Query 000234
Match_columns 1816
No_of_seqs 273 out of 426
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 00:37:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000234hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10513 EPL1: Enhancer of pol 99.8 3.5E-19 7.6E-24 181.2 7.4 151 1324-1485 4-160 (160)
2 PF09465 LBR_tudor: Lamin-B re 98.9 3.3E-09 7.3E-14 95.2 6.5 48 484-533 7-54 (55)
3 KOG0955 PHD finger protein BR1 98.7 1.3E-08 2.8E-13 129.2 5.8 172 1302-1492 29-207 (1051)
4 KOG2261 Polycomb enhancer prot 98.6 1.2E-08 2.6E-13 125.5 0.8 97 1415-1532 3-100 (716)
5 KOG0954 PHD finger protein [Ge 97.1 0.00036 7.7E-09 86.6 4.6 90 1395-1489 156-253 (893)
6 smart00333 TUDOR Tudor domain. 97.1 0.00086 1.9E-08 58.2 5.7 44 484-529 4-48 (57)
7 smart00743 Agenet Tudor-like d 96.9 0.0019 4.2E-08 57.4 5.6 36 484-520 4-39 (61)
8 cd04508 TUDOR Tudor domains ar 96.8 0.0025 5.3E-08 53.8 5.5 43 486-529 1-44 (48)
9 COG5141 PHD zinc finger-contai 96.7 0.0011 2.3E-08 79.8 3.1 61 1422-1488 113-173 (669)
10 KOG2261 Polycomb enhancer prot 96.5 0.00056 1.2E-08 85.7 -1.0 281 1212-1536 317-608 (716)
11 KOG4675 Uncharacterized conser 95.4 0.0047 1E-07 70.6 0.6 73 476-551 152-232 (273)
12 PF09038 53-BP1_Tudor: Tumour 94.2 0.084 1.8E-06 55.0 5.8 44 482-526 2-45 (122)
13 PF06003 SMN: Survival motor n 91.7 0.32 6.9E-06 55.7 6.3 49 482-530 68-117 (264)
14 KOG0954 PHD finger protein [Ge 73.8 2.8 6E-05 54.0 3.5 36 1496-1533 489-525 (893)
15 PF05641 Agenet: Agenet domain 70.0 8.2 0.00018 36.1 4.9 36 485-521 3-41 (68)
16 PF00567 TUDOR: Tudor domain; 66.8 12 0.00026 35.5 5.4 47 482-529 51-98 (121)
17 PF11717 Tudor-knot: RNA bindi 66.2 16 0.00035 33.1 5.8 44 485-529 3-51 (55)
18 PF15057 DUF4537: Domain of un 65.7 13 0.00027 38.9 5.7 42 486-528 1-42 (124)
19 KOG0644 Uncharacterized conser 61.5 10 0.00022 49.8 5.0 43 485-527 981-1035(1113)
20 KOG1473 Nucleosome remodeling 57.0 11 0.00024 50.7 4.3 45 482-530 41-86 (1414)
21 PLN00104 MYST -like histone ac 40.3 38 0.00081 42.5 5.0 46 484-529 55-109 (450)
22 KOG1525 Sister chromatid cohes 39.4 1.4 3E-05 59.7 -7.6 60 481-540 985-1045(1266)
23 PF07310 PAS_5: PAS domain; I 34.8 24 0.00053 36.5 2.0 27 1510-1536 4-30 (137)
24 PF08605 Rad9_Rad53_bind: Fung 32.4 82 0.0018 33.9 5.3 40 496-538 21-60 (131)
25 KOG3026 Splicing factor SPF30 30.4 52 0.0011 38.6 3.7 41 482-522 90-131 (262)
26 PF07039 DUF1325: SGF29 tudor- 29.4 1.4E+02 0.0031 31.7 6.5 62 463-524 47-114 (130)
27 CHL00204 ycf1 Ycf1; Provisiona 26.8 44 0.00095 47.4 2.8 25 781-805 165-189 (1832)
28 PF08006 DUF1700: Protein of u 24.9 1.2E+02 0.0026 32.8 5.2 57 1450-1516 4-61 (181)
29 PF05758 Ycf1: Ycf1; InterPro 20.9 47 0.001 44.8 1.4 60 781-842 151-210 (929)
No 1
>PF10513 EPL1: Enhancer of polycomb-like; InterPro: IPR019542 This domain is found at the N-terminal of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes []. It is also present at the N terminus of Jade family proteins.
Probab=99.77 E-value=3.5e-19 Score=181.18 Aligned_cols=151 Identities=28% Similarity=0.401 Sum_probs=99.4
Q ss_pred eEEEE--EcCcccccccchhccccCCCccccc--ccccccCCCcccccCCCchhhhhh--HHhHHHhhccccCCcCCCCc
Q 000234 1324 WKLAV--KLSGTTRFSYKAHQFLQPGSTNRYT--HAMMWKGGKDWILEFPDRSQWALF--KEMHEECYNRNIRAASVKNI 1397 (1816)
Q Consensus 1324 wRIsI--KLdgiTrys~kAqqimepcnSNReN--Ha~~w~g~k~WkLEFpDksqw~lF--KEmheEC~eRNsrAsSvKeI 1397 (1816)
.+|.| +|.++...+.......+ +++|+.+ +.++-...+.-.+ .++.|..- +-+...--..+........|
T Consensus 4 ~~ld~~~~l~I~~~~d~~~~~~~~-~~~~~~~~~~~~~~gv~~~~~~---~~~e~e~~~q~~~~~~~~~~~~~~~~~~~I 79 (160)
T PF10513_consen 4 RRLDIKKPLPIFREEDLDDLDESE-DSSNKNQAVPQSPTGVEKEEKL---SKQEWEKHLQKPISASQNSKSKKKKEKKKI 79 (160)
T ss_pred CCCCCCCCeeEEechhcccccccc-cccccccccccccCCccchhhc---cccccccccccccchhhhhhcccccccccC
Confidence 45666 88888877777666666 7777664 2222222222111 11111000 00000000000001134679
Q ss_pred CCCcceeecCCCCCccccCcccCCCCcEEeeccchhhccCCCccCCCCChhHHHHHHHHhcCCccccCCCCCCCHHHHHH
Q 000234 1398 PIPGVCLIEEFDDNVTEVAFVRSSSKYFRQVETDVEMALDPSRVLYDMDSDDEQWLLKIRSSSEADDCGLSEISEEIFEK 1477 (1816)
Q Consensus 1398 PIP~VReVEdYDe~y~~~PFsRpPsSYIRfietdVEeALD~e~VEYDMDSEDEEWLeq~NkkrkrkndG~~qLSEDdFEk 1477 (1816)
|+|.++.++ |+..+. .+|.+ |.+||||+...++++ +. .|+||||+||+.||+.+|++ ++..|..+||++.||.
