Query 027546
Match_columns 222
No_of_seqs 100 out of 105
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 11:32:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027546.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027546hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14295 PAN_4: PAN domain; PD 98.4 9.1E-08 2E-12 63.0 1.7 51 118-185 1-51 (51)
2 cd01100 APPLE_Factor_XI_like S 95.9 0.0097 2.1E-07 42.8 3.3 56 109-188 2-58 (73)
3 smart00223 APPLE APPLE domain. 95.3 0.026 5.7E-07 42.4 4.1 53 114-187 5-57 (79)
4 PF00024 PAN_1: PAN domain Thi 73.2 2.4 5.2E-05 29.2 1.7 50 116-189 8-58 (79)
5 cd02987 Phd_like_Phd Phosducin 50.2 24 0.00053 29.6 4.0 32 4-40 24-55 (175)
6 COG3122 Uncharacterized protei 44.4 64 0.0014 29.1 5.8 34 6-39 63-96 (215)
7 PF14446 Prok-RING_1: Prokaryo 42.1 12 0.00026 27.1 0.8 19 161-187 22-40 (54)
8 PF12512 DUF3717: Protein of u 38.0 28 0.0006 26.5 2.2 28 3-30 42-69 (71)
9 KOG3170 Conserved phosducin-li 37.3 34 0.00074 31.3 3.0 54 9-63 55-110 (240)
10 PF10925 DUF2680: Protein of u 36.0 1.6E+02 0.0034 21.3 5.8 54 19-74 3-56 (59)
11 COG5134 Uncharacterized conser 35.7 66 0.0014 29.7 4.6 33 2-38 157-189 (272)
12 PF14719 PID_2: Phosphotyrosin 31.9 69 0.0015 28.0 4.0 32 20-51 118-151 (182)
13 KOG0977 Nuclear envelope prote 29.9 75 0.0016 32.3 4.4 56 3-59 245-302 (546)
14 KOG0870 DNA polymerase epsilon 29.3 82 0.0018 27.7 4.0 31 2-32 68-98 (172)
15 PF15079 DUF4546: Domain of un 28.5 91 0.002 27.8 4.2 35 20-74 55-89 (205)
16 PRK10236 hypothetical protein; 28.3 78 0.0017 29.0 3.8 68 3-72 64-132 (237)
17 COG5302 Post-segregation antit 26.3 1E+02 0.0022 24.1 3.6 37 1-37 17-61 (80)
18 PF02114 Phosducin: Phosducin; 26.1 57 0.0012 29.7 2.6 21 21-41 99-119 (265)
19 PRK12303 tumor necrosis factor 25.8 1.7E+02 0.0037 25.3 5.2 24 51-74 134-157 (192)
20 KOG4032 Uncharacterized conser 25.0 1.8E+02 0.0039 25.8 5.4 23 13-35 101-123 (184)
21 PF00542 Ribosomal_L12: Riboso 23.5 73 0.0016 23.5 2.3 35 33-67 28-63 (68)
22 PRK01119 hypothetical protein; 22.1 2.1E+02 0.0045 22.9 4.8 37 3-40 33-69 (106)
23 cd01751 PLAT_LH2 PLAT/ LH2 dom 21.2 30 0.00065 28.8 -0.2 26 64-89 22-47 (137)
No 1
>PF14295 PAN_4: PAN domain; PDB: 2YIL_E 2YIP_C 2YIO_A.
Probab=98.43 E-value=9.1e-08 Score=63.04 Aligned_cols=51 Identities=33% Similarity=0.682 Sum_probs=18.7
Q ss_pred cccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCCccccc
Q 027546 118 TDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLK 185 (222)
Q Consensus 118 tdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK 185 (222)
|||.|..|... .....|+++|+++|.+ ..+|..|+|.+. ++.+ ..+.||||
T Consensus 1 ~d~~G~dl~~~-~~~~~s~~~C~~~C~~--------~~~C~~~~~~~~--~~~~------~~~~C~LK 51 (51)
T PF14295_consen 1 TDYPGGDLRSF-PVTASSPEECQAACAA--------DPGCQAFTFNPP--GCPS------SSGRCYLK 51 (51)
T ss_dssp ------------------HHHHHHHHHT--------STT--EEEEETT--EE----------------
T ss_pred Ccccccccccc-cccCCCHHHHHHHccC--------CCCCCEEEEECC--Cccc------ccccccCC
Confidence 58889988776 3488999999999997 468999999996 2222 46899998
No 2
>cd01100 APPLE_Factor_XI_like Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or protein-carbohydrate interactions.
