Query 039975
Match_columns 100
No_of_seqs 121 out of 648
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 03:52:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039975.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039975hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03090 auxin-responsive fami 100.0 4.9E-41 1.1E-45 232.2 10.4 96 1-98 1-104 (104)
2 PLN03220 uncharacterized prote 100.0 5E-40 1.1E-44 227.3 10.4 96 1-96 1-102 (105)
3 PF02519 Auxin_inducible: Auxi 100.0 3.6E-37 7.9E-42 210.8 9.1 96 1-98 1-100 (100)
4 PLN03219 uncharacterized prote 100.0 1.5E-36 3.2E-41 210.9 9.8 96 1-96 1-104 (108)
5 PRK02899 adaptor protein; Prov 82.6 1.1 2.4E-05 33.7 2.4 24 59-83 39-62 (197)
6 PF02100 ODC_AZ: Ornithine dec 80.8 2.7 5.9E-05 28.9 3.6 48 47-96 25-76 (108)
7 smart00666 PB1 PB1 domain. Pho 77.7 11 0.00024 23.3 5.5 53 40-98 7-69 (81)
8 PRK02315 adaptor protein; Prov 76.8 2 4.3E-05 33.0 2.2 24 59-83 39-62 (233)
9 PF02214 BTB_2: BTB/POZ domain 74.5 2.7 5.8E-05 26.9 2.0 56 39-98 3-61 (94)
10 PF05389 MecA: Negative regula 70.7 1.4 3E-05 33.1 0.0 25 58-83 38-62 (220)
11 smart00153 VHP Villin headpiec 49.5 9.1 0.0002 21.7 0.9 19 55-73 1-19 (36)
12 PF02209 VHP: Villin headpiece 49.4 7.6 0.00017 22.1 0.6 19 55-73 1-19 (36)
13 PF11834 DUF3354: Domain of un 46.9 17 0.00036 23.4 1.9 16 60-75 27-42 (69)
14 PRK10308 3-methyl-adenine DNA 46.7 97 0.0021 24.4 6.6 63 34-97 45-121 (283)
15 PF08861 DUF1828: Domain of un 45.8 67 0.0014 20.7 4.8 40 58-97 44-83 (90)
16 PF02762 Cbl_N3: CBL proto-onc 44.6 58 0.0013 22.0 4.3 38 32-72 35-73 (86)
17 cd05992 PB1 The PB1 domain is 43.2 75 0.0016 19.3 7.5 55 39-98 5-69 (81)
18 PF12062 HSNSD: heparan sulfat 42.3 23 0.00049 30.7 2.6 42 32-74 93-141 (487)
19 PF12058 DUF3539: Protein of u 41.4 4.6 0.0001 27.5 -1.4 11 54-64 4-14 (88)
20 cd06410 PB1_UP2 Uncharacterize 40.7 73 0.0016 21.5 4.4 54 38-97 17-82 (97)
21 PF00651 BTB: BTB/POZ domain; 37.4 1E+02 0.0022 19.2 4.6 54 37-97 13-71 (111)
22 PRK14172 bifunctional 5,10-met 34.8 1.5E+02 0.0032 23.7 6.0 52 35-99 34-87 (278)
23 PRK14186 bifunctional 5,10-met 33.7 1.5E+02 0.0032 23.9 5.9 54 33-99 32-87 (297)
24 COG1759 5-formaminoimidazole-4 32.9 19 0.00042 30.0 0.7 24 30-53 88-112 (361)
25 PF11822 DUF3342: Domain of un 32.4 58 0.0013 26.7 3.4 49 46-98 13-66 (317)
26 cd01406 SIR2-like Sir2-like: P 32.3 59 0.0013 24.1 3.2 36 35-77 1-36 (242)
27 PF00564 PB1: PB1 domain; Int 30.7 1.3E+02 0.0028 18.3 5.8 54 39-97 6-69 (84)
28 COG5431 Uncharacterized metal- 30.6 63 0.0014 22.9 2.9 27 34-62 32-58 (117)
29 PRK14188 bifunctional 5,10-met 30.5 2E+02 0.0044 23.0 6.2 54 33-99 32-87 (296)
30 PF11876 DUF3396: Protein of u 30.5 43 0.00093 25.3 2.2 38 47-84 25-64 (208)
31 PRK14179 bifunctional 5,10-met 30.2 2.1E+02 0.0046 22.8 6.2 54 33-99 32-87 (284)
32 PRK14193 bifunctional 5,10-met 28.5 1.5E+02 0.0032 23.8 5.0 54 33-99 32-87 (284)
33 PF12518 DUF3721: Protein of u 27.9 42 0.00092 19.0 1.4 22 66-87 8-31 (34)
34 TIGR02529 EutJ ethanolamine ut 27.5 67 0.0015 24.3 2.8 42 47-89 33-74 (239)
35 PRK14189 bifunctional 5,10-met 27.3 1.9E+02 0.004 23.2 5.4 54 33-99 32-87 (285)
36 PRK14170 bifunctional 5,10-met 26.7 2.4E+02 0.0052 22.6 5.9 55 32-99 30-86 (284)
37 PF11470 TUG-UBL1: GLUT4 regul 26.3 90 0.0019 19.6 2.8 33 47-81 7-39 (65)
38 PRK13277 5-formaminoimidazole- 26.2 20 0.00042 29.9 -0.3 24 29-52 87-111 (366)
39 PRK14173 bifunctional 5,10-met 25.8 1.8E+02 0.0039 23.3 5.1 53 34-99 30-84 (287)
40 COG4862 MecA Negative regulato 24.7 49 0.0011 26.0 1.6 27 57-84 37-63 (224)
41 PRK14177 bifunctional 5,10-met 24.6 2.9E+02 0.0063 22.1 6.1 52 35-99 35-88 (284)
