Query 023105
Match_columns 287
No_of_seqs 131 out of 146
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 08:28:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023105.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023105hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08879 WRC: WRC; InterPro: 99.8 1.2E-21 2.7E-26 139.9 3.2 46 86-131 1-46 (46)
2 PF08880 QLQ: QLQ; InterPro: 99.6 7.1E-16 1.5E-20 105.7 2.8 37 14-50 1-37 (37)
3 PF13891 zf-C3Hc3H: Potential 71.5 2.4 5.3E-05 31.8 1.5 22 101-122 8-29 (65)
4 PHA02132 hypothetical protein 61.0 2.1 4.6E-05 34.4 -0.6 15 238-252 29-43 (86)
5 PF04810 zf-Sec23_Sec24: Sec23 56.7 5.6 0.00012 27.3 0.9 8 96-103 21-28 (40)
6 PF11722 zf-TRM13_CCCH: CCCH z 38.9 10 0.00022 25.3 0.0 21 98-118 11-31 (31)
7 PF07750 GcrA: GcrA cell cycle 38.1 21 0.00045 31.4 1.8 37 86-122 112-153 (162)
8 PLN03031 hypothetical protein; 37.8 19 0.00041 30.3 1.4 25 79-105 1-25 (102)
9 KOG0488 Transcription factor B 37.3 20 0.00043 34.6 1.7 23 13-35 176-198 (309)
10 COG1659 Uncharacterized protei 35.3 41 0.00089 32.2 3.4 59 10-93 5-64 (267)
11 KOG0487 Transcription factor A 34.6 38 0.00083 33.2 3.1 25 12-36 238-262 (308)
12 PF15008 DUF4518: Domain of un 33.2 31 0.00067 33.0 2.3 19 26-44 62-81 (262)
13 KOG0484 Transcription factor P 30.9 24 0.00053 30.3 1.0 16 12-27 20-35 (125)
14 PF06607 Prokineticin: Prokine 29.8 21 0.00046 29.5 0.5 17 87-103 81-97 (97)
15 PLN00162 transport protein sec 27.6 31 0.00067 37.0 1.4 18 86-103 50-79 (761)
16 KOG2829 E2F-like protein [Tran 26.6 82 0.0018 31.2 3.9 31 18-48 152-190 (326)
17 TIGR01565 homeo_ZF_HD homeobox 26.0 55 0.0012 24.6 2.1 23 11-33 3-25 (58)
18 KOG0842 Transcription factor t 25.2 42 0.0009 32.9 1.6 24 13-36 157-180 (307)
19 PF14381 EDR1: Ethylene-respon 23.3 56 0.0012 30.0 2.0 20 26-45 147-166 (204)
20 PF12980 DUF3864: Domain of Un 22.9 56 0.0012 26.4 1.7 12 23-34 66-77 (82)
21 PF14723 SSFA2_C: Sperm-specif 22.7 48 0.001 30.4 1.5 18 19-36 119-141 (179)
22 PF08914 Myb_DNA-bind_2: Rap1 21.1 1E+02 0.0022 23.5 2.7 24 12-41 1-24 (65)
23 KOG1985 Vesicle coat complex C 21.1 38 0.00083 37.4 0.6 17 88-104 217-245 (887)
24 PF08513 LisH: LisH; InterPro 21.1 80 0.0017 20.0 1.8 12 25-36 2-13 (27)
No 1
>PF08879 WRC: WRC; InterPro: IPR014977 WRC is named after the conserved Trp-Arg-Cys motif, it contains two distinctive features: a putative nuclear localisation signal and a zinc-finger motif (C3H). It is suggested that WRC functions in DNA binding []. ; GO: 0005515 protein binding
Probab=99.83 E-value=1.2e-21 Score=139.87 Aligned_cols=46 Identities=59% Similarity=1.147 Sum_probs=44.6
Q ss_pred CCCCCcccccCCCcceecCccCCCchhHHHHhhccCCCCCCCCCCC
Q 023105 86 DPEPGRCRRTDGKKWRCSKEAYPDSKYCERHMHRGKNRSRKPVELN 131 (287)