Probab=95.85 E-value=0.0097 Score=42.80 Aligned_cols=56 Identities=29% Similarity=0.601 Sum_probs=43.0
Q ss_pred CCcccccc-ccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCCccccccc
Q 027546 109 PPECHAEL-HTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLKYA 187 (222)
Q Consensus 109 ~~~C~~e~-htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK~~ 187 (222)
+..|+... +++|.|.-+. .....|+++|+++|.. ...|..|.|=.. .+.||||..
T Consensus 2 ~~~C~~~~~~~~~~g~d~~---~~~~~s~~~Cq~~C~~--------~~~C~afT~~~~-------------~~~C~lk~~ 57 (73)
T cd01100 2 PSSCFRQGSNVDFRGGDLS---TVFASSAEQCQAACTA--------DPGCLAFTYNTK-------------SKKCFLKSS 57 (73)
T ss_pred CcccccccCCCccccCCcc---eeecCCHHHHHHHcCC--------CCCceEEEEECC-------------CCeEEcccC
Confidence 34677765 9999996553 2347899999999998 468999999432 479999987
Q ss_pred C
Q 027546 188 E 188 (222)
Q Consensus 188 ~ 188 (222)
.
T Consensus 58 ~ 58 (73)
T cd01100 58 E 58 (73)
T ss_pred C
Confidence 4
No 3
>smart00223 APPLE APPLE domain. Four-fold repeat in plasma kallikrein and coagulation factor XI. Factor XI apple 3 mediates binding to platelets. Factor XI apple 1 binds high-molecular-mass kininogen. Apple 4 in factor XI mediates dimer formation and binds to factor XIIa. Mutations in apple 4 cause factor XI deficiency, an inherited bleeding disorder.
Probab=95.33 E-value=0.026 Score=42.42 Aligned_cols=53 Identities=25% Similarity=0.446 Sum_probs=42.4
Q ss_pred cccccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCCCceeEECCCCCCCCCCCccCCCCCccccccc
Q 027546 114 AELHTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMKCNIWVYCPAETGCHSPDKYEHKYQECWLKYA 187 (222)
Q Consensus 114 ~e~htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~CNvWV~C~~~~GC~spd~y~~~~geCWLK~~ 187 (222)
...++||.|.-|. .-...++.+|+..|..+ ..|-.|.|=...... ..||||..
T Consensus 5 ~~~~~df~G~Dl~---~~~~~~~~~Cq~~Ct~~--------~~C~~FTf~~~~~~~----------~~C~LK~s 57 (79)
T smart00223 5 IYKNVDFRGSDIN---TVYVPSAQVCQKRCTSH--------PRCLFFTFSTNEPPE----------EKCLLKDS 57 (79)
T ss_pred hccCccccCceee---eeecCCHHHHHHhhcCC--------CCccEEEeeCCCCCC----------CEeEeCcC
Confidence 3578999988663 44689999999999985 589999999986432 17999987
No 4
>PF00024 PAN_1: PAN domain This Prosite entry concerns apple domains, a subset of PAN domains; InterPro: IPR003014 PAN domains have significant functional versatility fulfilling diverse biological functions by mediating protein-protein or protein-carbohydrate interactions []. These domains contain a hair-pin loop like structure, similar to knottins, but the pattern of disulphide bonds differs It has been shown that, the N-terminal N domains of members of the plasminogen/hepatocyte growth factor family, the apple domains of the plasma prekallikrein/coagulation factor XI family, and domains of various nematode proteins belong to the same module superfamily, the PAN module []. PAN contains a conserved core of three disulphide bridges. In some members of the family there is an additional fourth disulphide bridge that links the N and C termini of the domain.; PDB: 1GP9_C 2QJ2_B 1GMO_H 1NK1_B 3MKP_B 1BHT_B 3HN4_A 1GMN_A 3HMS_A 3HMT_B ....
