Query psy8979
Match_columns 142
No_of_seqs 48 out of 50
Neff 3.4
Searched_HMMs 46136
Date Sat Aug 17 00:34:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8979.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8979hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0577|consensus 100.0 2.3E-40 5.1E-45 305.3 13.4 136 2-142 813-948 (948)
2 PF03763 Remorin_C: Remorin, C 94.5 1.5 3.3E-05 32.9 12.0 84 3-90 8-91 (111)
3 PF11932 DUF3450: Protein of u 92.3 3.8 8.1E-05 33.4 11.5 86 10-96 52-162 (251)
4 cd07666 BAR_SNX7 The Bin/Amphi 87.4 6.9 0.00015 33.0 9.5 65 15-84 157-221 (243)
5 PF09731 Mitofilin: Mitochondr 86.3 25 0.00054 31.8 13.6 61 24-84 322-383 (582)
6 PF09731 Mitofilin: Mitochondr 79.6 48 0.001 30.0 12.9 84 6-89 269-357 (582)
7 KOG1265|consensus 68.7 98 0.0021 31.9 12.0 84 5-95 1073-1165(1189)
8 PF07544 Med9: RNA polymerase 68.3 11 0.00025 26.5 4.3 29 5-33 54-82 (83)
9 cd07622 BAR_SNX4 The Bin/Amphi 58.6 97 0.0021 25.1 8.8 57 15-82 116-175 (201)
10 PF07324 DGCR6: DiGeorge syndr 56.0 85 0.0018 26.1 7.9 28 39-66 118-145 (196)
11 PRK10381 LPS O-antigen length 54.3 1.2E+02 0.0026 26.8 9.0 58 23-83 185-242 (377)
12 PF06428 Sec2p: GDP/GTP exchan 51.4 98 0.0021 22.9 7.2 53 6-64 7-61 (100)
13 PF12474 PKK: Polo kinase kina 45.7 1.2E+02 0.0026 23.6 6.9 45 9-53 14-58 (142)
14 PF09730 BicD: Microtubule-ass 45.0 1.7E+02 0.0038 28.6 9.2 58 43-106 128-196 (717)
15 KOG2606|consensus 44.0 1.6E+02 0.0034 26.3 8.0 58 35-93 15-73 (302)
16 PF07798 DUF1640: Protein of u 43.0 1.6E+02 0.0035 23.0 9.2 16 54-69 127-142 (177)
17 KOG4661|consensus 38.8 2.5E+02 0.0054 28.0 9.1 29 35-63 637-665 (940)
18 KOG3634|consensus 38.6 3.1E+02 0.0068 25.1 9.9 44 13-57 93-136 (361)
19 PF14988 DUF4515: Domain of un 35.3 2.5E+02 0.0054 23.0 11.9 75 9-88 56-138 (206)
20 PF07324 DGCR6: DiGeorge syndr 34.3 2.8E+02 0.006 23.2 8.7 62 34-95 66-141 (196)
21 PRK11020 hypothetical protein; 34.0 2.3E+02 0.005 22.2 8.2 22 35-56 30-51 (118)
22 cd07643 I-BAR_IMD_MIM Inverse 31.6 3.3E+02 0.0073 23.3 8.3 18 45-62 167-186 (231)
23 PF08289 Flu_M1_C: Influenza M 31.1 46 0.00099 25.0 2.4 16 23-38 77-92 (95)
24 KOG4661|consensus 29.6 3E+02 0.0066 27.4 8.1 21 32-52 619-639 (940)
25 COG2433 Uncharacterized conser 28.1 5.9E+02 0.013 25.1 11.7 49 17-65 446-497 (652)
26 PRK15471 chain length determin 26.9 4.3E+02 0.0093 23.0 9.0 58 23-83 145-202 (325)
27 PF13864 Enkurin: Calmodulin-b 26.6 2.4E+02 0.0052 20.0 7.4 45 9-53 39-91 (98)
28 KOG1265|consensus 26.3 7.7E+02 0.017 25.8 11.0 40 13-52 1059-1098(1189)
29 PF07544 Med9: RNA polymerase 25.6 1.3E+02 0.0027 21.1 3.8 47 13-61 31-77 (83)
30 PF10454 DUF2458: Protein of u 25.3 3.4E+02 0.0073 21.3 6.6 66 28-96 24-99 (150)
31 PF11079 YqhG: Bacterial prote 25.2 1.5E+02 0.0033 25.8 4.8 36 13-49 205-240 (260)
32 TIGR00570 cdk7 CDK-activating 24.9 4.9E+02 0.011 23.1 9.0 20 42-61 167-186 (309)
33 COG3765 WzzB Chain length dete 24.6 2.3E+02 0.005 25.7 6.0 40 45-84 186-225 (347)
34 PF10393 Matrilin_ccoil: Trime 24.1 2.2E+02 0.0047 18.7 5.2 34 25-63 13-46 (47)
35 PF08703 PLC-beta_C: PLC-beta 23.7 4.2E+02 0.0091 21.8 13.3 81 16-96 40-143 (185)
36 PF07956 DUF1690: Protein of U 22.6 3.1E+02 0.0067 21.3 5.7 48 39-86 78-125 (142)
37 PHA02590 hypothetical protein; 22.4 1.1E+02 0.0023 23.5 3.0 26 53-78 26-51 (105)
38 PF07352 Phage_Mu_Gam: Bacteri 22.0 3.6E+02 0.0077 20.4 5.9 68 41-108 15-83 (149)
39 PF12443 AKNA: AT-hook-contain 21.8 1.1E+02 0.0024 23.3 3.0 26 9-34 51-76 (106)
40 KOG3612|consensus 21.4 7.7E+02 0.017 24.0 9.2 39 13-51 459-501 (588)
41 TIGR03319 YmdA_YtgF conserved 20.5 6.9E+02 0.015 23.2 12.5 20 44-63 77-96 (514)
42 KOG1029|consensus 20.3 5.1E+02 0.011 26.7 7.8 10 36-45 335-344 (1118)
43 PF13397 DUF4109: Domain of un 20.0 1E+02 0.0022 23.5 2.5 22 58-79 84-105 (105)
No 1
>KOG0577|consensus
Probab=100.00 E-value=2.3e-40 Score=305.29 Aligned_cols=136 Identities=55% Similarity=0.793 Sum_probs=128.1
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHH
Q psy8979 2 IRLDESQEVECHHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLL 81 (142)
Q Consensus 2 ~rLde~Qe~E~~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L 81 (142)
+||||||++||++|+++|+||||+|+|||+|+||++++||+||+++||+||++|||+|||||++|+.+|+++|++||+.|
T Consensus 813 lklde~qe~E~q~l~~ql~qEle~l~ayq~k~k~~~e~q~~re~~ele~rvslrra~lEqkieeE~~~~~~~Rserir~l 892 (948)
T KOG0577|consen 813 LKLDEAQEAECQVLREQLEQELELLNAYQSKIKMQAEEQHERELRELEQRVSLRRALLEQKIEEELAQLQTERSERIRSL 892 (948)
T ss_pred eechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhcccchHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhhhhccchhHHhhhccCCCCCCCCCCCcccccccccCCCCCCCCCCCC
Q psy8979 82 HERQERELESFDQESNRMGFSALAIAEASKESYPDMDGSLSGSMLSLNHSNSCNSFPEGSL 142 (142)
Q Consensus 82 ~eRq~rEle~FD~es~rlGfs~l~~~~~s~e~~~~~~~s~sgs~~s~~~~~~~~~~~~~~~ 142 (142)
++||++||++||++|+++||++++++++|+++|.+..+|+.+++.|+.+++ |+|++
T Consensus 893 ~er~~~e~e~fd~es~r~Gfss~~~~~i~~ea~~~~~~s~~~~~~s~~~~~-----p~g~~ 948 (948)
T KOG0577|consen 893 LERHAREIEAFDNESLRLGFSSLSLGGIPPEAYASSEGSIAMAMPSLHWSH-----PAGSP 948 (948)
T ss_pred hhhhHHHHhhhhhHHHHhcccchhhcCCChhhhccCCCCccccCCCccccC-----CCCCC
Confidence 999999999999999999999999999999999887677777776655554 77763
No 2
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=94.47 E-value=1.5 Score=32.87 Aligned_cols=84 Identities=21% Similarity=0.307 Sum_probs=70.3
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHH
Q psy8979 3 RLDESQEVECHHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLH 82 (142)
Q Consensus 3 rLde~Qe~E~~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~ 82 (142)
+.+.|.++|.-....+.+.+..-.+++-+.+|+.++++- +.+|.++.-.|+...+||...+...+.--.++.-...
T Consensus 8 ~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m----~k~E~klEkkra~a~ek~~nkia~~~~~Aee~Ra~ae 83 (111)
T PF03763_consen 8 KADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEM----RKIEEKLEKKRAKALEKMKNKIARAHKKAEEKRAAAE 83 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468899999999999999999999999999998887764 5567777778999999999999988877777777777
Q ss_pred HHHHHHHH
Q psy8979 83 ERQERELE 90 (142)
Q Consensus 83 eRq~rEle 90 (142)
.++..++-
T Consensus 84 a~r~~~~~ 91 (111)
T PF03763_consen 84 ARRGEEIA 91 (111)
T ss_pred HHHhhHHH
Confidence 77665554
No 3
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=92.32 E-value=3.8 Score=33.44 Aligned_cols=86 Identities=30% Similarity=0.343 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHhhHHHHHH--------HHhHHH
Q psy8979 10 VECHHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRA------LLEQKMDMETQQ--------FLGERQ 75 (142)
Q Consensus 10 ~E~~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRa------lLEqkieeE~~~--------lq~eR~ 75 (142)
.+...--++|..|++-|.+|..+...++.+| +.++.+|++++.-... =+..+|...+.. +..+|.
T Consensus 52 ~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q-~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~Pf~~~eR~ 130 (251)
T PF11932_consen 52 QELLAEYRQLEREIENLEVYNEQLERQVASQ-EQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDLPFLLEERQ 130 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHH
Confidence 3444555678999999999999999988866 4678888888765543 244567777776 345788
Q ss_pred HHHHHHHH-----------HHHHHHHHhhhhh
Q psy8979 76 ERIRLLHE-----------RQERELESFDQES 96 (142)
Q Consensus 76 erir~L~e-----------Rq~rEle~FD~es 96 (142)
+|+..|.. +=.+=+++|..|.
T Consensus 131 ~Rl~~L~~~l~~~dv~~~ek~r~vlea~~~E~ 162 (251)
T PF11932_consen 131 ERLARLRAMLDDADVSLAEKFRRVLEAYQIEM 162 (251)
T ss_pred HHHHHHHHhhhccCCCHHHHHHHHHHHHHHHH
Confidence 88877653 4455666666554
No 4
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=87.39 E-value=6.9 Score=33.03 Aligned_cols=65 Identities=15% Similarity=0.242 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHH
Q psy8979 15 LKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHER 84 (142)
Q Consensus 15 L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~eR 84 (142)
-|+++|.+++.+-.|-.|.+.+- .+-..|..+||+||.-= ...|..|..+|++.|..-.+...-.