T Consensus 80 P~P~~~~~~-~~~~~~-~~f~~-p~~yi~~~~~~~e~~-~~-~veYDmDeeD~~wL~~~N~~--r~~~~~~~ls~~~FE~ 152 (160)
T PF10513_consen 80 PTPSVRVVD-YEKPYS-PPFKR-PSSYIRFSEKSVEDL-DE-GVEYDMDEEDEEWLELLNKK--RKSDGLEPLSEEDFEI 152 (160)
T ss_pred CCCceEEec-CcCCCC-CcccC-CccccccccCCHHHh-cc-CcCCCCchHHHHHHHHHHHH--hhhcCCCCCCHHHHHH
Confidence 999999888 999997 78999 999999996556653 32 69999999999999999995 3457788999999999
Q ss_pred HHHHHHhh
Q 000234 1478 IIDIFEKA 1485 (1816)
Q Consensus 1478 MMDRLEKe 1485 (1816)
|||+|||+
T Consensus 153 ~md~lEke 160 (160)
T PF10513_consen 153 IMDRLEKE 160 (160)
T ss_pred HHHHHhCC
Confidence 99999996
No 2
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=98.88 E-value=3.3e-09 Score=95.19 Aligned_cols=48 Identities=27% Similarity=0.488 Sum_probs=38.1
Q ss_pred ccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccCCCceeeecCcccE
Q 000234 484 VLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDDRDEEWINLENERF 533 (1816)
Q Consensus 484 LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDDGDeE~L~Ls~EK~ 533 (1816)
-.|.+|++|||++..||+|.|++||+.+..|+|.|+||++ +.|.+..|
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGte--l~lke~di 54 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGTE--LELKENDI 54 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-E--EEEECCCE
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCCE--EEeccccc
Confidence 4899999999999999999999999999999999999998 44444443
No 3
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=98.69 E-value=1.3e-08 Score=129.16 Aligned_cols=172 Identities=17% Similarity=0.234 Sum_probs=121.1
Q ss_pred ecCcceeecCcEEEEEecCCceeEEEE--EcCcccccccchhccccCCCcccccccccccCCCcccccCCCchhhhhhHH
Q 000234 1302 HGDKGWRECGAQIALELFEHNEWKLAV--KLSGTTRFSYKAHQFLQPGSTNRYTHAMMWKGGKDWILEFPDRSQWALFKE 1379 (1816)
Q Consensus 1302 ~~DRcwRE~GA~VELEldGr~ewRIsI--KLdgiTrys~kAqqimepcnSNReNHa~~w~g~k~WkLEFpDksqw~lFKE 1379 (1816)
..|+=+=.+.-+++++++|+. ++|++ .+..+..+..+++.+.. |.+|+.|-..+-..-+.-..++..
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~--------- 97 (1051)
T KOG0955|consen 29 RNDRFYAQATRMVELDTEGRV-FQISIFPPLGKVNEDLITTEEIFP-NKSVHVNKNWERPSFDIQEKENKN--------- 97 (1051)
T ss_pred cCceEEeccccccccccccce-eecccCCcccccchhhcccccccc-cccccccccccCCccchhhhcccc---------
Confidence 566667778889999999999 99998 89999999999998766 888888642222222222222211
Q ss_pred hHHHhhccccCCc-----CCCCcCCCcceeecCCCCCccccCcccCCCCcEEeeccchhhccCCCccCCCCChhHHHHHH
Q 000234 1380 MHEECYNRNIRAA-----SVKNIPIPGVCLIEEFDDNVTEVAFVRSSSKYFRQVETDVEMALDPSRVLYDMDSDDEQWLL 1454 (1816)
Q Consensus 1380 mheEC~eRNsrAs-----SvKeIPIP~VReVEdYDe~y~~~PFsRpPsSYIRfietdVEeALD~e~VEYDMDSEDEEWLe 1454 (1816)
...-|++.++.-. .....|.+.++.++.+..... ..+ |..|++++.+..+. ++.+ |+||||++|..||.
T Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-p~~~~~~~~~~~~~-~~~e-~~y~~de~d~~wl~ 171 (1051)
T KOG0955|consen 98 NERPTLNKLSKDISPNAYTIPRSPQHKVREFELLRPMDA---PPR-PNFYYDEIEKSKET-LDEE-VEYDLDEEDYSWLD 171 (1051)
T ss_pred ccccchhhcccccCccccccccChhhhheeccccccccC---CCC-CCcchhhhccchhh-hccc-cccchHHHHHHHHh
Confidence 1111122222211 124567777777776655554 456 88899998775544 6666 99999999999999
Q ss_pred HHhcCCccccCCCCCCCHHHHHHHHHHHHhhhhccCCC
Q 000234 1455 KIRSSSEADDCGLSEISEEIFEKIIDIFEKAAYSQQRD 1492 (1816)
Q Consensus 1455 q~NkkrkrkndG~~qLSEDdFEkMMDRLEKeSy~qqqd 1492 (1816)
.+|..+. ..++..++.+.||.+||++||+++++...