Probab=73.24 E-value=2.4 Score=29.23 Aligned_cols=50 Identities=22% Similarity=0.592 Sum_probs=36.3
Q ss_pred cccccCccccccCCccccCCHHHHHHHHHHhhhhcCCCCCC-CceeEECCCCCCCCCCCccCCCCCcccccccCC
Q 027546 116 LHTDYDGVAIRWGLTHHRDSAADCCQACIEQAKRAKPGQMK-CNIWVYCPAETGCHSPDKYEHKYQECWLKYAEK 189 (222)
Q Consensus 116 ~htdy~G~aV~WG~~~~~~SA~eCC~AC~~~~~~~~~g~~~-CNvWV~C~~~~GC~spd~y~~~~geCWLK~~~~ 189 (222)
.+..+.|.++. .+.+.|..+|.+.|... .. |-++.|-... +.|=|+....
T Consensus 8 ~~~~l~~~~~~---~~~v~s~~~C~~~C~~~--------~~~C~s~~y~~~~-------------~~C~L~~~~~ 58 (79)
T PF00024_consen 8 PGYRLSGHSIK---EINVPSLEECAQLCLNE--------PRRCKSFNYDPSS-------------KTCYLSSSDR 58 (79)
T ss_dssp EEEEEESCEEE---EEEESSHHHHHHHHHHS--------TT-ESEEEEETTT-------------TEEEEECSSS
T ss_pred CCEEEeCCcce---EEcCCCHHHHHhhcCcC--------cccCCeEEEECCC-------------CEEEEcCCCC
Confidence 45556665442 23678999999999983 34 9999998873 6888887643
No 5
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=50.19 E-value=24 Score=29.62 Aligned_cols=32 Identities=16% Similarity=0.266 Sum_probs=22.8
Q ss_pred HHHHHhhhcccCCChHHHHHHHHHHHHHHHHHHHHhh
Q 027546 4 EILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQLS 40 (222)
Q Consensus 4 ei~~rL~~l~~~~n~~~~~~a~e~Wr~ekl~~~k~~~ 40 (222)
+-+++|-+|++ .--+-|+.||+.+|+++|+..
T Consensus 24 ~~~~~~d~~~~-----~~e~~l~~~R~~R~~el~~~~ 55 (175)
T cd02987 24 ESEQEDDDDDE-----DKEEFLQQYREQRMQEMHAKL 55 (175)
T ss_pred chhhhhhhhhh-----hHHHHHHHHHHHHHHHHHHhc
Confidence 44566766653 113489999999999999843
No 6
>COG3122 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.36 E-value=64 Score=29.05 Aligned_cols=34 Identities=35% Similarity=0.364 Sum_probs=24.1
Q ss_pred HHHhhhcccCCChHHHHHHHHHHHHHHHHHHHHh
Q 027546 6 LRRLQSSDVKGNVSAQREAVESWRREKLEEAKQL 39 (222)
Q Consensus 6 ~~rL~~l~~~~n~~~~~~a~e~Wr~ekl~~~k~~ 39 (222)
+|||.+-..---...+|+|+|+=++|+|+.=|++
T Consensus 63 ~qrl~~k~~vd~~eayr~aae~~Kaeqlerdk~l 96 (215)
T COG3122 63 VQRLAKKSRVDAREAYRIAAEENKAEQLERDKQL 96 (215)
T ss_pred HHHHhhHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666554332234467999999999999988874
No 7
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=42.08 E-value=12 Score=27.09 Aligned_cols=19 Identities=42% Similarity=1.130 Sum_probs=15.4
Q ss_pred EECCCCCCCCCCCccCCCCCccccccc
Q 027546 161 VYCPAETGCHSPDKYEHKYQECWLKYA 187 (222)
Q Consensus 161 V~C~~~~GC~spd~y~~~~geCWLK~~ 187 (222)
|.|++ |++| -|++||.+..
T Consensus 22 VvCp~---Cgap-----yHR~C~~~~g 40 (54)
T PF14446_consen 22 VVCPE---CGAP-----YHRDCWEKAG 40 (54)
T ss_pred EECCC---CCCc-----ccHHHHhhCC
Confidence 77886 9987 5899998854
No 8
>PF12512 DUF3717: Protein of unknown function (DUF3717) ; InterPro: IPR022191 This family of proteins is found in bacteria. Proteins in this family are typically between 75 and 117 amino acids in length. There is a conserved AIN sequence motif. There are two completely conserved residues (L and Y) that may be functionally important.