Q Consensus 86 dpep~RCrRtDGKkWRCsr~a~~~~k~Ce~H~~rgr~Rsrk~ve~~ 131 (287)
|||++||+|+|||+|||+++|++|++|||+||+++|+|++|.||.+
T Consensus 1 d~e~~RC~R~DGK~WrC~~~a~~g~~~Ce~H~~~~r~r~~~~~~~~ 46 (46)
T PF08879_consen 1 DPEPWRCRRNDGKGWRCSRRALPGYSLCEHHLDRGRSRSRKSKEPS 46 (46)
T ss_pred CCccceeeCCCCCccccCCccCCCccHHHHHHHHHhhccCCCCCCC
Confidence 7999999999999999999999999999999999999999999964
No 2
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=99.58 E-value=7.1e-16 Score=105.70 Aligned_cols=37 Identities=46% Similarity=0.772 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhCCCCCCCccccccc
Q 023105 14 FPFTASQWQELEHQALIFKYMVSGIPVPPDLLFTIKR 50 (287)
Q Consensus 14 ~pFT~~Qw~ELE~QalIykYm~ag~pVP~~Ll~pi~~ 50 (287)
.+||++||+|||+|++|||||++|+|||++|+.||++
T Consensus 1 s~FT~~Ql~~L~~Qi~ayK~l~~~~pVP~~l~~~I~~ 37 (37)
T PF08880_consen 1 SPFTPAQLQELRAQILAYKYLARNQPVPPQLQQAIQK 37 (37)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHhhhC
Confidence 4899999999999999999999999999999999985
No 3
>PF13891 zf-C3Hc3H: Potential DNA-binding domain
Probab=71.50 E-value=2.4 Score=31.81 Aligned_cols=22 Identities=50% Similarity=0.921 Sum_probs=20.1
Q ss_pred eecCccCCCchhHHHHhhccCC
Q 023105 101 RCSKEAYPDSKYCERHMHRGKN 122 (287)
Q Consensus 101 RCsr~a~~~~k~Ce~H~~rgr~ 122 (287)
.|++.++|+.+||-+||..-++
T Consensus 8 ~C~~~~lp~~~yC~~HIl~D~~ 29 (65)
T PF13891_consen 8 GCSQPALPGSKYCIRHILEDPN 29 (65)
T ss_pred CcCcccCchhhHHHHHhccCCC
Confidence 6999999999999999987755
No 4
>PHA02132 hypothetical protein
Probab=61.03 E-value=2.1 Score=34.38 Aligned_cols=15 Identities=53% Similarity=0.957 Sum_probs=11.7
Q ss_pred cccccCCCCCCCCcc
Q 023105 238 RFFDEWPPKSRDSWL 252 (287)
Q Consensus 238 pFFDEWP~K~rDSW~ 252 (287)
-|||||-.++.||=+
T Consensus 29 affdewr~~~pdsk~ 43 (86)
T PHA02132 29 AFFDEWRQKRPDSKM 43 (86)
T ss_pred HHHHHHHcCCCCccC
Confidence 499999977777643
No 5
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=56.66 E-value=5.6 Score=27.29 Aligned_cols=8 Identities=50% Similarity=1.423 Sum_probs=6.7
Q ss_pred CCCcceec
Q 023105 96 DGKKWRCS 103 (287)
Q Consensus 96 DGKkWRCs 103 (287)
+||+|+|.
T Consensus 21 ~~~~w~C~ 28 (40)
T PF04810_consen 21 GGKTWICN 28 (40)
T ss_dssp TTTEEEET
T ss_pred CCCEEECc
Confidence 67999995
No 6
>PF11722 zf-TRM13_CCCH: CCCH zinc finger in TRM13 protein; InterPro: IPR021721 This domain is found at the N terminus of TRM13 methyltransferase proteins. It is presumed to be a zinc binding domain. ; GO: 0008168 methyltransferase activity
Probab=38.90 E-value=10 Score=25.33 Aligned_cols=21 Identities=38% Similarity=0.746 Sum_probs=18.0
Q ss_pred CcceecCccCCCchhHHHHhh
Q 023105 98 KKWRCSKEAYPDSKYCERHMH 118 (287)
Q Consensus 98 KkWRCsr~a~~~~k~Ce~H~~ 118 (287)
|+=+|.-.+.+|++||-.|+.