T Consensus 157 ~R~~~Q~~le~k~e~l~k~~~dr-~~~~~ev~~~e~kve~a----~~~~k~e~~Rf~~~k~~D~k~~~~~ 221 (243)
T cd07666 157 RRDQIQAELDSKVEALANKKADR-DLLKEEIEKLEDKVECA----NNALKADWERWKQNMQTDLRSAFTD 221 (243)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhH-HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999988765 58888999999998643 5568899999999998777766544
No 5
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=86.35 E-value=25 Score=31.77 Aligned_cols=61 Identities=18% Similarity=0.295 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH-HHHhHHHHHHHHHHHH
Q psy8979 24 EILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQ-QFLGERQERIRLLHER 84 (142)
Q Consensus 24 ElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~-~lq~eR~erir~L~eR 84 (142)
++-..|..+.+.+++.|.+-=...|++-|...+..|..+-..++. .+.+||..|+..|-+=
T Consensus 322 ~l~~~~~~~L~~eL~~~~~~~~~~l~~~l~~~~~e~~~~~~~~i~~~v~~Er~~~~~~l~~~ 383 (582)
T PF09731_consen 322 ELEEKYEEELRQELKRQEEAHEEHLKNELREQAIELQREFEKEIKEKVEQERNGRLAKLAEL 383 (582)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355667777777777777777777777777777766555444432 5566666666666544
No 6
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=79.61 E-value=48 Score=30.02 Aligned_cols=84 Identities=23% Similarity=0.264 Sum_probs=41.7
Q ss_pred hhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhhHHHHHHHHhHHHHHHHH
Q psy8979 6 ESQEVECHHLKERLHYEL-EILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALL----EQKMDMETQQFLGERQERIRL 80 (142)
Q Consensus 6 e~Qe~E~~~L~~qLqqEl-ElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalL----EqkieeE~~~lq~eR~erir~ 80 (142)
+-+..+...++..|.+-- +++..|..+..+.++.+..++...+.....--++-| +.++..++.+-.+.-.++++.
T Consensus 269 ~l~~~~~~~l~~~L~~q~~e~~~~~~~~~~~~le~~~~~~~~~~~~e~~~~~~~l~~~~~~~L~~eL~~~~~~~~~~l~~ 348 (582)
T PF09731_consen 269 ELKEEEEEELERALEEQREELLSKLREELEQELEEKRAELEEELREEFEREREELEEKYEEELRQELKRQEEAHEEHLKN 348 (582)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555554333 447777777777766554444444444433333333 344444444444444455555
Q ss_pred HHHHHHHHH
Q psy8979 81 LHERQEREL 89 (142)
Q Consensus 81 L~eRq~rEl 89 (142)
-...|..|+
T Consensus 349 ~l~~~~~e~ 357 (582)
T PF09731_consen 349 ELREQAIEL 357 (582)
T ss_pred HHHHHHHHH
Confidence 544444444
No 7
>KOG1265|consensus
Probab=68.68 E-value=98 Score=31.86 Aligned_cols=84 Identities=25% Similarity=0.346 Sum_probs=42.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHH
Q psy8979 5 DESQEVECHHLKERLHYELEILMAYQSKNKM---------QAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQ 75 (142)
Q Consensus 5 de~Qe~E~~~L~~qLqqElElL~aYQsK~k~---------q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~ 75 (142)
.++|..+.++||..+.+|-.-|.+-+.|.+| ..+++.+|+.+++..++- ++.-++..+|..--.
T Consensus 1073 ~eaq~~Q~k~LK~~~e~e~kElk~~l~kkr~e~ik~~~~~kdK~e~er~~rE~n~s~i-------~~~V~e~krL~~~~~ 1145 (1189)
T KOG1265|consen 1073 SEAQTNQTKALKESLEKETKELKKKLDKKRMEDIKVDKVIKDKAERERRKRELNSSNI-------KEFVEERKRLAEKQS 1145 (1189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence 4566666666666666666666665555433 223444455555443321 112223334444444
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q psy8979 76 ERIRLLHERQERELESFDQE 95 (142)
Q Consensus 76 erir~L~eRq~rEle~FD~e 95 (142)
.|...|.++|..-++..+.+
T Consensus 1146 k~~e~L~k~~~~~leql~e~ 1165 (1189)
T KOG1265|consen 1146 KRQEQLVKKHLEVLEQLAEE 1165 (1189)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 55555666665555554444
No 8
>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=68.33 E-value=11 Score=26.46 Aligned_cols=29 Identities=28% Similarity=0.413 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 5 DESQEVECHHLKERLHYELEILMAYQSKN 33 (142)
Q Consensus 5 de~Qe~E~~~L~~qLqqElElL~aYQsK~ 33 (142)
-+.|+.+.+.|++++..--++|..|.++.
T Consensus 54 ~eeq~~~i~~Le~~i~~k~~~L~~~~~~~ 82 (83)
T PF07544_consen 54 VEEQEEEIEELEEQIRKKREVLQKFKERV 82 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 36788999999999999999999998764
No 9
>cd07622 BAR_SNX4 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 4. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX4 is involved in recycling traffic from the sorting endosome (post-Golgi endosome) back to the late Golgi. It is also implicated in the regulation of plasma membrane receptor trafficking and interacts with receptors for EGF, insulin, platelet-derived growth factor and leptin. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and
Probab=58.61 E-value=97 Score=25.06 Aligned_cols=57 Identities=21% Similarity=0.234 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhhHHHHHHHHhHHHHHHHHHH
Q psy8979 15 LKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALL---EQKMDMETQQFLGERQERIRLLH 82 (142)
Q Consensus 15 L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalL---EqkieeE~~~lq~eR~erir~L~ 82 (142)
-+++.|.+.|.+.+|=++.+.+ |+.-|..-+.-. .+++..|...|+..+..=.+..+
T Consensus 116 ~r~~~q~~~e~~~~~L~~k~~~-----------l~~~ve~a~~~~e~f~~~~~~E~~rF~~~K~~dlk~~l 175 (201)
T cd07622 116 KHELLQYDLEKAEDALANKKQQ-----------GEEAVKEAKDELNEFVKKALEDVERFKKQKVRDLKEIL 175 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667788888888887777554 444444444433 34788888888887775555443
No 10
>PF07324 DGCR6: DiGeorge syndrome critical region 6 (DGCR6) protein; InterPro: IPR010849 This family contains DiGeorge syndrome critical region 6 (DGCR6) proteins (approximately 200 residues long) of a number of vertebrates. DGCR6 is a candidate for involvement in the DiGeorge syndrome pathology by playing a role in neural crest cell migration into the third and fourth pharyngeal pouches, the structures from which derive the organs affected in DiGeorge syndrome []. Also found in this family is the Drosophila melanogaster gonadal protein gdl.
