cvd~hi~llP~l~~r~k~~L 131 (131)
T PF05811_consen 81 VMHCQDKAKDKMDPNPNESDAEK---QLESCVNKCVDDHIKLLPSLTKRMKKSL 131 (131)
T ss_pred HHHHHHHHHhhccCCCCchHHHH---HHHHHHHHHHHHHHHHhHHHHHHHHhhC
Confidence 99999999999999999988775 9999999999999999999999999986
No 2
>KOG3377|consensus
Probab=100.00 E-value=2.6e-54 Score=324.68 Aligned_cols=137 Identities=39% Similarity=0.772 Sum_probs=132.8
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhhccccCCCHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHH
Q psy13200 1 MGEAANQKINNAVMKIMVDIDKQFLRKMQADMHRCSVKCCENKDATMEGVQECLEVCSAPFMRAQKYLQMEFEQYQTRLQ 80 (142)
Q Consensus 1 m~e~~q~rvq~av~~mv~~ldr~~lR~mQ~~~f~Caa~Ccd~~~~s~~~v~~Cve~C~~pl~~aq~~vq~El~~FQ~RLq 80 (142)
|+|.++.||+++|++|+++|+|+|||+||+.||+|||+||||+.++.+.|++||++|+.|+++||+||++||++||+||+
T Consensus 7 m~E~~r~kveeav~~m~~~L~r~hir~mQ~~mfrCaa~Ccdd~r~~~e~v~~ci~~c~~pl~~aQ~~~~~El~~FQ~RL~ 86 (143)
T KOG3377|consen 7 MLERQRRKVEEAVDEMQSDLDRDHIRKMQQAMFRCAAECCDDSRASEEAVNCCIECCVPPLTKAQQYVQSELGKFQDRLN 86 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHHHHhhCC
Q psy13200 81 RCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKKYLSDNS 140 (142)
Q Consensus 81 RC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~~l~~~~ 140 (142)
||+|+||||+++++++|+++.++. .+||+||++|||+|++|||+|++|||++|++++
T Consensus 87 Rc~m~C~Dk~~~~~~~~~~~~~~~---~~~e~Cvn~cvd~~v~liP~m~k~MK~al~~~~ 143 (143)
T KOG3377|consen 87 RCLMVCNDKFEASKLQGSKRLKAV---QQFESCVNKCVDDHVGLIPTMVKRMKEALSIGG 143 (143)
T ss_pred HHHHHHhHHHHHhcccCCchHHHH---HHHHHHHHHHHHHHHhhhHHHHHHHHHHHhcCC
Confidence 999999999999999999986644 699999999999999999999999999999875
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=95.35 E-value=0.17 Score=33.05 Aligned_cols=59 Identities=20% Similarity=0.419 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHH
Q psy13200 69 QMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKK 134 (142)
Q Consensus 69 q~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~ 134 (142)
+.++..|++-+++-...|.||=-+.++ +++ +. ..-++|+..|+++|+...-.+.+++.+
T Consensus 7 ~~q~~~~~~~~~~~t~~Cf~kCv~~~~-~~~---L~---~~E~~Ci~~C~~ky~~~~~~v~~~~~~ 65 (66)
T PF02953_consen 7 EQQMKDFQELFNKLTERCFDKCVTKFP-SSS---LS---SKEESCIDNCVDKYIDTNQFVSKRFQQ 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS-TTS-SSS--------HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCC-CCC---Cc---hhHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 356778888888888888887666632 222 11 345789999999999998888877653
No 4
>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=88.30 E-value=0.85 Score=34.07 Aligned_cols=49 Identities=22% Similarity=0.567 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccH
Q psy13200 76 QTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLP 126 (142)
Q Consensus 76 Q~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP 126 (142)
.+.+++|+..|+.....+ .+.-+.++.+|+..|..|+-.|.|+.-..+|