T Consensus 11 K~R~C~m~~~~g~~fC~~H~~ 31 (31)
T PF11722_consen 11 KKRFCKMTRKPGSRFCGEHMP 31 (31)
T ss_pred cccccCCeecCcCCccccCCC
Confidence 555899999999999999863
No 7
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=38.12 E-value=21 Score=31.42 Aligned_cols=37 Identities=27% Similarity=0.582 Sum_probs=24.5
Q ss_pred CCCCCcccccCC----Ccc-eecCccCCCchhHHHHhhccCC
Q 023105 86 DPEPGRCRRTDG----KKW-RCSKEAYPDSKYCERHMHRGKN 122 (287)
Q Consensus 86 dpep~RCrRtDG----KkW-RCsr~a~~~~k~Ce~H~~rgr~ 122 (287)
|-..+.|+=--| ..+ -|-+.+.++..||+.|....-.
T Consensus 112 ~L~~~~CrwPiGdp~~~~f~FCG~~~~~g~~YC~~H~~~ay~ 153 (162)
T PF07750_consen 112 ELTEGTCRWPIGDPGEPDFHFCGAPTQPGSPYCAAHARIAYQ 153 (162)
T ss_pred hCCcCCccCcCCCCCCCCccccCCcCCCCCchhHHHHHHhcC
Confidence 334455554333 333 4999999999999999765543
No 8
>PLN03031 hypothetical protein; Provisional
Probab=37.81 E-value=19 Score=30.31 Aligned_cols=25 Identities=32% Similarity=0.631 Sum_probs=14.9
Q ss_pred cCCCCCCCCCCCcccccCCCcceecCc
Q 023105 79 VGLGRKIDPEPGRCRRTDGKKWRCSKE 105 (287)
Q Consensus 79 ~~~~~~~dpep~RCrRtDGKkWRCsr~ 105 (287)
|||+++.--+.+- .+|||||-=..-
T Consensus 1 mg~s~k~q~~~~~--~~~~kkwviagi 25 (102)
T PLN03031 1 MGFSKKSQVDGGL--ESDGKKWVIAGI 25 (102)
T ss_pred CCcCccccccccc--ccCCceEEEecc
Confidence 4566665333332 589999965443
No 9
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=37.30 E-value=20 Score=34.63 Aligned_cols=23 Identities=35% Similarity=0.385 Sum_probs=21.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHH
Q 023105 13 RFPFTASQWQELEHQALIFKYMV 35 (287)
Q Consensus 13 r~pFT~~Qw~ELE~QalIykYm~ 35 (287)
|.-||.-|++|||..=+.=|||.