Probab=56.05 E-value=85 Score=26.15 Aligned_cols=28 Identities=25% Similarity=0.463 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q psy8979 39 AQRNRERKELEDRVSVRRALLEQKMDME 66 (142)
Q Consensus 39 aQheRE~~~LeeRVs~RRalLEqkieeE 66 (142)
+.|.+|++.|++|+.---.-++.||-.+
T Consensus 118 ~~~~~e~~~l~~r~~eEl~~~D~kivle 145 (196)
T PF07324_consen 118 TKHEKELEELEKRIKEELRQMDKKIVLE 145 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444433333333333333
No 11
>PRK10381 LPS O-antigen length regulator; Provisional
Probab=54.30 E-value=1.2e+02 Score=26.79 Aligned_cols=58 Identities=10% Similarity=0.227 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHH
Q psy8979 23 LEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHE 83 (142)
Q Consensus 23 lElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~e 83 (142)
.++|+.|=.-...++-.+-.. ++...|.+|...+.+++.-+....++.|..||..|.+
T Consensus 185 ~~lL~~YI~fv~~~~~~~l~~---~i~~~~~~k~~~~~~~~~~~~~~ak~~~~~~i~rl~~ 242 (377)
T PRK10381 185 QDVLSGYINYISTIVVKEVLE---NIRNKLEIKTQFEKEKLAMDRIKLKNQLDANIQRLNY 242 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468888877777776666544 4567999999999999999999999999999988765
No 12
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=51.43 E-value=98 Score=22.94 Aligned_cols=53 Identities=36% Similarity=0.540 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q psy8979 6 ESQEVECHHLKERLHYELEILMA--YQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMD 64 (142)
Q Consensus 6 e~Qe~E~~~L~~qLqqElElL~a--YQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkie 64 (142)
..+..+...-+.++.+|||-|+| |+.-++|...+..+ +..++.|+ ..|+..+.
T Consensus 7 ~~~r~~ae~~~~~ie~ElEeLTasLFeEAN~MVa~ar~e--~~~~e~k~----~~le~~l~ 61 (100)
T PF06428_consen 7 RERREEAEQEKEQIESELEELTASLFEEANKMVADARRE--RAALEEKN----EQLEKQLK 61 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH----HHHHHCTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH----HHHHHHHH
Confidence 34566778889999999999998 89999999777654 44454444 44554443
No 13
>PF12474 PKK: Polo kinase kinase ; InterPro: IPR022165 This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00069 from PFAM. Polo-like kinase 1 (Plx1) is essential during mitosis for the activation of Cdc25C, for spindle assembly, and for cyclin B degradation. This family is Polo kinase kinase (PKK) which phosphorylates Polo kinase and Polo-like kinase to activate them. PKK is a serine/threonine kinase. ; GO: 0004674 protein serine/threonine kinase activity
Probab=45.68 E-value=1.2e+02 Score=23.57 Aligned_cols=45 Identities=33% Similarity=0.426 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 9 EVECHHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVS 53 (142)
Q Consensus 9 e~E~~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs 53 (142)
+.|...|..+-..|||-|.-||...--.++..|.-+++.+--||-
T Consensus 14 ~~e~~~l~k~~d~ElE~l~r~qk~~iE~le~~q~~e~r~~~KriR 58 (142)
T PF12474_consen 14 EQERTQLKKRYDKELEQLERQQKQQIEKLEQRQTQERRRLPKRIR 58 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788889999999999999999999999999999988877763
No 14
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=44.96 E-value=1.7e+02 Score=28.64 Aligned_cols=58 Identities=28% Similarity=0.427 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHH----------HHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHh-hhhhhhccchhHHh
Q psy8979 43 RERKELEDRVSVRRA----------LLEQKMDMETQQFLGERQERIRLLHERQERELESF-DQESNRMGFSALAI 106 (142)
Q Consensus 43 RE~~~LeeRVs~RRa----------lLEqkieeE~~~lq~eR~erir~L~eRq~rEle~F-D~es~rlGfs~l~~ 106 (142)
-|.+.|++=+.+-++ +.|..++|-+.+|+.||-.|... .+|+..+ ..++ ...|+++.+
T Consensus 128 hei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReqk~~L-----rkEL~~~~~~~~-~~~~~~~~~ 196 (717)
T PF09730_consen 128 HEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQKNAL-----RKELDQHLNIES-ISYLSNLAI 196 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhcCccc-cccccchhh
Confidence 455555555554433 66777899999999999877543 4566653 3333 234455544
No 15
>KOG2606|consensus
Probab=43.95 E-value=1.6e+02 Score=26.31 Aligned_cols=58 Identities=21% Similarity=0.346 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhh
Q psy8979 35 MQAEAQRNRERKELEDRVSVRR-ALLEQKMDMETQQFLGERQERIRLLHERQERELESFD 93 (142)
Q Consensus 35 ~q~eaQheRE~~~LeeRVs~RR-alLEqkieeE~~~lq~eR~erir~L~eRq~rEle~FD 93 (142)
..+-+-|.+|+++|--+|..-+ +.=.-. ..-..++...++.--..|..+|..||+.++
T Consensus 15 e~iLaRHr~E~keLq~ki~~mKk~a~k~~-k~~rK~~~~~~~~le~el~qkH~kEL~~~~ 73 (302)
T KOG2606|consen 15 EEILARHRRERKELQAKITSMKKAAPKGN-KKKRKELTEDIAKLEKELSQKHKKELEKLK 73 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHhHHHHHHHHHHHhhc
Confidence 4556788899999988886433 322222 334455666666667778899999999775
No 16
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=43.05 E-value=1.6e+02 Score=22.98 Aligned_cols=16 Identities=25% Similarity=0.376 Sum_probs=8.3
Q ss_pred HHHHHHHHhhHHHHHH
Q psy8979 54 VRRALLEQKMDMETQQ 69 (142)
Q Consensus 54 ~RRalLEqkieeE~~~ 69 (142)
.+-..+..||..+...