T Consensus 45 ~e~V~~Cve~C~~pl~~a--q~~vq~El~~FQ~rlqrC~~~C~dk~~d~~~ 93 (131)
T PF05811_consen 45 MEQVQRCVERCQQPLQQA--QNYVQNELEQFQNRLQRCVMHCQDKAKDKMD 93 (131)
T ss_pred HHHHHHHHHHhcChHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 456788888888643322 1111378889999999999999999877763
No 5
>KOG3489|consensus
Probab=87.18 E-value=6.3 Score=27.84 Aligned_cols=68 Identities=19% Similarity=0.389 Sum_probs=50.1
Q ss_pred HHHHHHHHHH--HHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHHHHhh
Q psy13200 63 RAQKYLQMEF--EQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKKYLSD 138 (142)
Q Consensus 63 ~aq~~vq~El--~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~~l~~ 138 (142)
+.+.+|+.|- .+||..+..=+-.|-||--++.+++.. ..-|.|...||+-+|..=-.|.+|+.....+
T Consensus 13 el~~fl~~E~qk~k~~~~VHqft~~CWdKCi~~~~skld--------s~~e~ClsnCV~RfiDts~~I~~r~~~~~~~ 82 (86)
T KOG3489|consen 13 ELQQFLEAETQKQKFQEQVHQFTEICWDKCIEKPGSKLD--------SSEETCLSNCVNRFIDTSLFIVKRLAQMNQG 82 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccccc--------chHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5666766664 468888876666677766666554433 2556799999999999999999999887665
No 6
>KOG3479|consensus
Probab=74.08 E-value=23 Score=24.92 Aligned_cols=44 Identities=20% Similarity=0.509 Sum_probs=30.1
Q ss_pred HHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHH
Q psy13200 80 QRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKK 134 (142)
Q Consensus 80 qRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~ 134 (142)
.+|-.+|-|.+-..-.. .+=+.|+.+|++++++.=--+.+|..+
T Consensus 20 E~CF~dCV~dft~r~l~-----------~~Ee~C~~~C~~Kflk~nqRv~qrf~e 63 (83)
T KOG3479|consen 20 ELCFSDCVDDFTTRDLS-----------GKEETCVMRCAEKFLKMNQRVSQRFQE 63 (83)
T ss_pred HHHHHHHHhHhhccccc-----------chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888887654433221 245679999999999876666666544
No 7
>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=73.94 E-value=21 Score=22.94 Aligned_cols=40 Identities=18% Similarity=0.664 Sum_probs=27.5
Q ss_pred hhhhhhccc-cCCCHH-HHHHHHHhcChhHHHHHHHHHHHHH
Q psy13200 34 RCSVKCCEN-KDATME-GVQECLEVCSAPFMRAQKYLQMEFE 73 (142)
Q Consensus 34 ~Caa~Ccd~-~~~s~~-~v~~Cve~C~~pl~~aq~~vq~El~ 73 (142)
.|-.+|-++ ++.+.. .=..||.+|-.....+...|..-+.
T Consensus 23 ~Cf~kCv~~~~~~~L~~~E~~Ci~~C~~ky~~~~~~v~~~~~ 64 (66)
T PF02953_consen 23 RCFDKCVTKFPSSSLSSKEESCIDNCVDKYIDTNQFVSKRFQ 64 (66)
T ss_dssp HHHHHHS-TTSSSS--HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888887 444332 3378999999999999888866544
No 8
>KOG3480|consensus
Probab=73.13 E-value=27 Score=24.86 Aligned_cols=65 Identities=18% Similarity=0.355 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHH
Q psy13200 62 MRAQKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIK 133 (142)
Q Consensus 62 ~~aq~~vq~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k 133 (142)
++|+ .-+.|++---+-++|=++.|..| =+++.-+|+|+.+ -=..|...||.+|...=-.|.++|.