T Consensus 176 RTaFT~~Ql~~LEkrF~~QKYLS 198 (309)
T KOG0488|consen 176 RTAFSDHQLFELEKRFEKQKYLS 198 (309)
T ss_pred hhhhhHHHHHHHHHHHHHhhccc
Confidence 56799999999999999999985
No 10
>COG1659 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]
Probab=35.34 E-value=41 Score=32.19 Aligned_cols=59 Identities=24% Similarity=0.293 Sum_probs=38.1
Q ss_pred ccCCCCCCHHHHHHHHHHH-HHHHHHHhCCCCCCCcccccccccccCCCCCcccccCCCCCccccccccccCCCCCCCCC
Q 023105 10 AINRFPFTASQWQELEHQA-LIFKYMVSGIPVPPDLLFTIKRSYYFDRSPPSAAKHFTHQHQHVEWNCFQVGLGRKIDPE 88 (287)
Q Consensus 10 ~~~r~pFT~~Qw~ELE~Qa-lIykYm~ag~pVP~~Ll~pi~~s~~~~s~~~~~~~~~p~~~~~~g~~~~~~~~~~~~dpe 88 (287)
-+.-.|+|++||+|+..-| -|||--.+| ||- ++- ....||+.--.-||+-.|-+
T Consensus 5 ~Rd~APLTe~~W~eID~~A~E~FK~~v~g-----------RKF--vdV------------~GP~G~~~aavs~g~l~~V~ 59 (267)
T COG1659 5 YRDLAPLTEAAWAEIDLEAAETFKRHIAG-----------RKF--VDV------------SGPGGPVTAAVSTGRLIDVK 59 (267)
T ss_pred hhccccccHHHHHHHHHHHHHHHHHhccc-----------eee--eec------------cCCCCcceeeeecceeEEec
Confidence 3445799999999999876 588876666 232 221 12345554444467667778
Q ss_pred CCccc
Q 023105 89 PGRCR 93 (287)
Q Consensus 89 p~RCr 93 (287)
++-|-
T Consensus 60 ~~~nE 64 (267)
T COG1659 60 APTNE 64 (267)
T ss_pred CCccc
Confidence 87774
No 11
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=34.58 E-value=38 Score=33.17 Aligned_cols=25 Identities=36% Similarity=0.521 Sum_probs=22.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHh
Q 023105 12 NRFPFTASQWQELEHQALIFKYMVS 36 (287)
Q Consensus 12 ~r~pFT~~Qw~ELE~QalIykYm~a 36 (287)
.|||.|--|..|||.-=|+=+||.-
T Consensus 238 KRcPYTK~QtlELEkEFlfN~Yitk 262 (308)
T KOG0487|consen 238 KRCPYTKHQTLELEKEFLFNMYITK 262 (308)
T ss_pred ccCCchHHHHHHHHHHHHHHHHHhH
Confidence 3799999999999999999999853
No 12
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=33.25 E-value=31 Score=33.04 Aligned_cols=19 Identities=53% Similarity=1.057 Sum_probs=15.2
Q ss_pred HHHHHHHHHHh-CCCCCCCc
Q 023105 26 HQALIFKYMVS-GIPVPPDL 44 (287)
Q Consensus 26 ~QalIykYm~a-g~pVP~~L 44 (287)
+-.+||||+++ |++|||+.
T Consensus 62 ~RelLFkYLa~kgv~v~p~s 81 (262)
T PF15008_consen 62 KRELLFKYLASKGVIVPPDS 81 (262)
T ss_pred cHHHHHHHHHHcCCCCCCCc
Confidence 45789999986 78899864
No 13
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=30.93 E-value=24 Score=30.33 Aligned_cols=16 Identities=44% Similarity=0.528 Sum_probs=13.7
Q ss_pred CCCCCCHHHHHHHHHH
Q 023105 12 NRFPFTASQWQELEHQ 27 (287)
Q Consensus 12 ~r~pFT~~Qw~ELE~Q 27 (287)
.|.-||.+|+.|||+=
T Consensus 20 IRTTFTS~QLkELErv 35 (125)
T KOG0484|consen 20 IRTTFTSAQLKELERV 35 (125)
T ss_pred hhhhhhHHHHHHHHHH
Confidence 4678999999999974
No 14
>PF06607 Prokineticin: Prokineticin; InterPro: IPR023569 The prokineticin family includes prokinectin itself and related proteins such as BM8 and the AVIToxins. The suprachiasmatic nucleus (SCN) controls the circadian rhythm of physiological and behavioural processes in mammals. It has been shown that prokineticin 2 (PK2), a cysteine-rich secreted protein, functions as an output molecule from the SCN circadian clock. PK2 messenger RNA is rhythmically expressed in the SCN, and the phase of PK2 rhythm is responsive to light entrainment. Molecular and genetic studies have revealed that PK2 is a gene that is controlled by a circadian clock []. The prokinectin domain is found in the prokinectin family and the hainantoxins, where it comprises the whole length of the protein. This domain is also found at the C terminus of some members of the Dickkopf family.; PDB: 1IMT_A 2KRA_A.