T Consensus 127 ~ki~e~~~ki~~ei~~ 142 (177)
T PF07798_consen 127 LKIQELNNKIDTEIAN 142 (177)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3345555666555543
No 17
>KOG4661|consensus
Probab=38.76 E-value=2.5e+02 Score=28.00 Aligned_cols=29 Identities=21% Similarity=0.166 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8979 35 MQAEAQRNRERKELEDRVSVRRALLEQKM 63 (142)
Q Consensus 35 ~q~eaQheRE~~~LeeRVs~RRalLEqki 63 (142)
..++++++||+.+-.++--+|-+.--||+
T Consensus 637 qR~~a~~ERee~eRl~~erlrle~qRQrL 665 (940)
T KOG4661|consen 637 QRRKAAVEREELERLKAERLRLERQRQRL 665 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566655555544444444333333
No 18
>KOG3634|consensus
Probab=38.60 E-value=3.1e+02 Score=25.05 Aligned_cols=44 Identities=30% Similarity=0.328 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 13 HHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRA 57 (142)
Q Consensus 13 ~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRa 57 (142)
...+.+-.+||..|.+-|.+-+. .-.+-++++-.+-.++.-||+
T Consensus 93 ~~~rer~E~eL~eLkekq~~r~~-eR~~eE~e~~~rkr~~e~RR~ 136 (361)
T KOG3634|consen 93 RIEREREEKELKELKEKQEKRKL-EREEEEEELAERKRRIEERRR 136 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HhhhcHHHHHHHHhhHHhhhh
Confidence 45677888899999888887776 223334444444444444444
No 19
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=35.33 E-value=2.5e+02 Score=22.98 Aligned_cols=75 Identities=25% Similarity=0.323 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHhhHHHHHHHHhHH-HHHHHH
Q psy8979 9 EVECHHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRA-------LLEQKMDMETQQFLGER-QERIRL 80 (142)
Q Consensus 9 e~E~~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRa-------lLEqkieeE~~~lq~eR-~erir~ 80 (142)
-.+-......|+++|..|..|+.. ..+.++|++.|++-+-.-++ -++-+..+|-..|+++= ..++..
T Consensus 56 Llq~~k~~~~l~~eLq~l~~~~~~-----k~~qe~eI~~Le~e~~~~~~e~~~~l~~~~~qfl~EK~~LEke~~e~~i~~ 130 (206)
T PF14988_consen 56 LLQKEKEQAKLQQELQALKEFRRL-----KEQQEREIQTLEEELEKMRAEHAEKLQEAESQFLQEKARLEKEASELKILQ 130 (206)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 344455566788888888888765 56677888888776655444 33444455555555554 445666
Q ss_pred HHHHHHHH
Q psy8979 81 LHERQERE 88 (142)
Q Consensus 81 L~eRq~rE 88 (142)
+-++-.++
T Consensus 131 l~e~a~~e 138 (206)
T PF14988_consen 131 LGERAHKE 138 (206)
T ss_pred hHHHhhHH
Confidence 66666666
No 20
>PF07324 DGCR6: DiGeorge syndrome critical region 6 (DGCR6) protein; InterPro: IPR010849 This family contains DiGeorge syndrome critical region 6 (DGCR6) proteins (approximately 200 residues long) of a number of vertebrates. DGCR6 is a candidate for involvement in the DiGeorge syndrome pathology by playing a role in neural crest cell migration into the third and fourth pharyngeal pouches, the structures from which derive the organs affected in DiGeorge syndrome []. Also found in this family is the Drosophila melanogaster gonadal protein gdl.
Probab=34.25 E-value=2.8e+02 Score=23.16 Aligned_cols=62 Identities=26% Similarity=0.340 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH------HHHHHHHhhHHHHH--------HHHhHHHHHHHHHHHHHHHHHHHhhhh
Q psy8979 34 KMQAEAQRNRERKELEDRVSV------RRALLEQKMDMETQ--------QFLGERQERIRLLHERQERELESFDQE 95 (142)
Q Consensus 34 k~q~eaQheRE~~~LeeRVs~------RRalLEqkieeE~~--------~lq~eR~erir~L~eRq~rEle~FD~e 95 (142)
+-=.+-||-.|+.-+.+|..+ ++.-|-+|..++.. .++..-.+-++.+..|...|+..||..
T Consensus 66 ~~L~eiQ~~~Ek~L~~qR~~L~~~h~~e~~~l~~k~~~~~~~~~~h~l~~lk~~~~~e~~~l~~r~~eEl~~~D~k 141 (196)
T PF07324_consen 66 KGLLEIQHLTEKNLLQQRLKLLNEHKIEKQELRQKHKEEQQACKPHNLPLLKTKHEKELEELEKRIKEELRQMDKK 141 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444677888888887777765 33333444333322 223333344445666777777778863
No 21
>PRK11020 hypothetical protein; Provisional
Probab=33.99 E-value=2.3e+02 Score=22.16 Aligned_cols=22 Identities=23% Similarity=0.299 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy8979 35 MQAEAQRNRERKELEDRVSVRR 56 (142)
Q Consensus 35 ~q~eaQheRE~~~LeeRVs~RR 56 (142)
.-+=+|+.+|...|+-+|+.=+
T Consensus 30 ~~~i~qf~~E~~~l~k~I~~lk 51 (118)
T PRK11020 30 AEKYAQFEKEKATLEAEIARLK 51 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445677777777766665433
No 22
>cd07643 I-BAR_IMD_MIM Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Missing In Metastasis. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. Members of this subfamily include missing in metastasis (MIM) or metastasis suppressor 1 (MTSS1), metastasis suppressor 1-like (MTSSL) or ABBA (Actin-Bundling protein with BAIAP2 homology), and similar proteins. They contain an N-terminal IMD and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. MIM was originally identified as a missing transcript from metastatic bladder and prostate cancer cells. It is a scaffold protein that functions in a signaling pathway between the PDGF receptor, Src kinases, and actin assembly. It may also function as a cofactor of the Sonic hedgehog (Shh) transcriptional pathway and may participate in tumor development and progression via this pathway. ABBA regulate
Probab=31.61 E-value=3.3e+02 Score=23.33 Aligned_cols=18 Identities=39% Similarity=0.580 Sum_probs=13.0
Q ss_pred HHHHH--HHHHHHHHHHHHh
Q psy8979 45 RKELE--DRVSVRRALLEQK 62 (142)
Q Consensus 45 ~~~Le--eRVs~RRalLEqk 62 (142)
..+|| +|.++|+||+|.|
T Consensus 167 ~~~lEe~ek~alR~aLiEER 186 (231)
T cd07643 167 YLLLEETEKKAVRNALIEER 186 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44455 5888999988865
No 23
>PF08289 Flu_M1_C: Influenza Matrix protein (M1) C-terminal domain; InterPro: IPR013188 Matrix protein (M1) of Influenza virus is a bifunctional membrane/RNA-binding protein that mediates the encapsidation of RNA-nucleoprotein cores into the membrane envelope. It is therefore required that M1 binds both membrane and RNA simultaneously. M1 is comprised of two domains connected by a linker sequence. The C-terminal domain contains alpha-helical structure and appears to be involved in growth and virulence of the virus [, ].; GO: 0003723 RNA binding, 0005198 structural molecule activity
Probab=31.06 E-value=46 Score=24.99 Aligned_cols=16 Identities=44% Similarity=0.484 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHH
Q psy8979 23 LEILMAYQSKNKMQAE 38 (142)
Q Consensus 23 lElL~aYQsK~k~q~e 38 (142)
||.|++||+..-.++.