T Consensus 172 ~~n~~~~--~~~~~~v~~~~~~~~~dr~eke~~f~~~e 207 (1051)
T KOG0955|consen 172 IMNELRT--RNGVFDVSIDTFELLVDRLEKESYFKNYE 207 (1051)
T ss_pred hhhHHHh--hcCCccccccchhhhhhhHHHHHHhhhhh
Confidence 9998544 57788899999999999999999987643
No 4
>KOG2261 consensus Polycomb enhancer protein, EPC [Transcription]
Probab=98.58 E-value=1.2e-08 Score=125.53 Aligned_cols=97 Identities=27% Similarity=0.322 Sum_probs=78.4
Q ss_pred cCcccCCCCcEEeeccchhhccCCCccCCCCChhHHHHHHHHhcCCccccCCCCCCCHHHHHHHHHHHHhhhhccCCCCC
Q 000234 1415 VAFVRSSSKYFRQVETDVEMALDPSRVLYDMDSDDEQWLLKIRSSSEADDCGLSEISEEIFEKIIDIFEKAAYSQQRDQF 1494 (1816)
Q Consensus 1415 ~PFsRpPsSYIRfietdVEeALD~e~VEYDMDSEDEEWLeq~NkkrkrkndG~~qLSEDdFEkMMDRLEKeSy~qqqdvl 1494 (1816)
.+|.. |-..|....- . |+.+.++||||+|||.||...+ .+.+.+||.|+||+|+.+. ...+
T Consensus 3 ~~~k~-~r~~~~~~~~--~--l~~~~p~yd~D~~de~~~s~~~-----------~s~~~~~e~~~dR~e~~s~---~~~i 63 (716)
T KOG2261|consen 3 KAAKM-PRQLIHGQPI--W--LDREKPRYDHDSEDEDFLSVQM-----------ESKPLKFERMRDRLEKCSS---HQKI 63 (716)
T ss_pred ccccc-chhhhccccc--c--cCCCCCcccccchhHHHhhhcc-----------cccchhHHHHhcccccCCc---ccee
Confidence 45666 6666655542 2 7788999999999999999922 4889999999999999984 3378
Q ss_pred CHHHHHHHHhccCChHHHHHHHHHHHHHHhhhCCC-cee
Q 000234 1495 TSNEIEELMAGVGSMEAIKVIYEHWRQKRLKKGMP-LIR 1532 (1816)
Q Consensus 1495 TlDEAeELLkdLgsddVIKAVYEYWKsKRqKkG~P-LLR 1532 (1816)
++.+++..|.. ++..+..||+||..||..+..| |+.
T Consensus 64 ~l~edk~~l~~--dd~~~v~~~e~~veK~~~~e~~~L~p 100 (716)
T KOG2261|consen 64 YLEEDKKDLDE--DDQRSVEVYEYWVEKREEKEVPSLIP 100 (716)
T ss_pred cchhhhhcccc--ccceeeeeeehhhhhhhhhccccccC
Confidence 99999888876 5678899999999999999988 443
No 5
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.14 E-value=0.00036 Score=86.56 Aligned_cols=90 Identities=30% Similarity=0.458 Sum_probs=72.4
Q ss_pred CCcCCCcceeecCCCCCccccCcccCCCCcEEeeccch--------hhccCCCccCCCCChhHHHHHHHHhcCCccccCC
Q 000234 1395 KNIPIPGVCLIEEFDDNVTEVAFVRSSSKYFRQVETDV--------EMALDPSRVLYDMDSDDEQWLLKIRSSSEADDCG 1466 (1816)
Q Consensus 1395 KeIPIP~VReVEdYDe~y~~~PFsRpPsSYIRfietdV--------EeALD~e~VEYDMDSEDEEWLeq~NkkrkrkndG 1466 (1816)
-.||+|.|+.+. .+. .+...|.+ |..||+....++ +++|.++.|.||+|.-|++||+.+|..+ .-+|
T Consensus 156 d~lpqp~v~~ds-e~v-~~~~~fs~-pkkyivc~~~~~~e~~yn~~~~~lae~tcrydid~~d~awL~~~n~e~--~~~G 230 (893)
T KOG0954|consen 156 DTLPQPSVRVDS-EDV-QPETDFSR-PKKYIVCSDGEVPELGYNLLIKDLAESTCRYDIDDMDPAWLQLVNEER--AEMG 230 (893)
T ss_pred CcCCCcceeccc-hhc-chhhhhcC-CcceEEeCCCCCcccchhhhHHHHhhhhhhcccccccHHHHHHhcchH--HhhC
Confidence 569999998775 222 13467999 999999976542 2346677899999999999999999854 4678
Q ss_pred CCCCCHHHHHHHHHHHHhhhhcc
Q 000234 1467 LSEISEEIFEKIIDIFEKAAYSQ 1489 (1816)
Q Consensus 1467 ~~qLSEDdFEkMMDRLEKeSy~q 1489 (1816)
...|.+-.||+||..||..++.+
T Consensus 231 ~~~l~~~~~eRiieelE~~c~kq 253 (893)
T KOG0954|consen 231 SLELDEGTFERIIEELERRCKKQ 253 (893)
T ss_pred CcccchHHHHHHHHHHHHHHHHH
Confidence 88999999999999999998763
No 6
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=97.14 E-value=0.00086 Score=58.22 Aligned_cols=44 Identities=23% Similarity=0.371 Sum_probs=40.1
Q ss_pred ccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccC-CCceeeecC
Q 000234 484 VLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDD-RDEEWINLE 529 (1816)
Q Consensus 484 LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDD-GDeE~L~Ls 529 (1816)
-+|..|.+.| .|..||.|+|+.+++. +...|.|.| |..|++.+.
T Consensus 4 ~~G~~~~a~~-~d~~wyra~I~~~~~~-~~~~V~f~D~G~~~~v~~~ 48 (57)
T smart00333 4 KVGDKVAARW-EDGEWYRARIIKVDGE-QLYEVFFIDYGNEEVVPPS 48 (57)
T ss_pred CCCCEEEEEe-CCCCEEEEEEEEECCC-CEEEEEEECCCccEEEeHH
Confidence 4899999999 9999999999999988 889999988 999988754
No 7
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=96.87 E-value=0.0019 Score=57.39 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=33.6
Q ss_pred ccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccC
Q 000234 484 VLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDD 520 (1816)
Q Consensus 484 LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDD 520 (1816)
.+|..|.|+|+.|..||.|+|+.+++ .+++.|.|++
T Consensus 4 ~~G~~Ve~~~~~~~~W~~a~V~~~~~-~~~~~V~~~~ 39 (61)
T smart00743 4 KKGDRVEVFSKEEDSWWEAVVTKVLG-DGKYLVRYLT 39 (61)
T ss_pred CCCCEEEEEECCCCEEEEEEEEEECC-CCEEEEEECC
Confidence 48999999999999999999999998 6689999987
No 8
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=96.82 E-value=0.0025 Score=53.82 Aligned_cols=43 Identities=16% Similarity=0.159 Sum_probs=38.4
Q ss_pred CceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccC-CCceeeecC
Q 000234 486 KRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDD-RDEEWINLE 529 (1816)
Q Consensus 486 GrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDD-GDeE~L~Ls 529 (1816)
|..|.+.|++|..||.|+|..+++ .+.-.|.|.| |..|.+.+.