42 PRK14176 bifunctional 5,10-met 24.6 3.4E+02 0.0073 21.8 6.4 54 33-99 38-93 (287)
43 PRK14187 bifunctional 5,10-met 24.4 3.1E+02 0.0067 22.1 6.2 54 33-99 32-87 (294)
44 cd04751 Commd3 COMM_Domain con 23.8 77 0.0017 21.0 2.3 20 79-98 65-84 (95)
45 PF05194 UreE_C: UreE urease a 23.7 1.1E+02 0.0024 19.7 3.0 26 35-67 25-50 (87)
46 PF14317 YcxB: YcxB-like prote 23.7 1.5E+02 0.0032 16.5 3.7 31 33-65 28-58 (62)
47 PLN02897 tetrahydrofolate dehy 23.3 2.1E+02 0.0045 23.7 5.1 54 33-99 86-141 (345)
48 PRK14192 bifunctional 5,10-met 22.9 2.3E+02 0.0049 22.3 5.1 54 33-99 33-88 (283)
49 cd04395 RhoGAP_ARHGAP21 RhoGAP 22.6 1.8E+02 0.0039 21.1 4.2 40 59-99 19-58 (196)
50 PRK14178 bifunctional 5,10-met 22.5 2.5E+02 0.0055 22.4 5.3 54 33-99 26-81 (279)
51 PF00763 THF_DHG_CYH: Tetrahyd 21.9 1.8E+02 0.004 19.6 3.9 56 31-99 27-84 (117)
52 PRK14194 bifunctional 5,10-met 21.7 2.5E+02 0.0055 22.6 5.2 54 33-99 33-88 (301)
53 PF08948 DUF1859: Domain of un 21.5 35 0.00076 24.3 0.3 28 33-62 86-123 (126)
54 PLN02752 [acyl-carrier protein 21.3 93 0.002 24.5 2.7 43 32-75 36-78 (343)
55 PRK10792 bifunctional 5,10-met 21.1 3.3E+02 0.0072 21.8 5.8 53 34-99 34-88 (285)
56 PF04722 Ssu72: Ssu72-like pro 21.0 95 0.0021 23.9 2.6 19 81-99 105-123 (195)
57 PRK14169 bifunctional 5,10-met 21.0 2.7E+02 0.0058 22.3 5.2 54 33-99 30-85 (282)
58 PRK14184 bifunctional 5,10-met 20.8 2.8E+02 0.0061 22.2 5.3 54 33-99 31-86 (286)
59 PRK14166 bifunctional 5,10-met 20.6 2.7E+02 0.0058 22.3 5.1 54 33-99 30-85 (282)
60 PF04341 DUF485: Protein of un 20.6 75 0.0016 20.8 1.7 12 56-67 2-13 (91)
61 PF04304 DUF454: Protein of un 20.4 70 0.0015 19.6 1.4 21 55-75 5-25 (71)
62 PF15387 DUF4611: Domain of un 20.3 79 0.0017 21.8 1.8 18 79-96 13-34 (96)
63 TIGR03793 TOMM_pelo TOMM prope 20.3 1.8E+02 0.0039 18.9 3.4 27 56-83 14-44 (77)
64 PRK14171 bifunctional 5,10-met 20.2 4.6E+02 0.01 21.0 6.5 53 34-99 33-87 (288)
65 cd06279 PBP1_LacI_like_3 Ligan 20.2 1.1E+02 0.0024 22.4 2.7 26 50-75 5-36 (283)
66 PRK14190 bifunctional 5,10-met 20.1 4.3E+02 0.0092 21.1 6.2 54 33-99 32-87 (284)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=4.9e-41 Score=232.25 Aligned_cols=96 Identities=48% Similarity=0.828 Sum_probs=86.0
Q ss_pred CCcccc----hhHHHHHHHhhhhhhccccC----CCCcCCCCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhh
Q 039975 1 MAIRVP----GIMHAKQILRQSKLCASQAT----SKSVDVPKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEF 72 (100)
Q Consensus 1 mg~~~~----~l~~~k~~l~r~~~~~~~~~----~~~~~vpkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEf 72 (100)
|||... .+.++||+|+||++.++.++ ..+.+||+||||||||+++ +||+||++|||||+|++||++|||||
T Consensus 1 m~~~k~~ki~~~~~~kq~l~r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~~~-~RfvVp~~~L~hP~F~~LL~~aeeEf 79 (104)
T PLN03090 1 MAIKKSNKLTQTAMLKQILKRCSSLGKKQGYDEDGLPLDVPKGHFPVYVGENR-SRYIVPISFLTHPEFQSLLQQAEEEF 79 (104)
T ss_pred CCcccccchhHHHHHHHHHHHHHHhcccCCcccccCCCCCCCCcEEEEECCCC-EEEEEEHHHcCCHHHHHHHHHHHHHh
Confidence 676644 36789999999999877543 3567899999999999997 99999999999999999999999999
Q ss_pred CCccCCCceeeeccHHHHHHHHHhhc
Q 039975 73 GFNHPMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 73 G~~~~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
||+|+ |+|+|||+++.|++++|+|+
T Consensus 80 Gf~~~-G~L~IPC~~~~Fe~ll~~i~ 104 (104)
T PLN03090 80 GFDHD-MGLTIPCEEVVFRSLTSMIR 104 (104)
T ss_pred CCCCC-CcEEEeCCHHHHHHHHHHhC
Confidence 99998 99999999999999999983
No 2
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=5e-40 Score=227.35 Aligned_cols=96 Identities=59% Similarity=1.034 Sum_probs=84.1