Probab=37.99 E-value=28 Score=26.47 Aligned_cols=28 Identities=25% Similarity=0.222 Sum_probs=24.7
Q ss_pred HHHHHHhhhcccCCChHHHHHHHHHHHH
Q 027546 3 DEILRRLQSSDVKGNVSAQREAVESWRR 30 (222)
Q Consensus 3 ~ei~~rL~~l~~~~n~~~~~~a~e~Wr~ 30 (222)
.=|.+|..++...+=..+||+|+..|+.
T Consensus 42 lMI~~r~~~v~~~~L~~~a~~A~~~w~~ 69 (71)
T PF12512_consen 42 LMIFQRQQEVDEASLDPEARAAWLAWYD 69 (71)
T ss_pred HHHHhccccCChhhCCHHHHHHHHHHHh
Confidence 3588999999988889999999999975
No 9
>KOG3170 consensus Conserved phosducin-like protein [Signal transduction mechanisms]
Probab=37.26 E-value=34 Score=31.28 Aligned_cols=54 Identities=17% Similarity=0.216 Sum_probs=32.7
Q ss_pred hhhcccCCChHHHHHHHHHHHHHHHHHHHHhhhc-ccccCCcchHHH-HHHHHHHHh
Q 027546 9 LQSSDVKGNVSAQREAVESWRREKLEEAKQLSIG-RQGINSTILQEE-ARMLVRVLE 63 (222)
Q Consensus 9 L~~l~~~~n~~~~~~a~e~Wr~ekl~~~k~~~~~-~~~~n~~~~~ee-~~~~~~~~~ 63 (222)
|-+|.+--+.-..| +||..|+++|.+.|..+.. +-|+-.-||.-+ ...+-.|.+
T Consensus 55 LeelEDded~dDer-fLE~YR~kRl~E~r~~~~k~kfG~V~~ISg~dyv~EVT~As~ 110 (240)
T KOG3170|consen 55 LEELEDDEDSDDER-FLEMYRIKRLAEWRATAEKAKFGEVFPISGPDYVKEVTKASE 110 (240)
T ss_pred HHHhhhcccccHHH-HHHHHHHHHHHHHHHHHHHhcccceeeccchHHHHHHHhccC
Confidence 55665544445555 9999999999999994433 334444455433 333444444
No 10
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=35.97 E-value=1.6e+02 Score=21.32 Aligned_cols=54 Identities=19% Similarity=0.270 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccccCCcchHHHHHHHHHHHhhhhhHHHhhhc
Q 027546 19 SAQREAVESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSEEIG 74 (222)
Q Consensus 19 ~~~~~a~e~Wr~ekl~~~k~~~~~~~~~n~~~~~ee~~~~~~~~~~~~~~~~e~i~ 74 (222)
.+|..-|++|...-|+- |.-..-+--..-.|+.|.|..++..++.......++ |
T Consensus 3 ~~Qk~el~~l~~qm~e~-kK~~idk~Ve~G~iTqeqAd~ik~~id~~~~~~~qn-G 56 (59)
T PF10925_consen 3 DQQKKELKALYKQMLEL-KKQIIDKYVEAGVITQEQADAIKKHIDQRQEYMQQN-G 56 (59)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHc-C
Confidence 36677788888777774 442444555666799999999999999888777655 5
No 11
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=35.67 E-value=66 Score=29.72 Aligned_cols=33 Identities=45% Similarity=0.480 Sum_probs=25.5
Q ss_pred HHHHHHHhhhcccCCChHHHHHHHHHHHHHHHHHHHH
Q 027546 2 IDEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQ 38 (222)
Q Consensus 2 ~~ei~~rL~~l~~~~n~~~~~~a~e~Wr~ekl~~~k~ 38 (222)
+|+|=.||-+.- -.++|++-++.-|++||| .++
T Consensus 157 ~D~L~Krl~~~~---~~~~~~~~~~~~~~k~~e-~~q 189 (272)