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~-~~~~~V~f~DyG~~~~v~~~ 44 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS-DGKVEVFFVDYGNTEVVPLS 44 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC-CCcEEEEEEcCCCcEEEeHH
Confidence 677899999999999999999998 7789999987 999988754
No 9
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=96.67 E-value=0.0011 Score=79.76 Aligned_cols=61 Identities=28% Similarity=0.383 Sum_probs=45.4
Q ss_pred CCcEEeeccchhhccCCCccCCCCChhHHHHHHHHhcCCccccCCCCCCCHHHHHHHHHHHHhhhhc
Q 000234 1422 SKYFRQVETDVEMALDPSRVLYDMDSDDEQWLLKIRSSSEADDCGLSEISEEIFEKIIDIFEKAAYS 1488 (1816)
Q Consensus 1422 sSYIRfietdVEeALD~e~VEYDMDSEDEEWLeq~NkkrkrkndG~~qLSEDdFEkMMDRLEKeSy~ 1488 (1816)
..|-+|+.-+--..+. .-|.||||+-|+-||.-+|+..- ..++|+|.||.+|++||++++.
T Consensus 113 ~e~~Kfi~i~p~~~~~-f~v~YdlDe~D~m~l~Ylne~~~-----~e~vS~e~fEii~t~lE~EWf~ 173 (669)
T COG5141 113 DEGKKFIDIEPPRGLF-FSVIYDLDEYDTMWLRYLNESAI-----DENVSEEAFEIIVTRLEKEWFF 173 (669)
T ss_pred hhhhhceeccCCcCcc-CceeecccchhHHHHHHHHHHHh-----hhhhhHHHHHHHHHHHHHHHHh
Confidence 3555665322212222 33999999999999999998543 2479999999999999999976
No 10
>KOG2261 consensus Polycomb enhancer protein, EPC [Transcription]
Probab=96.45 E-value=0.00056 Score=85.68 Aligned_cols=281 Identities=18% Similarity=0.186 Sum_probs=197.0
Q ss_pred CcCcccCCccccccccccccCCCCCCCCceeEEEecCCC-CCCCCCCccccccCCCcchhhcccccccccccccccccCC
Q 000234 1212 SFGYLAHGWSVEKADVAHSSFGSAPKKPRTQVSYSLPFG-GYYSPKNRVNHQKGLPHMRIRRANEKRLSDVSRVSKKNLE 1290 (1816)
Q Consensus 1212 sfG~~sh~Ws~~k~d~~~~~f~~gpKKpRTqVsYs~p~~-~~~~sk~k~h~~Kg~ph~r~r~a~ekr~~d~~r~~~~~~d 1290 (1816)
.+=...|-|.-++.|++-. -=|-++++|+|..|-+ -.|..+ |+=+ +--.+++ |......+
T Consensus 317 ~l~~~~~k~e~~~~d~~~s----~~k~r~~lt~~~~~rr~i~~~rr------------r~g~-g~rv~~d--r~~~~~dd 377 (716)
T KOG2261|consen 317 RLLEKAHKRENKKEDFDPD----KRKYRTCLTKLKKPRRCIGFARR------------RAGR-GGRVIPD--RKPNNEDD 377 (716)
T ss_pred hHHHhhcchhccccccCcc----hhhhheeeeeccchhHHHHHHHH------------hhcc-CCccccc--cCCcCcCC
Confidence 4445566677778888763 5678899999998874 112111 1101 1112222 33445567
Q ss_pred cccccccEEEEecCcceeecCcEEEEEecCCceeEEEEEcCcccccccchhccccCCCcccccccccccCCCcccccCCC
Q 000234 1291 LLPCDANVLIVHGDKGWRECGAQIALELFEHNEWKLAVKLSGTTRFSYKAHQFLQPGSTNRYTHAMMWKGGKDWILEFPD 1370 (1816)
Q Consensus 1291 s~~C~ANvLI~~~DRcwRE~GA~VELEldGr~ewRIsIKLdgiTrys~kAqqimepcnSNReNHa~~w~g~k~WkLEFpD 1370 (1816)
..+|.++.+..+.+++=|+.+..+.+...+-.+|-.+.+ ++.-.+++.+|.-++|-..+..|++..|. +.|..+|.+
T Consensus 378 ~~~~~~~~~~~~~~~~~q~~~~~~r~~~sn~k~~~~~~~-d~s~~~~~i~q~~~r~~~~~~~~l~d~~~--~E~~~r~~~ 454 (716)
T KOG2261|consen 378 FISSIDTTMTQSSLLRQQERTFSQRLSDSNLKEEQLASS-DLSQILSNIKQERLRPFQRRLINLQDVDN--DEWTSRKCD 454 (716)
T ss_pred cccccccccccchhcccchhhhhhhccccccchhhcccc-ccccccccchheeecccccCccchhhccc--ccccchhhh
Confidence 899999999999999999999999999999999999999 99999999999999999999999999999 999999999
Q ss_pred chhhhhhHHhHHHhhccccCCcCCCCcC-CCcceeecCCCCCccccCcccCCCCcEEeeccchhhccCCCccCCCC--Ch
Q 000234 1371 RSQWALFKEMHEECYNRNIRAASVKNIP-IPGVCLIEEFDDNVTEVAFVRSSSKYFRQVETDVEMALDPSRVLYDM--DS 1447 (1816)
Q Consensus 1371 ksqw~lFKEmheEC~eRNsrAsSvKeIP-IP~VReVEdYDe~y~~~PFsRpPsSYIRfietdVEeALD~e~VEYDM--DS 1447 (1816)
+..|.-|+.-..+||..+..-.....+| ++...--..|.+.. .-+.+|+.+|+.+...+.-.+......-||| +.