Probab=29.82 E-value=21 Score=29.47 Aligned_cols=17 Identities=41% Similarity=0.731 Sum_probs=13.4
Q ss_pred CCCCcccccCCCcceec
Q 023105 87 PEPGRCRRTDGKKWRCS 103 (287)
Q Consensus 87 pep~RCrRtDGKkWRCs 103 (287)
.+...|.|++++||||+
T Consensus 81 ~~gL~C~~~~~~~~~c~ 97 (97)
T PF06607_consen 81 APGLVCSRFSGGKYRCS 97 (97)
T ss_dssp -TT-EEEEEETTCEEEE
T ss_pred CCCcEEEeCCCCcEecC
Confidence 35678999999999996
No 15
>PLN00162 transport protein sec23; Provisional
Probab=27.62 E-value=31 Score=37.00 Aligned_cols=18 Identities=39% Similarity=0.866 Sum_probs=13.9
Q ss_pred CCCCCcccc------------cCCCcceec
Q 023105 86 DPEPGRCRR------------TDGKKWRCS 103 (287)
Q Consensus 86 dpep~RCrR------------tDGKkWRCs 103 (287)
+-+|.||+| .+||+|+|-
T Consensus 50 ~~~pvRC~~CraylNPf~~~d~~~~~W~C~ 79 (761)
T PLN00162 50 PYDPLRCRTCRAVLNPYCRVDFQAKIWICP 79 (761)
T ss_pred CCCCCccCCCcCEECCceEEecCCCEEEcc
Confidence 336899987 468999994
No 16
>KOG2829 consensus E2F-like protein [Transcription]
Probab=26.61 E-value=82 Score=31.20 Aligned_cols=31 Identities=35% Similarity=0.487 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHh--------CCCCCCCccccc
Q 023105 18 ASQWQELEHQALIFKYMVS--------GIPVPPDLLFTI 48 (287)
Q Consensus 18 ~~Qw~ELE~QalIykYm~a--------g~pVP~~Ll~pi 48 (287)
.+|+|||+.|...||.|+. |.|-+..|-||.
T Consensus 152 ~a~lqEl~~q~~~fknLV~RN~~~e~~~~~P~~~i~LPF 190 (326)
T KOG2829|consen 152 AAQLQELIEQVSAFKNLVQRNRHAESQGQPPSENIHLPF 190 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCcccccce
Confidence 6899999999999999974 444455566664
No 17
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=26.02 E-value=55 Score=24.59 Aligned_cols=23 Identities=26% Similarity=0.255 Sum_probs=18.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHH
Q 023105 11 INRFPFTASQWQELEHQALIFKY 33 (287)
Q Consensus 11 ~~r~pFT~~Qw~ELE~QalIykY 33 (287)
+.|..||+.|.++||.=+-.-.|
T Consensus 3 R~RT~Ft~~Q~~~Le~~fe~~~y 25 (58)
T TIGR01565 3 RRRTKFTAEQKEKMRDFAEKLGW 25 (58)
T ss_pred CCCCCCCHHHHHHHHHHHHHcCC
Confidence 46889999999999987666555
No 18
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=25.22 E-value=42 Score=32.91 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=21.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHh
Q 023105 13 RFPFTASQWQELEHQALIFKYMVS 36 (287)
Q Consensus 13 r~pFT~~Qw~ELE~QalIykYm~a 36 (287)
|+.||.+|--|||+==-+=||+-|
T Consensus 157 RVLFSqAQV~ELERRFrqQRYLSA 180 (307)
T KOG0842|consen 157 RVLFSQAQVYELERRFRQQRYLSA 180 (307)
T ss_pred ccccchhHHHHHHHHHHhhhcccc
Confidence 689999999999998888899865
No 19
>PF14381 EDR1: Ethylene-responsive protein kinase Le-CTR1
Probab=23.34 E-value=56 Score=29.96 Aligned_cols=20 Identities=40% Similarity=0.707 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhCCCCCCCcc
Q 023105 26 HQALIFKYMVSGIPVPPDLL 45 (287)
Q Consensus 26 ~QalIykYm~ag~pVP~~Ll 45 (287)
|.||.||+++--+-+|--|+
T Consensus 147 hRALLFKvLAD~iglpCrLv 166 (204)
T PF14381_consen 147 HRALLFKVLADRIGLPCRLV 166 (204)
T ss_pred HHHHHHHHHHHhcCCCceEE
Confidence 67999999999999999998
No 20
>PF12980 DUF3864: Domain of Unknown Function with PDB structure (DUF3864); InterPro: IPR024335 This entry represents a functionally uncharacterised domain found in bacterial sequences. The structure of one of the sequences, A6LGL1 from SWISSPROT from Parabacteroides distasonis atcc 8503, has been determined.; PDB: 3LM3_A.