Q ss_pred CCcccchhHHH-HHHHhhhhhhccc--cCCCCcCCCCceEEEEecCC---ceeEEEEeecCCCChHHHHHHHHHHHhhCC
Q 039975 1 MAIRVPGIMHA-KQILRQSKLCASQ--ATSKSVDVPKGYLAVYVGER---QKKRFIIPVSFLNQPSFQELLSKAEEEFGF 74 (100)
Q Consensus 1 mg~~~~~l~~~-k~~l~r~~~~~~~--~~~~~~~vpkG~~~VyVG~~---~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~ 74 (100)
||+++++|... ||+|+|++...++ +++.+.+|||||||||||++ ..+|||||++|||||.|++||++|||||||
T Consensus 1 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf 80 (105)
T PLN03220 1 MGLSRFAISNATKQILKLNSLANRNRTSSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGF 80 (105)
T ss_pred CCcchhhhHHHHHHHHHHHhhcccccccccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCC
Confidence 99999999955 9999999954332 23466799999999999982 239999999999999999999999999999
Q ss_pred ccCCCceeeeccHHHHHHHHHh
Q 039975 75 NHPMGGLTIPCKEKLFIDITSS 96 (100)
Q Consensus 75 ~~~~G~L~IPC~~~~Fe~vl~~ 96 (100)
+|++|+|+|||+++.|+++++.
T Consensus 81 ~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 81 NHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred CCCCCCEEeeCCHHHHHHHHHh
Confidence 9866999999999999999863
No 3
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=100.00 E-value=3.6e-37 Score=210.80 Aligned_cols=96 Identities=49% Similarity=0.809 Sum_probs=78.4
Q ss_pred CCcccchhHHHHHHHhhhhhhcccc----CCCCcCCCCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCcc
Q 039975 1 MAIRVPGIMHAKQILRQSKLCASQA----TSKSVDVPKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNH 76 (100)
Q Consensus 1 mg~~~~~l~~~k~~l~r~~~~~~~~----~~~~~~vpkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~ 76 (100)
|-.++..+...++..+++....+.. .+...++|+||||||||+++ +||+||++|||||+|++||++|||||||++
T Consensus 1 M~~~~k~~~~~~k~~~~~~~~~~~~~~~~~~~~~~vp~G~~~VyVG~~~-~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~ 79 (100)
T PF02519_consen 1 MASRLKSLASAKKWQSRARSKSSSSSSSRSSSESDVPKGHFAVYVGEER-RRFVVPVSYLNHPLFQELLEQAEEEFGFDQ 79 (100)
T ss_pred CccHHHHHHHHHhhhhhhhhcccccccccccccCCCCCCeEEEEeCccc-eEEEechHHcCchhHHHHHHHHhhhcCcCC
Confidence 3445555555666555555433211 22347899999999999987 999999999999999999999999999999
Q ss_pred CCCceeeeccHHHHHHHHHhhc
Q 039975 77 PMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 77 ~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
+ |+|+|||+++.|++++|+|+
T Consensus 80 ~-G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 80 D-GPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred C-CcEEeeCCHHHHHHHHHHhC
Confidence 7 99999999999999999985
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=1.5e-36 Score=210.89 Aligned_cols=96 Identities=48% Similarity=0.871 Sum_probs=82.3
Q ss_pred CCcccchhHHHHHHHhhhhhhccccC-------CCCcCCCCceEEEEecCC-ceeEEEEeecCCCChHHHHHHHHHHHhh
Q 039975 1 MAIRVPGIMHAKQILRQSKLCASQAT-------SKSVDVPKGYLAVYVGER-QKKRFIIPVSFLNQPSFQELLSKAEEEF 72 (100)
Q Consensus 1 mg~~~~~l~~~k~~l~r~~~~~~~~~-------~~~~~vpkG~~~VyVG~~-~~~RfvVp~~yL~hP~F~~LL~~aeeEf 72 (100)
||+....+...||+.|-.+...++++ +.+.+|||||+|||||++ .++||+||++|||||+|++||++|||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEf 80 (108)
T PLN03219 1 MGLMRSMLPNAKQIFKSQSMRNKNGSSSPSSSTTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEEC 80 (108)
T ss_pred CchHHHHHhhHHHHHHHHHHhcccCCCCCccCCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHh
Confidence 78777888889999886665555332 244679999999999983 2499999999999999999999999999
Q ss_pred CCccCCCceeeeccHHHHHHHHHh
Q 039975 73 GFNHPMGGLTIPCKEKLFIDITSS 96 (100)
Q Consensus 73 G~~~~~G~L~IPC~~~~Fe~vl~~ 96 (100)
||+|++|+|+|||+++.|+++++.