T Consensus 455 ~~~~dk~~~~~~~~~~~~s~~~~~~~~~g~t~~~~~~~~~~~~--~~~~~~~~s~~~~~~~~~~~~~s~~~~~~~~~l~~ 532 (716)
T KOG2261|consen 455 REVPDKFKDAYIDCYENTSDKQSSRVGPGITESQGQTPFSQNA--PMQSQPLVSLQQLNASESLSASSNSIALYDSTLND 532 (716)
T ss_pred hhcchhhccccccccccccccccccccCCccccCCCchHhhhh--hhhccchhhhhhhccchhhhccccchhhhhhhhcC
Confidence 9999999988889999888765555664 33332222233333 3567767888877755444444445566775 33
Q ss_pred hHHHHHHHHhcCCccccCCCCCCCHHHHHHHHHHHHhhhhccCCCCCCHHHHHHHHhc-------cCChHHHHHHHHHHH
Q 000234 1448 DDEQWLLKIRSSSEADDCGLSEISEEIFEKIIDIFEKAAYSQQRDQFTSNEIEELMAG-------VGSMEAIKVIYEHWR 1520 (1816)
Q Consensus 1448 EDEEWLeq~NkkrkrkndG~~qLSEDdFEkMMDRLEKeSy~qqqdvlTlDEAeELLkd-------LgsddVIKAVYEYWK 1520 (1816)
+|+..|.. -...|+.+++.+|+....... +.+...... ..+.+...++.+||.
T Consensus 533 ~~~~~l~~---------------q~~~~~~~~~~~~~~~~~~~r-----~~~~~~~~~~~~~~~~p~~a~~~~~~~d~~~ 592 (716)
T KOG2261|consen 533 EDDKYLDR---------------QRAAFGASLDVFEKYHLHVSR-----DDKPDVLGMNNVNGSYPPSAESKELLSDNWL 592 (716)
T ss_pred ccchhhHH---------------HHHHHhhhhhcchhhccccch-----hcccccccCCCccccccCcccccccccccch
Confidence 44444433 356788999999885432211 111111110 123457788899999
Q ss_pred HHHhhhCCCceeeccc
Q 000234 1521 QKRLKKGMPLIRHLQP 1536 (1816)
Q Consensus 1521 sKRqKkG~PLLRrLQP 1536 (1816)
.+|.....|+++-+|-
T Consensus 593 ~~~~~~~~~~~~~~~~ 608 (716)
T KOG2261|consen 593 AKRAQRSSPLNSDSQT 608 (716)
T ss_pred hhhhhcCCCccccccc
Confidence 9999988888776643
No 11
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=95.45 E-value=0.0047 Score=70.57 Aligned_cols=73 Identities=21% Similarity=0.388 Sum_probs=59.0
Q ss_pred cCCCCCccccCceEEEEcCCCCceEeEEEEEee-CCCCeEEEEccCCC----ceeeecC---cccEEEEeCCCCCcchhc
Q 000234 476 SGDLDGFWVLKRRIKVFWPLDQCWYYGLVDDYD-KGKKLHHVKYDDRD----EEWINLE---NERFKLLLLPSEVPGKAA 547 (1816)
Q Consensus 476 ~~dvDpe~LVGrRIrVfWP~D~~WY~GtVtsYD-p~tkkH~V~YDDGD----eE~L~Ls---~EK~ewL~spgE~pg~~~ 547 (1816)
++.+.|+.+||++|..-||++..||++.|+.|+ ....+|.+.||..+ ++|++|. .|+++|+ +++++...
T Consensus 152 ~~n~pp~slvgr~v~~k~pdk~~~te~iit~~~~~~E~~~~l~~~~~~~~~p~~wvdl~~I~p~DIrw~---g~~~~~~~ 228 (273)
T KOG4675|consen 152 WGNVPPESLVGRKVWIKWPDKRKFTEAIITQYDAEKEGHHLLVPDINDCNDPWEWVDLREISPEDIRWE---GGDPGNPV 228 (273)
T ss_pred cccCCchhhccccccccCcccccccccccccchhhhhhhhhcccccccccCCccccccccCCHHhcccc---CCCCCccc
Confidence 356677889999999999999999999999954 55678889998665 7899885 6999999 66666655
Q ss_pred cccc
Q 000234 548 RRRS 551 (1816)
Q Consensus 548 r~~s 551 (1816)
+...
T Consensus 229 ~~~~ 232 (273)
T KOG4675|consen 229 APNH 232 (273)
T ss_pred ccCC
Confidence 4443
No 12
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=94.25 E-value=0.084 Score=54.98 Aligned_cols=44 Identities=27% Similarity=0.394 Sum_probs=34.5
Q ss_pred ccccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccCCCceee
Q 000234 482 FWVLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDDRDEEWI 526 (1816)
Q Consensus 482 e~LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDDGDeE~L 526 (1816)
.++||.||--.|-++.-||.|+|+. +....+.+|.+|||.+-.|
T Consensus 2 ~~~iG~rV~AkWS~n~yyY~G~I~~-~~~~~kykv~FdDG~~~~v 45 (122)
T PF09038_consen 2 SSFIGLRVFAKWSDNGYYYPGKITS-DKGKNKYKVLFDDGYECRV 45 (122)
T ss_dssp --STT-EEEEESSTTSEEEEEEEEE-EETTTEEEEEETTS-EEEE
T ss_pred CcccccEEEEEEccCCcccCceEee-cCCCCeEEEEecCCcccee
Confidence 5789999999999777779999999 4667799999999986443
No 13
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=91.72 E-value=0.32 Score=55.73 Aligned_cols=49 Identities=18% Similarity=0.327 Sum_probs=40.4
Q ss_pred ccccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEcc-CCCceeeecCc
Q 000234 482 FWVLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYD-DRDEEWINLEN 530 (1816)
Q Consensus 482 e~LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YD-DGDeE~L~Ls~ 530 (1816)
.+-||-+|...|-.|..||.++|+..+...+.-.|+|+ -|..|.+.|..