T COG5134 157 IDELNKRLWSDP---FVSSQRLRKQFRERKKIE-KKQ 189 (272)
T ss_pred HHHHHHHhhcCc---hhhhHHHHHHHHHHhhhH-HHH
Confidence 456667777663 367899999999999999 477
No 12
>PF14719 PID_2: Phosphotyrosine interaction domain (PTB/PID)
Probab=31.94 E-value=69 Score=28.03 Aligned_cols=32 Identities=22% Similarity=0.159 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccc--ccCCcch
Q 027546 20 AQREAVESWRREKLEEAKQLSIGRQ--GINSTIL 51 (222)
Q Consensus 20 ~~~~a~e~Wr~ekl~~~k~~~~~~~--~~n~~~~ 51 (222)
.-++|+++|+++|+..-+++.+..+ .++.+++
T Consensus 118 af~~Af~~~kr~k~~~~~~~l~~~~s~~~~p~~p 151 (182)
T PF14719_consen 118 AFRSAFQEFKRDKRSRQNARLSLGNSVYSNPTMP 151 (182)
T ss_pred HHHHHHHHHHHHHHHHHHhhhchhccccCCCCCh
Confidence 5578999999999997666555442 3355544
No 13
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=29.89 E-value=75 Score=32.33 Aligned_cols=56 Identities=21% Similarity=0.408 Sum_probs=42.0
Q ss_pred HHHHHHhhhcccC--CChHHHHHHHHHHHHHHHHHHHHhhhcccccCCcchHHHHHHHH
Q 027546 3 DEILRRLQSSDVK--GNVSAQREAVESWRREKLEEAKQLSIGRQGINSTILQEEARMLV 59 (222)
Q Consensus 3 ~ei~~rL~~l~~~--~n~~~~~~a~e~Wr~ekl~~~k~~~~~~~~~n~~~~~ee~~~~~ 59 (222)
+++-+-|+++.+. .++..-|+.+|+|-+.||.++|. .+..+....+...||-..+.
T Consensus 245 ~eL~~Ai~eiRaqye~~~~~nR~diE~~Y~~kI~~i~~-~~~~~~~~~~~~rEEl~~~R 302 (546)
T KOG0977|consen 245 NELALAIREIRAQYEAISRQNRKDIESWYKRKIQEIRT-SAERANVEQNYAREELRRIR 302 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh-hhccccchhHHHHHHHHHHH
Confidence 3555556666532 45777899999999999999998 77788888888888854443
No 14
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=29.34 E-value=82 Score=27.72 Aligned_cols=31 Identities=19% Similarity=0.452 Sum_probs=27.9
Q ss_pred HHHHHHHhhhcccCCChHHHHHHHHHHHHHH
Q 027546 2 IDEILRRLQSSDVKGNVSAQREAVESWRREK 32 (222)
Q Consensus 2 ~~ei~~rL~~l~~~~n~~~~~~a~e~Wr~ek 32 (222)
+++||+-|..|...+-..--+.+||.||+.-
T Consensus 68 adDVl~aL~Eiefs~f~~plk~~Le~yk~~~ 98 (172)
T KOG0870|consen 68 ADDVLKALDEIEFSSFVNPLKSALEAYKKAV 98 (172)
T ss_pred HHHHHHHHHHhchHHHhhHHHHHHHHHHHHH
Confidence 6899999999998888889999999999753
No 15
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=28.49 E-value=91 Score=27.83 Aligned_cols=35 Identities=34% Similarity=0.514 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcccccCCcchHHHHHHHHHHHhhhhhHHHhhhc
Q 027546 20 AQREAVESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSEEIG 74 (222)
Q Consensus 20 ~~~~a~e~Wr~ekl~~~k~~~~~~~~~n~~~~~ee~~~~~~~~~~~~~~~~e~i~ 74 (222)
+-||+-|+ -+||+++||+ ++..+..|+|.|.|=+.