T Consensus 12 ~k~q-~Ae~E~emm~d~fNrl~~tC~~K---CI~~~y~EaeLtK---GE~~CiDRCVaKy~~~n~~vG~~lq 76 (90)
T KOG3480|consen 12 QKAQ-MAELEVEMMSDMFNRLTNTCHKK---CIPPRYKEAELTK---GESVCIDRCVAKYLDVNEKVGKKLQ 76 (90)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHH---hCCcccccccccC---chhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3455 55667776666666666667654 2445556777654 4446888888888766555555554
No 9
>KOG3377|consensus
Probab=68.25 E-value=4.9 Score=30.85 Aligned_cols=33 Identities=21% Similarity=0.363 Sum_probs=25.4
Q ss_pred chhHHHHHHHHHhHHHHHHHHHhcccHHHHHHH
Q psy13200 100 QSDMDAYTRQFESCAEKCVDKHIALLPTLFQKI 132 (142)
Q Consensus 100 e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~ 132 (142)
+.++.+||..|..|+-.|-|+--.-.|.=.+++
T Consensus 75 ~~El~~FQ~RL~Rc~m~C~Dk~~~~~~~~~~~~ 107 (143)
T KOG3377|consen 75 QSELGKFQDRLNRCLMVCNDKFEASKLQGSKRL 107 (143)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHhcccCCchH
Confidence 368899999999999999998765555444443
No 10
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=50.06 E-value=50 Score=22.97 Aligned_cols=56 Identities=20% Similarity=0.379 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHHHHhhC
Q psy13200 65 QKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKKYLSDN 139 (142)
Q Consensus 65 q~~vq~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~~l~~~ 139 (142)
-.+-..|+...+.||.+= ++. |..+-++.+ .....++...+||.+.+||..++...
T Consensus 16 ~~~Y~kE~~~q~~rle~~--------k~~---~~de~~iKk--------q~~vl~Et~~mipd~~~RL~~a~~~L 71 (90)
T PF02970_consen 16 EASYEKEVEEQEARLEKM--------KAE---GEDEYDIKK--------QEEVLEETKMMIPDCQQRLEKAVEDL 71 (90)
T ss_dssp HHHHHHHHHHHHHHHHHH--------HHC---TTSHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH--------Hhc---CCcHHHHHH--------HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 445678899999998643 222 334455554 23567899999999999999987653
No 11
>PF02320 UCR_hinge: Ubiquinol-cytochrome C reductase hinge protein; InterPro: IPR023184 The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multienzyme complex []. The bc1 complex contains 11 subunits; 3 respiratory subunits (cytochrome B, cytochrome C1, Rieske protein), 2 core proteins and 6 low molecular weight proteins. This family represents the 'hinge' protein of the complex which is thought to mediate formation of the cytochrome c1 and cytochrome c complex. Proteins in this entry from an alpha-helical hairpin. This entry represents the structural domain found in these proteins.; PDB: 1BCC_H 1SQP_H 1SQB_H 1BE3_H 2A06_U 1L0L_H 2BCC_H 2FYU_H 1PPJ_U 2YBB_H ....
Probab=47.82 E-value=24 Score=23.41 Aligned_cols=31 Identities=13% Similarity=0.529 Sum_probs=17.9
Q ss_pred HhhHHHhhhcCCCCC-chhHHHHHHHHHhHHHHHHH
Q psy13200 85 DCNDEIKDKMGVNPK-QSDMDAYTRQFESCAEKCVD 119 (142)
Q Consensus 85 ~C~Dk~kd~~~~~~~-e~~~~~~~~~~e~Cv~~Cvd 119 (142)
.|.+++...-+...+ ..+. -.+-.|+..||.