T Consensus 81 Gf~~~~G~L~IPCd~~~F~~ll~~ 104 (108)
T PLN03219 81 GFHHSMGGLTIPCREESFLHLITS 104 (108)
T ss_pred CCCCCCCCEEEeCCHHHHHHHHHh
Confidence 999866999999999999999985
No 5
>PRK02899 adaptor protein; Provisional
Probab=82.62 E-value=1.1 Score=33.75 Aligned_cols=24 Identities=25% Similarity=0.702 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHhhCCccCCCceee
Q 039975 59 PSFQELLSKAEEEFGFNHPMGGLTI 83 (100)
Q Consensus 59 P~F~~LL~~aeeEfG~~~~~G~L~I 83 (100)
-+|.++|++|..|+||..+ |||+|
T Consensus 39 ~lF~~mm~Ea~~e~~F~~~-~pl~~ 62 (197)
T PRK02899 39 QLFRDMMQEANKELGFEAD-GPIAV 62 (197)
T ss_pred HHHHHHHHHhhhccCcccC-CeEEE
Confidence 3577889999999999986 99976
No 6
>PF02100 ODC_AZ: Ornithine decarboxylase antizyme; InterPro: IPR002993 Ornithine decarboxylase antizyme (ODC-AZ) [] binds to, and destabilises, ornithine decarboxylase (ODC), a key enzyme in polyamine synthesis. ODC is then rapidly degraded. The expression of ODC-AZ requires programmed, ribosomal frameshifting which is modulated according to the cellular concentration of polyamines. High levels of polyamines induce a +1 ribosomal frameshift in the translation of mRNA for the antizyme leading to the expression of a full-length protein. At least two forms of ODC-AZ exist in mammals [] and the protein has been found in Drosophila (protein Gutfeeling).; GO: 0004857 enzyme inhibitor activity, 0008073 ornithine decarboxylase inhibitor activity; PDB: 1ZO0_A.
Probab=80.75 E-value=2.7 Score=28.89 Aligned_cols=48 Identities=29% Similarity=0.351 Sum_probs=25.1
Q ss_pred eEEE-EeecCCCC---hHHHHHHHHHHHhhCCccCCCceeeeccHHHHHHHHHh
Q 039975 47 KRFI-IPVSFLNQ---PSFQELLSKAEEEFGFNHPMGGLTIPCKEKLFIDITSS 96 (100)
Q Consensus 47 ~Rfv-Vp~~yL~h---P~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~ 96 (100)
.=|| +|-..+.+ .-|.+|||.|||.++.++ -.+.++=+-.....++..
T Consensus 25 ~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~--vvic~~k~~~d~~~Llr~ 76 (108)
T PF02100_consen 25 TLFVFIPSSALGQGSKESLVALLELAEEKLGCSH--VVICLDKNRPDRASLLRT 76 (108)
T ss_dssp EEEEE-SS---SS--SHHHHHHHHHHHHHH------EEEEE---SS-HHHHHHH
T ss_pred EEEEEECCcccccccHHHHHHHHHHhcCcCCCCE--EEEEEECCchhHHHhhhh
Confidence 4555 46554444 459999999999999875 567777555555555543
No 7
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=77.69 E-value=11 Score=23.31 Aligned_cols=53 Identities=19% Similarity=0.362 Sum_probs=37.5
Q ss_pred EecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCc----------cCCCceeeeccHHHHHHHHHhhc
Q 039975 40 YVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFN----------HPMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 40 yVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
+-|++. +||.+|- ...|.+|..+..+.|+.. .++..++|.++ +++...+.+..