T Consensus 68 ~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~~~~V~f~gYgn~e~v~l~d 117 (264)
T PF06003_consen 68 KWKVGDKCMAVYSEDGQYYPATIESIDEEDGTCVVVFTGYGNEEEVNLSD 117 (264)
T ss_dssp ---TT-EEEEE-TTTSSEEEEEEEEEETTTTEEEEEETTTTEEEEEEGGG
T ss_pred CCCCCCEEEEEECCCCCEEEEEEEEEcCCCCEEEEEEcccCCeEeeehhh
Confidence 56699999999999999999999999999999999996 57788888874
No 14
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=73.77 E-value=2.8 Score=54.02 Aligned_cols=36 Identities=31% Similarity=0.464 Sum_probs=26.3
Q ss_pred HHHHHHHHhccCChHHHHHHHHHHHHHHhhhC-CCceee
Q 000234 1496 SNEIEELMAGVGSMEAIKVIYEHWRQKRLKKG-MPLIRH 1533 (1816)
Q Consensus 1496 lDEAeELLkdLgsddVIKAVYEYWKsKRqKkG-~PLLRr 1533 (1816)
++.+.+++. -++.++-+||+||+-||+..+ .|||.+
T Consensus 489 ~~diae~l~--~~e~~vs~iynywklkrks~~n~~lipp 525 (893)
T KOG0954|consen 489 NEDIAELLS--MPEFAVSAIYNYWKLKRKSRFNKELIPP 525 (893)
T ss_pred HHHHHHHhc--CchHHHHHHHHHHHHhhhccCCCcCCCC
Confidence 444445554 256789999999999999988 466643
No 15
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=70.00 E-value=8.2 Score=36.07 Aligned_cols=36 Identities=19% Similarity=0.205 Sum_probs=26.5
Q ss_pred cCceEEEEcCC---CCceEeEEEEEeeCCCCeEEEEccCC
Q 000234 485 LKRRIKVFWPL---DQCWYYGLVDDYDKGKKLHHVKYDDR 521 (1816)
Q Consensus 485 VGrRIrVfWP~---D~~WY~GtVtsYDp~tkkH~V~YDDG 521 (1816)
.|.+|.|.--. ..+||.|+|....... +..|.|+|=
T Consensus 3 ~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~-~~~V~Y~~~ 41 (68)
T PF05641_consen 3 KGDEVEVSSDEDGFRGAWFPATVLKENGDD-KYLVEYDDL 41 (68)
T ss_dssp TT-EEEEEE-SBTT--EEEEEEEEEEETT--EEEEEETT-
T ss_pred CCCEEEEEEcCCCCCcEEEEEEEEEeCCCc-EEEEEECCc
Confidence 58888888766 4599999999999876 999999643
No 16
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=66.79 E-value=12 Score=35.51 Aligned_cols=47 Identities=15% Similarity=0.089 Sum_probs=38.4
Q ss_pred ccccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEc-cCCCceeeecC
Q 000234 482 FWVLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKY-DDRDEEWINLE 529 (1816)
Q Consensus 482 e~LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~Y-DDGDeE~L~Ls 529 (1816)
...+|.-+-+.=+.|..||.|.| ..+...+.-.|.| |-|..+.+...
T Consensus 51 ~~~~~~~~~~~~~~~~~w~Ra~I-~~~~~~~~~~V~~iD~G~~~~v~~~ 98 (121)
T PF00567_consen 51 ESNPGEGCLCVVSEDGRWYRAVI-TVDIDENQYKVFLIDYGNTEKVSAS 98 (121)
T ss_dssp T--TTEEEEEEETTTSEEEEEEE-EEEECTTEEEEEETTTTEEEEEEGG
T ss_pred ccccCCEEEEEEecCCceeeEEE-EEecccceeEEEEEecCceEEEcHH
Confidence 44578888888899999999999 6677778899999 99999997655
No 17
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=66.17 E-value=16 Score=33.08 Aligned_cols=44 Identities=18% Similarity=0.394 Sum_probs=35.2
Q ss_pred cCceEEEEcCCCCceEeEEEEEeeCCC--CeEEEEccCCC---ceeeecC
Q 000234 485 LKRRIKVFWPLDQCWYYGLVDDYDKGK--KLHHVKYDDRD---EEWINLE 529 (1816)
Q Consensus 485 VGrRIrVfWP~D~~WY~GtVtsYDp~t--kkH~V~YDDGD---eE~L~Ls 529 (1816)
||.+|.+.| .+..||.++|..-.... ....|.|..=+ .||+..+
T Consensus 3 vG~~v~~~~-~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nkR~DeWV~~~ 51 (55)
T PF11717_consen 3 VGEKVLCKY-KDGQWYEAKILDIREKNGEPEYYVHYQGWNKRLDEWVPES 51 (55)
T ss_dssp TTEEEEEEE-TTTEEEEEEEEEEEECTTCEEEEEEETTSTGCC-EEEETT
T ss_pred cCCEEEEEE-CCCcEEEEEEEEEEecCCCEEEEEEcCCCCCCceeeecHH
Confidence 899999999 89999999999998865 37889997544 5676543
No 18
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=65.67 E-value=13 Score=38.86 Aligned_cols=42 Identities=19% Similarity=0.279 Sum_probs=36.5
Q ss_pred CceEEEEcCCCCceEeEEEEEeeCCCCeEEEEccCCCceeeec
Q 000234 486 KRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYDDRDEEWINL 528 (1816)
Q Consensus 486 GrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YDDGDeE~L~L 528 (1816)
|.+|=..|+.|.-||.|+|...- ..+...|.+++|+.+.+..
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~-~~~~~lV~f~~~~~~~v~~ 42 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV-SSGQFLVEFDDGDTQEVPI 42 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc-CCCEEEEEECCCCEEEeCh
Confidence 67889999999999999999998 6678899998888777643
No 19
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=61.55 E-value=10 Score=49.81 Aligned_cols=43 Identities=21% Similarity=0.485 Sum_probs=35.4
Q ss_pred cCceEEEEcCC----CCceEeEEEEEeeCCC--------CeEEEEccCCCceeee
Q 000234 485 LKRRIKVFWPL----DQCWYYGLVDDYDKGK--------KLHHVKYDDRDEEWIN 527 (1816)
Q Consensus 485 VGrRIrVfWP~----D~~WY~GtVtsYDp~t--------kkH~V~YDDGDeE~L~ 527 (1816)
.+-+++|||-+ |.+|++|+|.+.-|.. .++.|+||.++.|.+.