T Consensus 77 le~Lq~yQk~MG~~mq 92 (95)
T PF08289_consen 77 LENLQAYQKRMGAQMQ 92 (95)
T ss_pred HHHHHHHHHHHhHHHH
Confidence 7899999998876553
No 24
>KOG4661|consensus
Probab=29.58 E-value=3e+02 Score=27.41 Aligned_cols=21 Identities=38% Similarity=0.495 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy8979 32 KNKMQAEAQRNRERKELEDRV 52 (142)
Q Consensus 32 K~k~q~eaQheRE~~~LeeRV 52 (142)
+.+-.-+-|+.||..+-|+|.
T Consensus 619 r~Re~eer~RirE~rerEqR~ 639 (940)
T KOG4661|consen 619 RRREAEERQRIREEREREQRR 639 (940)
T ss_pred HhHHHHHHHHHHHHHHHHHHH
Confidence 333333555555555555553
No 25
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=28.11 E-value=5.9e+02 Score=25.08 Aligned_cols=49 Identities=22% Similarity=0.406 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHH
Q psy8979 17 ERLHYELEILMAYQS--KNKMQAEAQRNRERKELEDRVS-VRRALLEQKMDM 65 (142)
Q Consensus 17 ~qLqqElElL~aYQs--K~k~q~eaQheRE~~~LeeRVs-~RRalLEqkiee 65 (142)
+.|+.|++.|.+==. +-++..+...+||.+.++.+|. +++.|-|+++.-
T Consensus 446 ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~v 497 (652)
T COG2433 446 EELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRV 497 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556665554322 2234456667777777777774 455555555443
No 26
>PRK15471 chain length determinant protein WzzB; Provisional
Probab=26.90 E-value=4.3e+02 Score=23.05 Aligned_cols=58 Identities=19% Similarity=0.324 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHH
Q psy8979 23 LEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHE 83 (142)
Q Consensus 23 lElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~e 83 (142)
.++|+.|=.-...++-.+- ..++...+.+|...|.+++.-+....++.|..||..|.+
T Consensus 145 ~~lL~~YI~fv~~~v~~~l---~~~i~~~i~~~~~~l~~~~~~~~~~ak~~~~~~I~rL~~ 202 (325)
T PRK15471 145 QKKLAQYIQQVDDQVAKEL---EKDLKDNIALRTKTLQDSLETQEVVAQEQKDLRIKQIQE 202 (325)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888777666665544 345677889999999999999999999999999998876
No 27
>PF13864 Enkurin: Calmodulin-binding
Probab=26.61 E-value=2.4e+02 Score=20.02 Aligned_cols=45 Identities=29% Similarity=0.354 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Q psy8979 9 EVECHHLKERLHYELEIL-MAYQS-------KNKMQAEAQRNRERKELEDRVS 53 (142)
Q Consensus 9 e~E~~~L~~qLqqElElL-~aYQs-------K~k~q~eaQheRE~~~LeeRVs 53 (142)
+.|...+-..|++-.+-| ..||+ -.+..-.++.++++..||.=|.
T Consensus 39 eeER~~lL~~Lk~~~~el~~ey~~lp~~~DT~~~~~rK~~lE~~L~qlE~dI~ 91 (98)
T PF13864_consen 39 EEERQELLEGLKKNWDELNKEYQKLPFSIDTLRKKRRKEELEKELKQLEKDIK 91 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCcccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777778887776655 46887 5566666777777777776554
No 28
>KOG1265|consensus
Probab=26.28 E-value=7.7e+02 Score=25.83 Aligned_cols=40 Identities=25% Similarity=0.392 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 13 HHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRV 52 (142)
Q Consensus 13 ~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRV 52 (142)
+.|+++++.=.++|..-|.-+-.++++-+++|.++|-.+.
T Consensus 1059 ~hl~~~~~~l~kl~~eaq~~Q~k~LK~~~e~e~kElk~~l 1098 (1189)
T KOG1265|consen 1059 EHLKEQISLLRKLLSEAQTNQTKALKESLEKETKELKKKL 1098 (1189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777888889999999999999999999986554
No 29
>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=25.64 E-value=1.3e+02 Score=21.14 Aligned_cols=47 Identities=19% Similarity=0.345 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 13 HHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQ 61 (142)
Q Consensus 13 ~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEq 61 (142)
-.||-+|+.=-.++...-- +- ..-+..+.+.+.|+++|...+++|..