T Consensus 7 ~~~~~~-~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd-~Dl~~a~~~~~ 69 (81)
T smart00666 7 RYGGET-RRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSD-EDLEEAIEEYD 69 (81)
T ss_pred EECCEE-EEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCH-HHHHHHHHHHH
Confidence 336665 8899885 777999999999999874 12236888887 45666665443
No 8
>PRK02315 adaptor protein; Provisional
Probab=76.77 E-value=2 Score=33.01 Aligned_cols=24 Identities=25% Similarity=0.393 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHhhCCccCCCceee
Q 039975 59 PSFQELLSKAEEEFGFNHPMGGLTI 83 (100)
Q Consensus 59 P~F~~LL~~aeeEfG~~~~~G~L~I 83 (100)
-+|.++|++|..|+||..+ |||+|
T Consensus 39 ~fF~~mm~Ea~~e~~F~~~-~pl~~ 62 (233)
T PRK02315 39 EFFYSMMDEVDEEDDFADE-GPLWF 62 (233)
T ss_pred HHHHHHHHHhccccCcccC-CeEEE
Confidence 4699999999999999985 99986
No 9
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=74.48 E-value=2.7 Score=26.94 Aligned_cols=56 Identities=25% Similarity=0.228 Sum_probs=40.1
Q ss_pred EEecCCceeEEEEeecCCC-Ch--HHHHHHHHHHHhhCCccCCCceeeeccHHHHHHHHHhhc
Q 039975 39 VYVGERQKKRFIIPVSFLN-QP--SFQELLSKAEEEFGFNHPMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 39 VyVG~~~~~RfvVp~~yL~-hP--~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
+=||. ++|.++.+-|. +| .|..++........ ..+.|.+-|-++...|++|+.-++
T Consensus 3 lNVGG---~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~-~~~~~~~fiDRdp~~F~~IL~ylr 61 (94)
T PF02214_consen 3 LNVGG---TIFETSRSTLTRYPDSLLARLFSGERSDDY-DDDDGEYFIDRDPELFEYILNYLR 61 (94)
T ss_dssp EEETT---EEEEEEHHHHHTSTTSTTTSHHHTGHGGGE-ETTTTEEEESS-HHHHHHHHHHHH
T ss_pred EEECC---EEEEEcHHHHhhCCCChhhhHHhhcccccc-CCccceEEeccChhhhhHHHHHHh
Confidence 44666 56999998887 54 68888886522222 223489999999999999998765
No 10
>PF05389 MecA: Negative regulator of genetic competence (MecA); InterPro: IPR008681 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family contains several bacterial MecA proteins. In complex media competence development is poor, and there is little or no expression of late competence genes. Overexpression of MecA inhibits comG transcription [, , ]. MecA enables the recognition and targeting of unfolded and aggregated proteins to the ClpC protease or to other proteins involved in proteolysis. Acts negatively in the development of competence by binding ComK and recruiting it to the ClpCP protease. When overexpressed, inhibits sporulation. Also involved in Spx degradation by ClpC. ; PDB: 3JTP_C 2Y1R_O 3PXI_c 3PXG_b 3JTO_D 3JTN_A.
Probab=70.70 E-value=1.4 Score=33.10 Aligned_cols=25 Identities=40% Similarity=0.691 Sum_probs=0.0
Q ss_pred ChHHHHHHHHHHHhhCCccCCCceee
Q 039975 58 QPSFQELLSKAEEEFGFNHPMGGLTI 83 (100)
Q Consensus 58 hP~F~~LL~~aeeEfG~~~~~G~L~I 83 (100)
+-.|.++|++|.+|+||+.+ |+|++
T Consensus 38 e~fF~~ileea~~e~~F~~~-~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFEND-GPLTF 62 (220)
T ss_dssp --------------------------
T ss_pred HHHHHHHHHHhccccCcccC-CeEEE
Confidence 45699999999999999985 88875
No 11
>smart00153 VHP Villin headpiece domain.
Probab=49.52 E-value=9.1 Score=21.68 Aligned_cols=19 Identities=32% Similarity=0.653 Sum_probs=17.1
Q ss_pred CCCChHHHHHHHHHHHhhC
Q 039975 55 FLNQPSFQELLSKAEEEFG 73 (100)
Q Consensus 55 yL~hP~F~~LL~~aeeEfG 73 (100)
||+.-.|+.++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7889999999999999984
No 12
>PF02209 VHP: Villin headpiece domain; InterPro: IPR003128 Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia. The villin-type "headpiece" domain is a modular motif found at the extreme C terminus of larger "core" domains in over 25 cytoskeletal proteins in plants and animals, often in assocation with the Gelsolin repeat. Although the headpiece is classified as an F-actin-binding domain, it has been shown that not all headpiece domains are intrinsically F-actin-binding motifs, surface charge distribution may be an important element for F-actin recognition []. An autonomously folding, 35 residue, thermostable subdomain (HP36) of the full-length 76 amino acid residue villin headpiece, is the smallest known example of a cooperatively folded domain of a naturally occurring protein. The structure of HP36, as determined by NMR spectroscopy, consists of three short helices surrounding a tightly packed hydrophobic core []. ; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1ZV6_A 1QZP_A 1UND_A 2PPZ_A 3TJW_B 1YU8_X 2JM0_A 1WY4_A 3MYC_A 1YU5_X ....
Probab=49.37 E-value=7.6 Score=22.09 Aligned_cols=19 Identities=26% Similarity=0.620 Sum_probs=15.2
Q ss_pred CCCChHHHHHHHHHHHhhC
Q 039975 55 FLNQPSFQELLSKAEEEFG 73 (100)
Q Consensus 55 yL~hP~F~~LL~~aeeEfG 73 (100)
||+.-.|++++.++.+||.