T Consensus 981 ~~d~crvwwrda~~e~g~WWeG~ils~~pksp~fpdSpwery~v~~~~~e~~~~s 1035 (1113)
T KOG0644|consen 981 CRDKCRVWWRDAGEEDGAWWEGRILSVKPKSPDFPDSPWERYIVRYDNTETELHS 1035 (1113)
T ss_pred cccceeEEEccCCCcCCceeeeeeeeccCCCCCCCCCcceeEEEEecCCcccccC
Confidence 78899999986 5789999999876653 3899999999776554
No 20
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=56.97 E-value=11 Score=50.70 Aligned_cols=45 Identities=29% Similarity=0.372 Sum_probs=34.1
Q ss_pred ccccCceEEEEcCC-CCceEeEEEEEeeCCCCeEEEEccCCCceeeecCc
Q 000234 482 FWVLKRRIKVFWPL-DQCWYYGLVDDYDKGKKLHHVKYDDRDEEWINLEN 530 (1816)
Q Consensus 482 e~LVGrRIrVfWP~-D~~WY~GtVtsYDp~tkkH~V~YDDGDeE~L~Ls~ 530 (1816)
-.++|+| ++=|. |+.-+.|.+++|| ++..+|+|.||+.|.+.-+.
T Consensus 41 ~s~l~~r--~~~d~~d~~~~~~k~~s~d--~~~~rv~~e~~~~~~~~~s~ 86 (1414)
T KOG1473|consen 41 RSLLGKR--YLKDGDDKKVFLGKIVSYD--TGLYRVKYEDGDVESLEAST 86 (1414)
T ss_pred ccccccc--ccCCccchhhhhccccccc--CcceeEEeeccccccccccc
Confidence 5667766 34443 4567889999999 66799999999999886554
No 21
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=40.31 E-value=38 Score=42.48 Aligned_cols=46 Identities=24% Similarity=0.407 Sum_probs=36.1
Q ss_pred ccCceEEEEcCCCCceEeEEEEEeeCCC------CeEEEEccCCC---ceeeecC
Q 000234 484 VLKRRIKVFWPLDQCWYYGLVDDYDKGK------KLHHVKYDDRD---EEWINLE 529 (1816)
Q Consensus 484 LVGrRIrVfWP~D~~WY~GtVtsYDp~t------kkH~V~YDDGD---eE~L~Ls 529 (1816)
-||.+|.++|..|..||.++|....... .+.-|.|..=+ .|||..+
T Consensus 55 ~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrRlDEWV~~~ 109 (450)
T PLN00104 55 EVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRRLDEWVKLE 109 (450)
T ss_pred ccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCccHhhccCHh
Confidence 3999999999999999999999988632 46888886433 4676543
No 22
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=39.36 E-value=1.4 Score=59.72 Aligned_cols=60 Identities=17% Similarity=-0.037 Sum_probs=52.7
Q ss_pred CccccCceEEEEcCCCCceEeE-EEEEeeCCCCeEEEEccCCCceeeecCcccEEEEeCCC
Q 000234 481 GFWVLKRRIKVFWPLDQCWYYG-LVDDYDKGKKLHHVKYDDRDEEWINLENERFKLLLLPS 540 (1816)
Q Consensus 481 pe~LVGrRIrVfWP~D~~WY~G-tVtsYDp~tkkH~V~YDDGDeE~L~Ls~EK~ewL~spg 540 (1816)
..++||.++..|||.|..+|.| .|..|+-....|.+.|++++++..++....|+.+....
T Consensus 985 ~~e~V~~~~~~~la~d~~~~~~edv~~l~~~ke~~~~vl~~l~~~~~n~~~~~~~~~~~~~ 1045 (1266)
T KOG1525|consen 985 LPEYVGSYVIHLLAHDPDFVKAEDVDSLSDLKECLWFVLEDLDEENENNQHKFWKREKEEI 1045 (1266)
T ss_pred hhHHhhhhhhhhhccCccccccchhhhHHHHHHhHHHHHhhhhhhhccchhHHHHHHHhhh
Confidence 4789999999999999999999 77778888889999999999999999988877765533
No 23
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=34.82 E-value=24 Score=36.48 Aligned_cols=27 Identities=26% Similarity=0.632 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhhhCCCceeeccc
Q 000234 1510 EAIKVIYEHWRQKRLKKGMPLIRHLQP 1536 (1816)
Q Consensus 1510 dVIKAVYEYWKsKRqKkG~PLLRrLQP 1536 (1816)
...+++|+||.++|...+.|.-.-|.|
T Consensus 4 ~~~~~l~~yW~~~r~~~~~P~R~didP 30 (137)
T PF07310_consen 4 PSLRALLAYWRSLRGGRGMPSRSDIDP 30 (137)
T ss_pred hHHHHHHHHHHHhcCCCCCCchhcCCH
Confidence 467899999999999888899889988
No 24
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=32.43 E-value=82 Score=33.87 Aligned_cols=40 Identities=20% Similarity=0.291 Sum_probs=32.7
Q ss_pred CCceEeEEEEEeeCCCCeEEEEccCCCceeeecCcccEEEEeC
Q 000234 496 DQCWYYGLVDDYDKGKKLHHVKYDDRDEEWINLENERFKLLLL 538 (1816)
Q Consensus 496 D~~WY~GtVtsYDp~tkkH~V~YDDGDeE~L~Ls~EK~ewL~s 538 (1816)
+..||+|++.+.+....+..|+++||. ..+.++.++.|+.
T Consensus 21 ~~~yYPa~~~~~~~~~~~~~V~Fedg~---~~i~~~dv~~LDl 60 (131)
T PF08605_consen 21 NLKYYPATCVGSGVDRDRSLVRFEDGT---YEIKNEDVKYLDL 60 (131)
T ss_pred CCeEeeEEEEeecCCCCeEEEEEecCc---eEeCcccEeeeee
Confidence 789999999999888778999999999 4455566777754
No 25
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=30.36 E-value=52 Score=38.57 Aligned_cols=41 Identities=7% Similarity=0.152 Sum_probs=34.5
Q ss_pred ccccCceEEEEcCCCCceEeEEEEEeeCCCCeEEEEcc-CCC
Q 000234 482 FWVLKRRIKVFWPLDQCWYYGLVDDYDKGKKLHHVKYD-DRD 522 (1816)
Q Consensus 482 e~LVGrRIrVfWP~D~~WY~GtVtsYDp~tkkH~V~YD-DGD 522 (1816)
..=||.+|.+-|++|..||..+|....+..+.-.|.++ -|.