T Consensus 31 ~~lk~Klq~ar~~i~~lpg-i~-~s~eeq~~~i~~Le~~i~~k~~~L~~ 77 (83)
T PF07544_consen 31 GSLKHKLQKARAAIRELPG-ID-RSVEEQEEEIEELEEQIRKKREVLQK 77 (83)
T ss_pred HHHHHHHHHHHHHHHhCCC-cc-CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455565554444444333 11 22346678999999999999998853
No 30
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=25.31 E-value=3.4e+02 Score=21.31 Aligned_cols=66 Identities=18% Similarity=0.267 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHhhHHHHHHHHhHHH-----HHHHHHHHHHHHHHHHhhhhh
Q psy8979 28 AYQSKNKMQAEAQRNRERKELEDRVSVRRALL-----EQKMDMETQQFLGERQ-----ERIRLLHERQERELESFDQES 96 (142)
Q Consensus 28 aYQsK~k~q~eaQheRE~~~LeeRVs~RRalL-----EqkieeE~~~lq~eR~-----erir~L~eRq~rEle~FD~es 96 (142)
.++++++.-...||+-|++--+.|-++-...= .+++.+ .|...-. .....+...-+.||..||..-
T Consensus 24 ~~~~~Ir~Li~~Q~~~Er~w~~~Re~l~~k~~~r~e~~k~l~~---~l~s~g~~i~~~~~~~~~~~e~~~EL~~fD~kV 99 (150)
T PF10454_consen 24 EFLQRIRRLIKEQHDHERQWWEGREALIAKQKARAEKKKKLDE---VLRSVGGGISDQSEVTTPEKEDEAELDKFDEKV 99 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhcccccccccccccccHHHHHHHHHHHHHH
Confidence 68899999999999999988888776643321 111111 1111111 344555568889999999554
No 31
>PF11079 YqhG: Bacterial protein YqhG of unknown function; InterPro: IPR024562 This family of putative proteins appears to be restricted to Firmicutes. Their function is not known.
Probab=25.23 E-value=1.5e+02 Score=25.77 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 13 HHLKERLHYELEILMAYQSKNKMQAEAQRNRERKELE 49 (142)
Q Consensus 13 ~~L~~qLqqElElL~aYQsK~k~q~eaQheRE~~~Le 49 (142)
...+++|+.||.+|.+|=.-..- ..++-+.|+++|.
T Consensus 205 ~eA~~R~~eel~lL~~fYE~~ee-k~E~y~~ek~al~ 240 (260)
T PF11079_consen 205 EEARERWQEELALLDHFYEDEEE-KPEQYEIEKQALQ 240 (260)
T ss_pred HHHHHHHHHHHHHHHHhhcchhc-chHHHHHHHHHHH
Confidence 45678999999999999774211 1344444444443
No 32
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.86 E-value=4.9e+02 Score=23.08 Aligned_cols=20 Identities=20% Similarity=0.406 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy8979 42 NRERKELEDRVSVRRALLEQ 61 (142)
Q Consensus 42 eRE~~~LeeRVs~RRalLEq 61 (142)
+-|..++..|...|.++|+.
T Consensus 167 ~~e~ee~~~~~~~~~~~ld~ 186 (309)
T TIGR00570 167 KEEEEQQMNKRKNKQALLDE 186 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444445555555555544
No 33
>COG3765 WzzB Chain length determinant protein [Cell envelope biogenesis, outer membrane]
Probab=24.62 E-value=2.3e+02 Score=25.67 Aligned_cols=40 Identities=23% Similarity=0.378 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHH
Q psy8979 45 RKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHER 84 (142)
Q Consensus 45 ~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~eR 84 (142)
..++-+-|++|++-|+.|+......+++.+-.||++|.+-
T Consensus 186 ~~~l~~~~~~rt~~~~~kl~~~~~~ak~~~d~rI~ql~~A 225 (347)
T COG3765 186 LDNLKDAIALRTRQLKDKLKRQEEVAKAQKDVRIQQLKEA 225 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567778999999999999999999999999999998753
No 34
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=24.06 E-value=2.2e+02 Score=18.69 Aligned_cols=34 Identities=29% Similarity=0.408 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8979 25 ILMAYQSKNKMQAEAQRNRERKELEDRVSVRRALLEQKM 63 (142)
Q Consensus 25 lL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRalLEqki 63 (142)
=|-+||.|...-+++=.. +|++ |+-|-..||.++
T Consensus 13 slv~FQ~~v~~~lq~Lt~----kL~~-vs~RLe~LEn~~ 46 (47)
T PF10393_consen 13 SLVAFQNKVTSALQSLTQ----KLDA-VSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHH----HHHH-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH----HHHH-HHHHHHHHHhcc
Confidence 466788887766654332 2443 777777777764
No 35
>PF08703 PLC-beta_C: PLC-beta C terminal; InterPro: IPR014815 This domain corresponds to the alpha helical C-terminal domain of phospholipase C beta. ; GO: 0004435 phosphatidylinositol phospholipase C activity, 0005509 calcium ion binding, 0016042 lipid catabolic process; PDB: 1JAD_A.
Probab=23.66 E-value=4.2e+02 Score=21.82 Aligned_cols=81 Identities=21% Similarity=0.297 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHh-----------hHHHHHHHHh
Q psy8979 16 KERLHYELEILMAYQSKNKMQAEAQRNRERKELEDRVSVRRA------------LLEQK-----------MDMETQQFLG 72 (142)
Q Consensus 16 ~~qLqqElElL~aYQsK~k~q~eaQheRE~~~LeeRVs~RRa------------lLEqk-----------ieeE~~~lq~ 72 (142)
++..+.=.+|+..+|+-+...+...+++|.++|--+....|- .+|.. .-.+..+|..
T Consensus 40 ~e~~~kl~el~~e~Q~~QlK~LKe~~EkE~KElkK~L~~kr~e~I~~k~~~dK~e~er~KrEin~s~I~e~V~~ikrL~~ 119 (185)
T PF08703_consen 40 KEQFQKLEELARECQAAQLKKLKETCEKETKELKKKLDRKRLESIKEKKTKDKDEQERLKREINRSHIQEVVQEIKRLEE 119 (185)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555578888999999999999999998888776655531 22211 1122344545
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhh
Q psy8979 73 ERQERIRLLHERQERELESFDQES 96 (142)
Q Consensus 73 eR~erir~L~eRq~rEle~FD~es 96 (142)
.-..|...|.++|.--+..+..+-
T Consensus 120 ~qekrqekL~~kh~e~lq~i~ee~ 143 (185)
T PF08703_consen 120 KQEKRQEKLEEKHEEVLQQIEEEE 143 (185)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555677778888877777665554
No 36
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=22.57 E-value=3.1e+02 Score=21.31 Aligned_cols=48 Identities=23% Similarity=0.339 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHHHH
Q psy8979 39 AQRNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHERQE 86 (142)
Q Consensus 39 aQheRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~eRq~ 86 (142)
..-..+...|.+|+..|+.+=+.+..........-|.+-++=|.+...