T Consensus 1 YLsd~dF~~vFgm~~~eF~ 19 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEFY 19 (36)
T ss_dssp GS-HHHHHHHHSS-HHHHH
T ss_pred CcCHHHHHHHHCCCHHHHH
Confidence 7889999999999999984
No 13
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=46.93 E-value=17 Score=23.36 Aligned_cols=16 Identities=56% Similarity=0.924 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHhhCCc
Q 039975 60 SFQELLSKAEEEFGFN 75 (100)
Q Consensus 60 ~F~~LL~~aeeEfG~~ 75 (100)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 5899999999999985
No 14
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=46.74 E-value=97 Score=24.39 Aligned_cols=63 Identities=21% Similarity=0.243 Sum_probs=43.3
Q ss_pred CceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccC--------------CCceeeeccHHHHHHHHHhh
Q 039975 34 KGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHP--------------MGGLTIPCKEKLFIDITSSL 97 (100)
Q Consensus 34 kG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~--------------~G~L~IPC~~~~Fe~vl~~l 97 (100)
.|++.|.-.++. ..+.|.++.-.-+....++.....-|+.+.+ .-+|++|...+.||-+++.|
T Consensus 45 ~~~~~v~~~~~~-~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIAR-HTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCC-ceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 466666554443 5566666654345566778887777777655 24689999999999988866
No 15
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=45.82 E-value=67 Score=20.73 Aligned_cols=40 Identities=23% Similarity=0.286 Sum_probs=34.2
Q ss_pred ChHHHHHHHHHHHhhCCccCCCceeeeccHHHHHHHHHhh
Q 039975 58 QPSFQELLSKAEEEFGFNHPMGGLTIPCKEKLFIDITSSL 97 (100)
Q Consensus 58 hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l 97 (100)
.|.=+++|+..-..||..-++|.|.+.++.+.|-.....+
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 6777899999999999998889999999999887766543
No 16
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=44.63 E-value=58 Score=21.97 Aligned_cols=38 Identities=26% Similarity=0.371 Sum_probs=26.9
Q ss_pred CCCceEEE-EecCCceeEEEEeecCCCChHHHHHHHHHHHhh
Q 039975 32 VPKGYLAV-YVGERQKKRFIIPVSFLNQPSFQELLSKAEEEF 72 (100)
Q Consensus 32 vpkG~~~V-yVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEf 72 (100)
..-|--|+ ||.++. =++-+-=-|-|++|+|++-.+|-|
T Consensus 35 TrLGQWAIGyV~~dg---~I~QTIPqnk~L~qaLidG~reG~ 73 (86)
T PF02762_consen 35 TRLGQWAIGYVTQDG---KILQTIPQNKSLYQALIDGSREGF 73 (86)
T ss_dssp SSTTSEEEEEEETTS---EEEEE--SSS-HHHHHHHHHHTTS
T ss_pred ccccceeEEEEcCCC---cEEEecCCCchHHHHHHhccccce
Confidence 35566777 888765 356666689999999999998865
No 17
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=43.17 E-value=75 Score=19.26 Aligned_cols=55 Identities=25% Similarity=0.373 Sum_probs=38.2
Q ss_pred EEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCc---------c-CCCceeeeccHHHHHHHHHhhc
Q 039975 39 VYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFN---------H-PMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 39 VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~---------~-~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
++-+++. +||.+|. .++-|.+|..+-++.|+.. . ++-.++|.++ ++|+..+....
T Consensus 5 ~~~~~~~-~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~ 69 (81)
T cd05992 5 VKYGGEI-RRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEAR 69 (81)
T ss_pred EEecCCC-EEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHh
Confidence 4445554 8999998 8888999999999988875 1 2134566665 56776666543
No 18
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=42.28 E-value=23 Score=30.72 Aligned_cols=42 Identities=33% Similarity=0.515 Sum_probs=36.1
Q ss_pred CC-CceEEEEecCCceeEEEEee-----cCCCChH-HHHHHHHHHHhhCC
Q 039975 32 VP-KGYLAVYVGERQKKRFIIPV-----SFLNQPS-FQELLSKAEEEFGF 74 (100)
Q Consensus 32 vp-kG~~~VyVG~~~~~RfvVp~-----~yL~hP~-F~~LL~~aeeEfG~ 74 (100)
+| ||.+|+++-.++ .||.|-+ .|+|-+. -++||++=..|||-
T Consensus 93 ~~~kg~lP~LT~~~k-GRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~V 141 (487)
T PF12062_consen 93 ASGKGDLPVLTDNDK-GRYSLIIFENLLKYLNLDSWNRELLDKYCREYGV 141 (487)
T ss_pred ccCCCCCCccccCCC-CcEEEEEehhHHHHcCChHHHHHHHHHHhHccCc
Confidence 44 689999997766 8998887 8999998 89999999999974
No 19
>PF12058 DUF3539: Protein of unknown function (DUF3539); InterPro: IPR021926 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved NHP sequence motif. ; PDB: 3N5B_B 2XKO_C 2XG8_F.
Probab=41.40 E-value=4.6 Score=27.47 Aligned_cols=11 Identities=45% Similarity=0.966 Sum_probs=8.0
Q ss_pred cCCCChHHHHH
Q 039975 54 SFLNQPSFQEL 64 (100)
Q Consensus 54 ~yL~hP~F~~L 64 (100)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58999998644
No 20
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=40.65 E-value=73 Score=21.46 Aligned_cols=54 Identities=26% Similarity=0.308 Sum_probs=36.0
Q ss_pred EEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccC------------CCceeeeccHHHHHHHHHhh
Q 039975 38 AVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHP------------MGGLTIPCKEKLFIDITSSL 97 (100)
Q Consensus 38 ~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~------------~G~L~IPC~~~~Fe~vl~~l 97 (100)
.=|||.+. +-..|+-+ ..|.+|..+..+.++..+. ++-+.|.||. +..+++...