T Consensus 90 ~w~vg~K~~A~~~ddg~~y~AtIe~ita~~~~~ai~f~s~~~ 131 (262)
T KOG3026|consen 90 GWKVGDKVQAVFSDDGQIYDATIEHITAMEGTVAIIFASYGT 131 (262)
T ss_pred ccccCCEEEEeecCCCceEEeehhhccCCCCceeEEEeeccc
Confidence 35599999999999999999999999997777777664 444
No 26
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=29.36 E-value=1.4e+02 Score=31.71 Aligned_cols=62 Identities=16% Similarity=0.265 Sum_probs=39.9
Q ss_pred CccccccceEEecc---CCCCC--ccccCceEEEEcCCCCceEeEEEEEeeC-CCCeEEEEccCCCce
Q 000234 463 GHSRKRRHYYEIFS---GDLDG--FWVLKRRIKVFWPLDQCWYYGLVDDYDK-GKKLHHVKYDDRDEE 524 (1816)
Q Consensus 463 g~~R~rk~~~el~~---~dvDp--e~LVGrRIrVfWP~D~~WY~GtVtsYDp-~tkkH~V~YDDGDeE 524 (1816)
.-.-+++++..|+. ...++ .--.|.+|-=.||.--+||.|+|.+--. ..+...|.++|-+.+
T Consensus 47 ~~~~~~~~iIPLP~~~~~~~~~~~~f~~g~~VLAlYP~TT~FY~A~V~~~p~~~~~~y~l~Fedd~~~ 114 (130)
T PF07039_consen 47 RYKLSRKQIIPLPKKAPPDTDPLAEFPKGTKVLALYPDTTCFYPATVVSPPKKKSGEYKLKFEDDEDA 114 (130)
T ss_dssp EEEEEGGGEEEE-SB--TTT-GGGS--TT-EEEEE-TTSSEEEEEEEEEE-SSTTS-EEEEECTTTST
T ss_pred eEEeCHHHEEECCCccCCCCCchhhCCCCCEEEEECCCCceEEEEEEEeCCCCCCCcEEEEEeCCCCc
Confidence 44556777887776 11111 2239999999999999999999999833 456888888765543
No 27
>CHL00204 ycf1 Ycf1; Provisional
Probab=26.76 E-value=44 Score=47.39 Aligned_cols=25 Identities=16% Similarity=0.541 Sum_probs=20.5
Q ss_pred hhhhhHHHHHHHHhhcCeEeeecce
Q 000234 781 EAENLWLVHEVFLLHYGKLITMWPS 805 (1816)
Q Consensus 781 ~a~~~Wl~~~~~ll~~G~l~t~WP~ 805 (1816)
.+...||..-+|+.....||-.|-+
T Consensus 165 SsfvGWLiGhIlfmk~~gLvlvwI~ 189 (1832)
T CHL00204 165 SSFVGWLIGHILFMKWVGLVLVWIQ 189 (1832)
T ss_pred HHHHHHHHHHHHHHHHHHHheeeee
Confidence 4567899999998888888888865
No 28
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=24.94 E-value=1.2e+02 Score=32.82 Aligned_cols=57 Identities=23% Similarity=0.348 Sum_probs=38.8
Q ss_pred HHHHHHHhcCCccccCCCCCCCHHHHHHHHHHHHhhhhccCCCCCCHHHHHHHHhccCC-hHHHHHHH
Q 000234 1450 EQWLLKIRSSSEADDCGLSEISEEIFEKIIDIFEKAAYSQQRDQFTSNEIEELMAGVGS-MEAIKVIY 1516 (1816)
Q Consensus 1450 EEWLeq~NkkrkrkndG~~qLSEDdFEkMMDRLEKeSy~qqqdvlTlDEAeELLkdLgs-ddVIKAVY 1516 (1816)
++||+++.+.-+ .+++++.|.+|+-+|..-.....+-.|.+|+ +.++|+ ++++++|.
T Consensus 4 ~efL~~L~~~L~-------~lp~~e~~e~l~~Y~e~f~d~~~~G~sEeei---i~~LG~P~~iA~~i~ 61 (181)
T PF08006_consen 4 NEFLNELEKYLK-------KLPEEEREEILEYYEEYFDDAGEEGKSEEEI---IAELGSPKEIAREIL 61 (181)
T ss_pred HHHHHHHHHHHH-------cCCHHHHHHHHHHHHHHHHHhhhCCCCHHHH---HHHcCCHHHHHHHHH
Confidence 579999987554 5999999999999998764433222345555 445554 45666665
No 29
>PF05758 Ycf1: Ycf1; InterPro: IPR008896 The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene [].
Probab=20.88 E-value=47 Score=44.81 Aligned_cols=60 Identities=12% Similarity=0.238 Sum_probs=36.6
Q ss_pred hhhhhHHHHHHHHhhcCeEeeecceeEEEEEEeecccchhhhhHHHHHHHHHHHHHhhhhhc
Q 000234 781 EAENLWLVHEVFLLHYGKLITMWPSVQLEMLFVDNVVGLRYFLFEDCLKQAVGYVFLVLSLF 842 (1816)
Q Consensus 781 ~a~~~Wl~~~~~ll~~G~l~t~WP~V~LemLfvdn~~GLr~llfE~cL~~av~~~~~vl~~f 842 (1816)
.+...||..-+|+..--.++-.|-.-.--|.-. .---+||+-+-+--+|-.|..+|...+
T Consensus 151 Ssf~GWliG~ilf~k~~~lv~~~i~~~~~i~~~--~~~~kyl~~~~~~~~~~~f~i~~f~~~ 210 (929)
T PF05758_consen 151 SSFVGWLIGHILFMKWVKLVLVWIEQNSSIRSN--IRSNKYLVSRLINSMARIFSIILFITC 210 (929)
T ss_pred HHHHHHHHHHHHHHHHHHHhEEEEecCCccccc--cchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345689999998888877877775543333222 222367777777666655554444433
Done!