T Consensus 55 eLREVREE-LkEKmeEIKQ-------------------IKdiMDKDFDKL~EFVE 89 (205)
T PF15079_consen 55 ELREVREE-LKEKMEEIKQ-------------------IKDIMDKDFDKLHEFVE 89 (205)
T ss_pred HHHHHHHH-HHHHHHHHHH-------------------HHHHHhhhHHHHHHHHH
Confidence 34444444 3789999999 67778888888877444
No 16
>PRK10236 hypothetical protein; Provisional
Probab=28.26 E-value=78 Score=29.04 Aligned_cols=68 Identities=18% Similarity=0.210 Sum_probs=43.4
Q ss_pred HHHHHHhhhcccCCChHHHHH-HHHHHHHHHHHHHHHhhhcccccCCcchHHHHHHHHHHHhhhhhHHHhh
Q 027546 3 DEILRRLQSSDVKGNVSAQRE-AVESWRREKLEEAKQLSIGRQGINSTILQEEARMLVRVLESDWAALSEE 72 (222)
Q Consensus 3 ~ei~~rL~~l~~~~n~~~~~~-a~e~Wr~ekl~~~k~~~~~~~~~n~~~~~ee~~~~~~~~~~~~~~~~e~ 72 (222)
+.|.+||+-|+.||-+..-|. .+ ++| |=|.+|=..--+.....++..-=|+++|.+.++..|+.+.++
T Consensus 64 ~~Ia~elq~fGgnt~~n~lRG~Gv-~Yr-eIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~a~~kms~e 132 (237)
T PRK10236 64 QLIAGELQHFGGDSIANKLRGHGK-LYR-AILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRNTWKKMDEE 132 (237)
T ss_pred HHHHHHHHHhcchHHHHHHhcCCc-cHH-HHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHH
Confidence 579999999997776544443 34 555 445554332333323333333448899999999999987665
No 17
>COG5302 Post-segregation antitoxin (ccd killing mechanism protein) encoded by the F plasmid [General function prediction only]
Probab=26.25 E-value=1e+02 Score=24.07 Aligned_cols=37 Identities=22% Similarity=0.420 Sum_probs=25.0
Q ss_pred CHHHHHHHhhhcccCCCh--------HHHHHHHHHHHHHHHHHHH
Q 027546 1 MIDEILRRLQSSDVKGNV--------SAQREAVESWRREKLEEAK 37 (222)
Q Consensus 1 ~~~ei~~rL~~l~~~~n~--------~~~~~a~e~Wr~ekl~~~k 37 (222)
+.+|+++|+|+|+-|-+- ...+.+-+.|+.|-+|.+-
T Consensus 17 vd~eL~e~Ar~~~lNiS~~~et~ia~e~~k~~t~~WqeEN~EaiA 61 (80)
T COG5302 17 VDDELLERARALGLNISALAETAIAAELRKSATDRWQEENAEAIA 61 (80)
T ss_pred ecHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 357999999999865541 1224456778888777543
No 18
>PF02114 Phosducin: Phosducin; InterPro: IPR024253 The outer and inner segments of vertebrate rod photoreceptor cells contain phosducin, a soluble phosphoprotein that complexes with the beta/gamma-subunits of the GTP-binding protein, transducin. Light-induced changes in cyclic nucleotide levels modulate the phosphorylation of phosducin by protein kinase A []. The protein is thought to participate in the regulation of visual phototransduction or in the integration of photo-receptor metabolism. Similar proteins have been isolated from the pineal gland and it is believed that the functional role of the protein is the same in both retina and pineal gland []. This entry represents a domain found in members of the phosducin family. This domain has a thioredoxin-like fold [].; PDB: 2DBC_A 1A0R_P 1B9Y_C 1B9X_C 2TRC_P 3EVI_B.
Probab=26.09 E-value=57 Score=29.68 Aligned_cols=21 Identities=29% Similarity=0.453 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 027546 21 QREAVESWRREKLEEAKQLSI 41 (222)
Q Consensus 21 ~~~a~e~Wr~ekl~~~k~~~~ 41 (222)
--+.|+.||+.+|+++++...
T Consensus 99 DeefL~~yR~qRm~El~~~~~ 119 (265)
T PF02114_consen 99 DEEFLEQYREQRMQELKQKLQ 119 (265)
T ss_dssp -HHHHHHHHHHHHHHHHHHH-
T ss_pred cHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999987444
No 19
>PRK12303 tumor necrosis factor alpha-inducing protein; Reviewed
Probab=25.79 E-value=1.7e+02 Score=25.33 Aligned_cols=24 Identities=42% Similarity=0.296 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHhhhhhHHHhhhc
Q 027546 51 LQEEARMLVRVLESDWAALSEEIG 74 (222)
Q Consensus 51 ~~ee~~~~~~~~~~~~~~~~e~i~ 74 (222)
..||.-.|+||..+|-|.|+|.++
T Consensus 134 nneevfalvrargfdkdalseglh 157 (192)
T PRK12303 134 NNEEVFALVRARGFDKDALSEGLH 157 (192)
T ss_pred CcHHHHHHHHHhcCCHHHHhhhHH
Confidence 459999999999999999999987
No 20
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.01 E-value=1.8e+02 Score=25.84 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=14.4
Q ss_pred ccCCChHHHHHHHHHHHHHHHHH
Q 027546 13 DVKGNVSAQREAVESWRREKLEE 35 (222)
Q Consensus 13 ~~~~n~~~~~~a~e~Wr~ekl~~ 35 (222)
-.++|-+.-++-++.|-+.+||.