T Consensus 26 ~C~eRV~~~~~~~e~C~ee~----fd~~hCvD~Cva 57 (65)
T PF02320_consen 26 ECVERVNSRSETKEDCVEEY----FDLVHCVDHCVA 57 (65)
T ss_dssp HHHHHHHHCSSSSG-SHHHH----HHHHHHHHHHHH
T ss_pred HHHHHHhcCCCCCCCcHHHH----HHHHHHHHHhhh
Confidence 357777766552222 1222 267788888886
No 12
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=42.95 E-value=63 Score=25.06 Aligned_cols=32 Identities=34% Similarity=0.412 Sum_probs=22.6
Q ss_pred HHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHHH
Q psy13200 49 GVQECLEVCSAPFMRAQKYLQMEFEQYQTRLQRCV 83 (142)
Q Consensus 49 ~v~~Cve~C~~pl~~aq~~vq~El~~FQ~RLqRC~ 83 (142)
+.+...+.|+.- -+..+++|+..++.||.||-
T Consensus 127 ~~e~~l~~~~~~---~~~~lq~ei~a~e~RL~RCr 158 (173)
T PF07445_consen 127 EREQQLEQAQSF---EQQQLQQEILALEQRLQRCR 158 (173)
T ss_pred HHHHHHHhCChH---HHHHHHHHHHHHHHHHHHHH
Confidence 334455555543 56678889999999999984
No 13
>PRK10093 primosomal replication protein N''; Provisional
Probab=32.56 E-value=49 Score=26.13 Aligned_cols=33 Identities=30% Similarity=0.425 Sum_probs=24.9
Q ss_pred HHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHHH
Q psy13200 49 GVQECLEVCSAPFMRAQKYLQMEFEQYQTRLQRCV 83 (142)
Q Consensus 49 ~v~~Cve~C~~pl~~aq~~vq~El~~FQ~RLqRC~ 83 (142)
+=+..+..|+... -+.-++.||.-+..||.||-
T Consensus 124 dre~~L~~a~~~~--~qq~lq~el~alegRL~RCr 156 (171)
T PRK10093 124 ERRARLARATDLV--EQQTLHREVEAYEGRLARCR 156 (171)
T ss_pred HHHHHHHhCCCHH--HHHHHHHHHHHHHHHHHHHH
Confidence 3455677776643 46678999999999999993
No 14
>COG1544 Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]
Probab=30.30 E-value=40 Score=24.54 Aligned_cols=28 Identities=25% Similarity=0.399 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHh
Q psy13200 3 EAANQKINNAVMKIMVDIDKQFLRKMQAD 31 (142)
Q Consensus 3 e~~q~rvq~av~~mv~~ldr~~lR~mQ~~ 31 (142)
++.-..+-.|++..++.|||. ||+..-+
T Consensus 66 ~~~~~d~YaAID~a~dKLerq-lrK~K~K 93 (110)
T COG1544 66 EAEHEDMYAAIDLAIDKLERQ-LRKHKEK 93 (110)
T ss_pred eecCCCHHHHHHHHHHHHHHH-HHHHHHH
Confidence 455567889999999999997 8887654
No 15
>COG3923 PriC Primosomal replication protein N'' [DNA replication, recombination, and repair]
Probab=29.79 E-value=62 Score=25.66 Aligned_cols=21 Identities=48% Similarity=0.746 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy13200 63 RAQKYLQMEFEQYQTRLQRCV 83 (142)
Q Consensus 63 ~aq~~vq~El~~FQ~RLqRC~ 83 (142)
-=|+.++.||+-.+.||.||-
T Consensus 140 vEqq~lqqel~~~e~RlarCr 160 (175)
T COG3923 140 VEQQKLQQELEAYEQRLARCR 160 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 335569999999999999994
No 16
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=27.32 E-value=1.4e+02 Score=17.75 Aligned_cols=27 Identities=11% Similarity=0.235 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHHHhhh
Q psy13200 67 YLQMEFEQYQTRLQRCVLDCNDEIKDK 93 (142)
Q Consensus 67 ~vq~El~~FQ~RLqRC~~~C~Dk~kd~ 93 (142)
.+-+++++|++.+.+=+..|+..+.|.
T Consensus 23 ~i~~~i~~~~~~~~~em~~fk~~s~d~ 49 (53)
T PF01484_consen 23 SIYNDIQNFQSELDDEMEEFKEISDDA 49 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466788888888888888888766553
No 17
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=26.90 E-value=3e+02 Score=22.41 Aligned_cols=74 Identities=15% Similarity=0.322 Sum_probs=53.1
Q ss_pred CCHHHHHHHHHhcC-------hhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHH
Q psy13200 45 ATMEGVQECLEVCS-------APFMRAQKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKC 117 (142)
Q Consensus 45 ~s~~~v~~Cve~C~-------~pl~~aq~~vq~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~C 117 (142)
.+.++|..=+++.. .|-.....+|..-+++|.+--..|+-.-. ..+..-+..+
T Consensus 169 ~~~~eI~~~i~~~~G~elp~f~p~~afe~Li~~~i~~l~~Pa~~cv~~V~--------------------~~l~~i~~~~ 228 (295)
T PF01031_consen 169 LSDEEIRTAIRNSRGRELPGFVPESAFESLIRKQIEKLEEPALQCVEEVH--------------------EELQRIVEQV 228 (295)
T ss_dssp HHHHHHHHHHHH--S-SSS-SCCHHHHHHHHHHHHHTTHHHHHHHHHHHH--------------------HHHHHHHHHH
T ss_pred hhHHHHHHHHHhhcccccccchhHHHHHHHHHHHHHHHHhHHHHHHHHHH--------------------HHHHHHHHhh
Confidence 46777877777753 46777888888887777666555543333 3666778888
Q ss_pred HHHHhcccHHHHHHHHHHHhh
Q psy13200 118 VDKHIALLPTLFQKIKKYLSD 138 (142)
Q Consensus 118 vd~hi~llP~l~~r~k~~l~~ 138 (142)
+..|..-.|.|..+|++.+..