T Consensus 17 l~Y~GG~t-r~i~V~r~----~s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~De-Dl~~M~~e~ 82 (97)
T cd06410 17 LRYVGGET-RIVSVDRS----ISFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDE-DLKNMMEEY 82 (97)
T ss_pred EEEcCCce-EEEEEcCC----CCHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcH-HHHHHHHhh
Confidence 46999985 66667665 4677888888888876651 2567788885 444444443
No 21
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=37.37 E-value=1e+02 Score=19.22 Aligned_cols=54 Identities=20% Similarity=0.479 Sum_probs=36.6
Q ss_pred EEEEecCCceeEEEEeecCC--CChHHHHHHHHHHHhhCCccCCC--ceeee-ccHHHHHHHHHhh
Q 039975 37 LAVYVGERQKKRFIIPVSFL--NQPSFQELLSKAEEEFGFNHPMG--GLTIP-CKEKLFIDITSSL 97 (100)
Q Consensus 37 ~~VyVG~~~~~RfvVp~~yL--~hP~F~~LL~~aeeEfG~~~~~G--~L~IP-C~~~~Fe~vl~~l 97 (100)
+.+.||++ ++|-+.-..| ..|.|+.++... +.... + .+.++ |+.+.|+.++.-+
T Consensus 13 ~~i~v~d~--~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~-~~~~i~~~~~~~~~~~~~l~~~ 71 (111)
T PF00651_consen 13 VTIRVGDG--KTFYVHKNILAARSPYFRNLFEGS----KFKES-TVPEISLPDVSPEAFEAFLEYM 71 (111)
T ss_dssp EEEEETTT--EEEEE-HHHHHHHBHHHHHHHTTT----TSTTS-SEEEEEETTSCHHHHHHHHHHH
T ss_pred EEEEECCC--EEEeechhhhhccchhhhhccccc----ccccc-cccccccccccccccccccccc
Confidence 45667763 7788888877 568999999888 21212 3 35545 8889999888754
No 22
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.82 E-value=1.5e+02 Score=23.72 Aligned_cols=52 Identities=15% Similarity=0.250 Sum_probs=39.0
Q ss_pred ceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 35 GYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 35 G~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+...|.||++. ..-.....-.+++|+.|...+ .+.+| |+.+.+...+..||.
T Consensus 34 ~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 87 (278)
T PRK14172 34 KIASILVGNDG-----------GSIYYMNNQEKVANSLGIDFK--KIKLDESISEEDLINEIEELNK 87 (278)
T ss_pred eEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 77788999863 122344566788999998864 57788 888899999888874
No 23
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.73 E-value=1.5e+02 Score=23.88 Aligned_cols=54 Identities=20% Similarity=0.307 Sum_probs=40.3
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.+++|++|++.+ .+.+| ++.++|...+..|+.
T Consensus 32 ~p~LaiI~vgdd~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 87 (297)
T PRK14186 32 PPGLAVLRVGDDP-----------ASAVYVRNKEKACARVGIASF--GKHLPADTSQAEVEALIAQLNQ 87 (297)
T ss_pred CceEEEEEeCCCh-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 223456667788999999865 46665 888899999988874
No 24
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=32.94 E-value=19 Score=29.99 Aligned_cols=24 Identities=29% Similarity=0.676 Sum_probs=18.0
Q ss_pred cCCCCceEEEEecCC-ceeEEEEee
Q 039975 30 VDVPKGYLAVYVGER-QKKRFIIPV 53 (100)
Q Consensus 30 ~~vpkG~~~VyVG~~-~~~RfvVp~ 53 (100)
--+|.|.|++|||-+ ....|.||+
T Consensus 88 I~IP~gSfv~Y~G~d~ie~~~~vP~ 112 (361)
T COG1759 88 IFIPHGSFVAYVGYDGIENEFEVPM 112 (361)
T ss_pred EEecCCceEEEecchhhhhcccCcc
Confidence 568999999999964 225577764
No 25
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=32.40 E-value=58 Score=26.70 Aligned_cols=49 Identities=20% Similarity=0.402 Sum_probs=36.3
Q ss_pred eeEEEEeecCCCC--hHHHHHHHH---HHHhhCCccCCCceeeeccHHHHHHHHHhhc
Q 039975 46 KKRFIIPVSFLNQ--PSFQELLSK---AEEEFGFNHPMGGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 46 ~~RfvVp~~yL~h--P~F~~LL~~---aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~ 98 (100)
++=|.-|.+.|-. ..|++.|.. +.++.. + =.|.+-||+..|+.++.-++
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~~---~-idisVhCDv~iF~WLm~yv~ 66 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRWE---E-IDISVHCDVHIFEWLMRYVK 66 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcCC---C-cceEEecChhHHHHHHHHhh
Confidence 3678888888854 559999966 333332 2 45899999999999987665
No 26
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=32.32 E-value=59 Score=24.15 Aligned_cols=36 Identities=22% Similarity=0.480 Sum_probs=29.0
Q ss_pred ceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccC
Q 039975 35 GYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHP 77 (100)
Q Consensus 35 G~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~ 77 (100)
|.++++||.+-... .+-|...+|++...++++.+.+
T Consensus 1 g~lvlFiGAG~S~~-------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSVS-------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCccccc-------cCCCChHHHHHHHHHHcCCccc
Confidence 78899999974222 5789999999999999987643
No 27
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=30.67 E-value=1.3e+02 Score=18.30 Aligned_cols=54 Identities=26% Similarity=0.309 Sum_probs=33.7
Q ss_pred EEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCc----------cCCCceeeeccHHHHHHHHHhh
Q 039975 39 VYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFN----------HPMGGLTIPCKEKLFIDITSSL 97 (100)
Q Consensus 39 VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~~G~L~IPC~~~~Fe~vl~~l 97 (100)
++-+++. +| .+..-..+-|.+|..+.++.||.. .++-.++|.++ +.++..+...