T Consensus 101 ~~~~N~~~ieells~l~~q~~kk 123 (184)
T KOG4032|consen 101 IQNGNYAIIEELLSKLPKQDLKK 123 (184)
T ss_pred HHcccHHHHHHHHHHcchhhhhh
Confidence 35566666666666666666654
No 21
>PF00542 Ribosomal_L12: Ribosomal protein L7/L12 C-terminal domain; InterPro: IPR013823 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents the C-terminal domain of the large subunit ribosomal proteins, known as the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain []. The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition of an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1DD4_B 1DD3_A 1RQU_B 2GYA_5 2GYC_5 1RQS_A 1RQV_A 1CTF_A 2XUX_L.
Probab=23.52 E-value=73 Score=23.45 Aligned_cols=35 Identities=34% Similarity=0.345 Sum_probs=23.2
Q ss_pred HHHHHHhhhc-ccccCCcchHHHHHHHHHHHhhhhh
Q 027546 33 LEEAKQLSIG-RQGINSTILQEEARMLVRVLESDWA 67 (222)
Q Consensus 33 l~~~k~~~~~-~~~~n~~~~~ee~~~~~~~~~~~~~ 67 (222)
|+++|.+.-. ...+..+++.+||+.++..|+..+.
T Consensus 28 L~eAK~~vd~~p~~ik~~v~keeAe~ik~~Le~aGa 63 (68)
T PF00542_consen 28 LKEAKKLVDSLPKVIKEGVSKEEAEEIKKKLEAAGA 63 (68)
T ss_dssp HHHHHHHHCTTTEEEEEEE-HHHHHHHHHHHHCCT-
T ss_pred HHHHHHHHHhCCHHHHcCCCHHHHHHHHHHHHHcCC
Confidence 5666664333 4456778889999999999876443
No 22
>PRK01119 hypothetical protein; Provisional
Probab=22.09 E-value=2.1e+02 Score=22.92 Aligned_cols=37 Identities=19% Similarity=0.231 Sum_probs=29.9
Q ss_pred HHHHHHhhhcccCCChHHHHHHHHHHHHHHHHHHHHhh
Q 027546 3 DEILRRLQSSDVKGNVSAQREAVESWRREKLEEAKQLS 40 (222)
Q Consensus 3 ~ei~~rL~~l~~~~n~~~~~~a~e~Wr~ekl~~~k~~~ 40 (222)
.+|+.-||+| ..+.+..-.+.|++.|++-|++++..|
T Consensus 33 kd~~a~lr~i-~GG~~~~Y~~~l~~aR~~A~~rm~~~A 69 (106)
T PRK01119 33 KDIGAGLRNF-FGGRSQGYEDELINAREEAIREMEQRA 69 (106)
T ss_pred hhHHHHHHHH-hccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788888 457778888899999999999888843
No 23
>cd01751 PLAT_LH2 PLAT/ LH2 domain of plant lipoxygenase related proteins. Lipoxygenases are nonheme, nonsulfur iron dioxygenases that act on lipid substrates containing one or more (Z,Z)-1,4-pentadiene moieties. In plants, the immediate products are involved in defense mechanisms against pathogens and may be precursors of metabolic regulators. The generally proposed function of PLAT/LH2 domains is to mediate interaction with lipids or membrane bound proteins.
Probab=21.24 E-value=30 Score=28.84 Aligned_cols=26 Identities=23% Similarity=0.286 Sum_probs=21.3
Q ss_pred hhhhHHHhhhccccccceeecccCCC
Q 027546 64 SDWAALSEEIGLWIPTEIIHKEHGDK 89 (222)
Q Consensus 64 ~~~~~~~e~i~~~~~~~~~~~e~~dk 89 (222)
+-+|.+.+-+|-++.-+++..+.|++
T Consensus 22 ~~~D~~~~llGk~v~lqLVSs~~d~~ 47 (137)
T cd01751 22 SGLDDLDDLLGRSLLLELVSSELDPK 47 (137)
T ss_pred chhhhHHHhhCCeEEEEEEEeeecCC
Confidence 45688888899889999988888874
Done!