T Consensus 229 ~~~~~~~fp~L~~~i~~~v~~ 249 (295)
T PF01031_consen 229 LEKEFERFPNLKEAIKEAVQQ 249 (295)
T ss_dssp HCHHHTTSHHHHHHHHHHHHH
T ss_pred cchhcCCchHHHHHHHHHHHH
Confidence 888999999999999987653
No 18
>KOG0804|consensus
Probab=25.33 E-value=5e+02 Score=23.84 Aligned_cols=63 Identities=22% Similarity=0.225 Sum_probs=44.4
Q ss_pred cChhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCchhHHHHHHHHHhHHHHHHHHHhcccHHHHHHHHHHH
Q psy13200 57 CSAPFMRAQKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQSDMDAYTRQFESCAEKCVDKHIALLPTLFQKIKKYL 136 (142)
Q Consensus 57 C~~pl~~aq~~vq~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e~~~~~~~~~~e~Cv~~Cvd~hi~llP~l~~r~k~~l 136 (142)
=+.-+..+...+.+-|.+||+++.+|...=. ..++++.++.+=-+-....|..+..+.++.+
T Consensus 369 ~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~------------------~~~E~n~~l~knq~vw~~kl~~~~e~~~~~~ 430 (493)
T KOG0804|consen 369 ESSDLEAEKKIVERKLQQLQTKLKKCQKELK------------------EEREENKKLIKNQDVWRGKLKELEEREKEAL 430 (493)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 3456888999999999999999999854322 2246666776666666666666666666654
Q ss_pred h
Q psy13200 137 S 137 (142)
Q Consensus 137 ~ 137 (142)
.
T Consensus 431 ~ 431 (493)
T KOG0804|consen 431 G 431 (493)
T ss_pred H
Confidence 3
No 19
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=22.24 E-value=3.9e+02 Score=21.01 Aligned_cols=85 Identities=16% Similarity=0.201 Sum_probs=53.7
Q ss_pred HhcChhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCc------------------hhHHHHHHHHHhHHHH
Q psy13200 55 EVCSAPFMRAQKYLQMEFEQYQTRLQRCVLDCNDEIKDKMGVNPKQ------------------SDMDAYTRQFESCAEK 116 (142)
Q Consensus 55 e~C~~pl~~aq~~vq~El~~FQ~RLqRC~~~C~Dk~kd~~~~~~~e------------------~~~~~~~~~~e~Cv~~ 116 (142)
++.-.-+..+..-|+.+++.++..|..=-..=..+.+-.++...+- .-+..+...+..|+.+
T Consensus 80 ~~~~~~~~~~~~~i~~~f~~~~~~~~~~k~~h~~~LrP~LghP~~~~eL~~L~~~E~~R~~~~~~~I~~~~~~l~~~~~~ 159 (208)
T PF14644_consen 80 KRHWQKLCEAMKAIQEEFEQQQKQWEQQKDQHEQQLRPNLGHPDNRQELESLCEREEKRQKEHQEAIQNFWEKLLEEVRK 159 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555556666666555443222223333334322221 3345577889999999
Q ss_pred HHHHHhcccHHHHHHHHHHHhhC
Q psy13200 117 CVDKHIALLPTLFQKIKKYLSDN 139 (142)
Q Consensus 117 Cvd~hi~llP~l~~r~k~~l~~~ 139 (142)
++..|++-|+.++.++-..|+..