Probab=22.90 E-value=56 Score=26.36 Aligned_cols=12 Identities=50% Similarity=0.573 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHH
Q 023105 23 ELEHQALIFKYM 34 (287)
Q Consensus 23 ELE~QalIykYm 34 (287)
+-|+|+||+||.
T Consensus 66 ~~~~q~li~kyy 77 (82)
T PF12980_consen 66 SQEDQDLIRKYY 77 (82)
T ss_dssp -HHHHHHHHHH-
T ss_pred hHHHHHHHHHHh
Confidence 347999999996
No 21
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=22.73 E-value=48 Score=30.39 Aligned_cols=18 Identities=39% Similarity=0.624 Sum_probs=14.0
Q ss_pred HHHHHHH-----HHHHHHHHHHh
Q 023105 19 SQWQELE-----HQALIFKYMVS 36 (287)
Q Consensus 19 ~Qw~ELE-----~QalIykYm~a 36 (287)
.|.+||| +|||+|+.|..
T Consensus 119 ~qm~dlE~~l~~QQalvy~hMSe 141 (179)
T PF14723_consen 119 EQMMDLELHLMRQQALVYRHMSE 141 (179)
T ss_pred HHHHHHHHHHHHhHHHHHhcCCH
Confidence 4667777 59999999864
No 22
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=21.13 E-value=1e+02 Score=23.49 Aligned_cols=24 Identities=29% Similarity=0.459 Sum_probs=11.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHhCCCCC
Q 023105 12 NRFPFTASQWQELEHQALIFKYMVSGIPVP 41 (287)
Q Consensus 12 ~r~pFT~~Qw~ELE~QalIykYm~ag~pVP 41 (287)
+|.|||+ |--++|++|++...+-+
T Consensus 1 gR~~fT~------edD~~l~~~v~~~~~~~ 24 (65)
T PF08914_consen 1 GRTPFTE------EDDAALLDYVKENERQG 24 (65)
T ss_dssp ------H------HHHHHHHHHHHHT--ST
T ss_pred CCCCCCH------HHHHHHHHHHHHhccCC
Confidence 4889997 45788999997654433
No 23
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.08 E-value=38 Score=37.39 Aligned_cols=17 Identities=47% Similarity=1.156 Sum_probs=12.8
Q ss_pred CCCcccc------------cCCCcceecC
Q 023105 88 EPGRCRR------------TDGKKWRCSK 104 (287)
Q Consensus 88 ep~RCrR------------tDGKkWRCsr 104 (287)
.-.|||| .-|++|||.=
T Consensus 217 ~IvRCr~CRtYiNPFV~fid~gr~WrCNl 245 (887)
T KOG1985|consen 217 LIVRCRRCRTYINPFVEFIDQGRRWRCNL 245 (887)
T ss_pred ceeeehhhhhhcCCeEEecCCCceeeech
Confidence 3468988 4689999963
No 24
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=21.05 E-value=80 Score=19.99 Aligned_cols=12 Identities=42% Similarity=0.833 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHh
Q 023105 25 EHQALIFKYMVS 36 (287)
Q Consensus 25 E~QalIykYm~a 36 (287)
|...|||.|+..
T Consensus 2 ~Ln~lI~~YL~~ 13 (27)
T PF08513_consen 2 ELNQLIYDYLVE 13 (27)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 456899999874
Done!