T Consensus 78 ~~v~~~i~~L~~kLe~~~kl~~~~~~~~~~~v~~aR~~vv~CL~~N~~ 125 (142)
T PF07956_consen 78 KSVNEEIEKLREKLEERKKLRELKEEKNSEEVEKARSAVVRCLRENDG 125 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHCCC
Confidence 344566777777777776655555444444556667777777776654
No 37
>PHA02590 hypothetical protein; Provisional
Probab=22.44 E-value=1.1e+02 Score=23.47 Aligned_cols=26 Identities=35% Similarity=0.594 Sum_probs=21.9
Q ss_pred HHHHHHHHHhhHHHHHHHHhHHHHHH
Q psy8979 53 SVRRALLEQKMDMETQQFLGERQERI 78 (142)
Q Consensus 53 s~RRalLEqkieeE~~~lq~eR~eri 78 (142)
-+||..+|.||-++...|=.-|..+|
T Consensus 26 ~IRr~~ie~KII~~i~~fY~i~~~~i 51 (105)
T PHA02590 26 LIRRSNIEEKIIKEISEFYGIREDNI 51 (105)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHhch
Confidence 37999999999999999988866554
No 38
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=21.98 E-value=3.6e+02 Score=20.42 Aligned_cols=68 Identities=15% Similarity=0.187 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHh-hhhhhhccchhHHhhh
Q psy8979 41 RNRERKELEDRVSVRRALLEQKMDMETQQFLGERQERIRLLHERQERELESF-DQESNRMGFSALAIAE 108 (142)
Q Consensus 41 heRE~~~LeeRVs~RRalLEqkieeE~~~lq~eR~erir~L~eRq~rEle~F-D~es~rlGfs~l~~~~ 108 (142)
.+++...++....-.-+-+..+-..+...+++....-...|..=.....+.| ...|..+.|+.+..--
T Consensus 15 l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l~~y~e~~r~e~~k~Ks~~l~~G~v~~R~ 83 (149)
T PF07352_consen 15 LQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLLQAYAEANRDELTKKKSLKLPFGTVGFRK 83 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCTHHHH-----EE-SS-EE----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHhcccceEEEcCCeeEEEEe
Confidence 3444444444444444555555555555555554433333333333333433 4777888887765433
No 39
>PF12443 AKNA: AT-hook-containing transcription factor; InterPro: IPR022150 This domain family is found in eukaryotes, and is approximately 110 amino acids in length. This family contains a transcription factor which regulates the expression of the costimulatory molecules on lymphocytes.
Probab=21.83 E-value=1.1e+02 Score=23.31 Aligned_cols=26 Identities=12% Similarity=0.107 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8979 9 EVECHHLKERLHYELEILMAYQSKNK 34 (142)
Q Consensus 9 e~E~~~L~~qLqqElElL~aYQsK~k 34 (142)
++||+.|+++|.+=.+-.+.|+..++
T Consensus 51 e~~~qkL~eqteeLK~kvqe~sk~i~ 76 (106)
T PF12443_consen 51 EQMIQKLGEQTEELKDKVQEFSKRIE 76 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcC
Confidence 68999999999988888888877664
No 40
>KOG3612|consensus
Probab=21.39 E-value=7.7e+02 Score=24.03 Aligned_cols=39 Identities=26% Similarity=0.233 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHH-HHHHHH---HHHHHHHHHHHHHHHHHH
Q psy8979 13 HHLKERLHYELEILM-AYQSKN---KMQAEAQRNRERKELEDR 51 (142)
Q Consensus 13 ~~L~~qLqqElElL~-aYQsK~---k~q~eaQheRE~~~LeeR 51 (142)
.++-.+|.+|+++|+ .|+.+. ..+++--...-++.||++
T Consensus 459 ~a~t~kL~~E~e~~q~~~~~~l~~~~~~~~~em~~~r~tlE~k 501 (588)
T KOG3612|consen 459 VAATEKLRQEFEELQQTSRRELPVPLRNFELEMAEMRKTLEQK 501 (588)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHH
Confidence 466778888888875 344444 444554444444555443
No 41
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=20.54 E-value=6.9e+02 Score=23.18 Aligned_cols=20 Identities=40% Similarity=0.551 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q psy8979 44 ERKELEDRVSVRRALLEQKM 63 (142)
Q Consensus 44 E~~~LeeRVs~RRalLEqki 63 (142)
+++..|+|+.-|...|++|.
T Consensus 77 rL~qrE~rL~qRee~Lekr~ 96 (514)
T TIGR03319 77 ELQRLERRLLQREETLDRKM 96 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555443
No 42
>KOG1029|consensus
Probab=20.28 E-value=5.1e+02 Score=26.74 Aligned_cols=10 Identities=50% Similarity=0.670 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q psy8979 36 QAEAQRNRER 45 (142)
Q Consensus 36 q~eaQheRE~ 45 (142)
-++.|..||+
T Consensus 335 ~leeqqqrer 344 (1118)
T KOG1029|consen 335 ALEEQQQRER 344 (1118)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 43
>PF13397 DUF4109: Domain of unknown function (DUF4109)
Probab=20.05 E-value=1e+02 Score=23.47 Aligned_cols=22 Identities=41% Similarity=0.552 Sum_probs=19.7
Q ss_pred HHHHhhHHHHHHHHhHHHHHHH
Q psy8979 58 LLEQKMDMETQQFLGERQERIR 79 (142)
Q Consensus 58 lLEqkieeE~~~lq~eR~erir 79 (142)
|+|.+-.+|++.+..||.+.+|
T Consensus 84 l~ERRS~eEle~lL~ErL~~LR 105 (105)
T PF13397_consen 84 LLERRSIEELEELLAERLELLR 105 (105)
T ss_pred HHHhCCHHHHHHHHHHHHHHhC
Confidence 7899999999999999988764
Done!