T Consensus 160 ~a~~f~~~l~~~~~~ll~~lD~~ 182 (208)
T PF14644_consen 160 EAQMFVARLAQFTEKLLLLLDEV 182 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999888754
No 20
>PF03172 Sp100: Sp100 domain; InterPro: IPR004865 The Sp100 and promyelocytic leukemia proteins (PML) are constituents of nuclear domains, known as nuclear dots (NDs or NBs - nuclear bodies or PML bodies), and are both covalently modified by the small ubiquitin-related protein SUMO-1. NBs play a role in autoimmunity, virus infections, and in the etiology of acute promyelocytic leukemia []. A functional nuclear localization signal and an NB-targeting region that coincides with an Sp100 homodimerization domain have been mapped. Sequences similar to the Sp100 homodimerization/ND-targeting region occur in several other proteins, which include the autoimmune regulator proteins (AIRE) and other numerous other transiently or permanently localised proteins. PML is expressed as a family of isoforms (PML I-VII) as a result of alternative splicing, most of which are found in the nucleus. Although there are many other functions of PML NBs in a wide range of cellular pathways, there is accumulating evidence that they represent preferential targets for viral infections and that PML plays a role in the mechanism of the antiviral action of interferon []. The Sp100 domain is usually found at the amino terminus of proteins that contain a SAND domain IPR000770 from INTERPRO. ; GO: 0005634 nucleus
Probab=20.89 E-value=2.1e+02 Score=20.85 Aligned_cols=25 Identities=16% Similarity=0.449 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHhhh
Q psy13200 9 INNAVMKIMVDIDKQFLRKMQADMH 33 (142)
Q Consensus 9 vq~av~~mv~~ldr~~lR~mQ~~~f 33 (142)
++++|-+++..||+.+++.+=..-|
T Consensus 55 v~rvvY~vLs~Lek~f~~~fl~~LF 79 (103)
T PF03172_consen 55 VQRVVYNVLSWLEKTFIRSFLEALF 79 (103)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHh
Confidence 8999999999999999887655554
No 21
>PF05482 Serendipity_A: Serendipity locus alpha protein (SRY-A); InterPro: IPR008837 The Drosophila serendipity alpha (sry alpha) gene is specifically transcribed at the blastoderm stage, from nuclear cycle 11 to the onset of gastrulation, in all somatic nuclei []. SRY-A is required for the cellularisation of the embryo and is involved in the localisation of the actin filaments just prior to and during plasma membrane invagination [].; GO: 0007349 cellularization, 0005737 cytoplasm, 0016020 membrane
Probab=20.07 E-value=6.4e+02 Score=23.57 Aligned_cols=69 Identities=16% Similarity=0.415 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhhhhhhhhhccccCCCHHHHHHHH------HhcChhHHH-------------HHHHHHH
Q psy13200 10 NNAVMKIMVDIDKQFLRKMQADMHRCSVKCCENKDATMEGVQECL------EVCSAPFMR-------------AQKYLQM 70 (142)
Q Consensus 10 q~av~~mv~~ldr~~lR~mQ~~~f~Caa~Ccd~~~~s~~~v~~Cv------e~C~~pl~~-------------aq~~vq~ 70 (142)
.+.+++++.+.|-..=|-||-..| |..|++|.+ ..-.|..|. +-|=.|--+ .......
T Consensus 281 ~~~ld~lI~DFD~n~DRi~QIGlF--AIa~s~d~K-~kt~IRSCLASlEsLDt~LIPalql~~s~~~~~hs~iLe~Hf~e 357 (552)
T PF05482_consen 281 SNDLDELIADFDVNMDRIMQIGLF--AIAFSPDLK-RKTIIRSCLASLESLDTCLIPALQLPDSKSSDHHSEILEQHFNE 357 (552)
T ss_pred HHHHHHHHHHHHhhHHHHHHHhHH--HHHhCcchh-HHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHH
Confidence 567899999999999999999999 577888764 345666664 345556555 3467789
Q ss_pred HHHHHHHHHHH
Q psy13200 71 EFEQYQTRLQR 81 (142)
Q Consensus 71 El~~FQ~RLqR 81 (142)
||.+|++-++.
T Consensus 358 E~~~fr~~I~e 368 (552)
T PF05482_consen 358 EMNKFRNAIHE 368 (552)
T ss_pred HHHHHHHHHHH
Confidence 99999977653
Done!