T Consensus 6 ~~~~~~~-~~---~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd-~Dl~~a~~~~ 69 (84)
T PF00564_consen 6 VRYGGDI-RR---IISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSD-EDLQEAIEQA 69 (84)
T ss_dssp EEETTEE-EE---EEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSH-HHHHHHHHHH
T ss_pred EEECCee-EE---EEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCH-HHHHHHHHHH
Confidence 3445543 44 333445679999999999999983 22125777776 4555555543
No 28
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=30.59 E-value=63 Score=22.94 Aligned_cols=27 Identities=33% Similarity=0.602 Sum_probs=23.1
Q ss_pred CceEEEEecCCceeEEEEeecCCCChHHH
Q 039975 34 KGYLAVYVGERQKKRFIIPVSFLNQPSFQ 62 (100)
Q Consensus 34 kG~~~VyVG~~~~~RfvVp~~yL~hP~F~ 62 (100)
++-|-||||++ +=|++-..|-+-|.|.
T Consensus 32 ~~~~fVyvG~~--rdYIl~~gfCSCp~~~ 58 (117)
T COG5431 32 KVKFFVYVGKE--RDYILEGGFCSCPDFL 58 (117)
T ss_pred eEEEEEEEccc--cceEEEcCcccCHHHH
Confidence 45589999998 5599999999999987
No 29
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.55 E-value=2e+02 Score=22.99 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=40.3
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.+++|++|++.+ .+.+| ++.++|...+..|+.
T Consensus 32 ~p~La~i~vg~~~-----------~s~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~i~~lN~ 87 (296)
T PRK14188 32 TPGLAVVLVGEDP-----------ASQVYVRSKGKQTKEAGMASF--EHKLPADTSQAELLALIARLNA 87 (296)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4588888999863 123455667788999999864 46666 888899999988874
No 30
>PF11876 DUF3396: Protein of unknown function (DUF3396); InterPro: IPR021815 This family of proteins are functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 302 to 382 amino acids in length.
Probab=30.50 E-value=43 Score=25.32 Aligned_cols=38 Identities=26% Similarity=0.551 Sum_probs=30.1
Q ss_pred eEEEEeecCCCC-h-HHHHHHHHHHHhhCCccCCCceeee
Q 039975 47 KRFIIPVSFLNQ-P-SFQELLSKAEEEFGFNHPMGGLTIP 84 (100)
Q Consensus 47 ~RfvVp~~yL~h-P-~F~~LL~~aeeEfG~~~~~G~L~IP 84 (100)
-+|.+|++||.. | .|++|+...++++...|-.+++.+-
T Consensus 25 l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~G~aGl~~~ 64 (208)
T PF11876_consen 25 LSFSLPLEWLEEGPGHFRALFLELAERLPPSHGYAGLAFN 64 (208)
T ss_pred EEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCeEeeEEEEe
Confidence 679999999987 2 4999999999988777654566554
No 31
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.19 E-value=2.1e+02 Score=22.83 Aligned_cols=54 Identities=15% Similarity=0.338 Sum_probs=40.9
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.+++|+.|+..+ .+.+| ++.+.|...+..||.
T Consensus 32 ~P~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~~l~~~I~~lN~ 87 (284)
T PRK14179 32 VPGLVVILVGDNP-----------ASQVYVRNKERSALAAGFKSE--VVRLPETISQEELLDLIERYNQ 87 (284)
T ss_pred CceEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 3478888999863 223455667788999999865 67888 888999999998874
No 32
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.46 E-value=1.5e+02 Score=23.78 Aligned_cols=54 Identities=17% Similarity=0.270 Sum_probs=41.2
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|+||++. ..-....--.+++||.|++.+ .+.+| ++.+.|...+..||.
T Consensus 32 ~P~LaiI~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~t~~el~~~I~~lN~ 87 (284)
T PRK14193 32 TPGLGTVLVGDDP-----------GSQAYVRGKHRDCAEVGITSI--RRDLPADATQEELNAVIDELNA 87 (284)
T ss_pred CceEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4477888999863 223456677888999999865 57778 888999999988874
No 33
>PF12518 DUF3721: Protein of unknown function; InterPro: IPR022196 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) that may be functionally important.
Probab=27.94 E-value=42 Score=18.96 Aligned_cols=22 Identities=36% Similarity=0.752 Sum_probs=16.4
Q ss_pred HHHHHhhCCc--cCCCceeeeccH
Q 039975 66 SKAEEEFGFN--HPMGGLTIPCKE 87 (100)
Q Consensus 66 ~~aeeEfG~~--~~~G~L~IPC~~ 87 (100)
++.+.++|.. |++|....||+.
T Consensus 8 e~~A~~~GC~G~H~mg~~WMPC~~ 31 (34)
T PF12518_consen 8 EKRAKELGCKGAHKMGDKWMPCSN 31 (34)
T ss_pred HHHHHHcCCcchhhccCccccCcc
Confidence 4455678876 558999999974
No 34
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=27.50 E-value=67 Score=24.25 Aligned_cols=42 Identities=12% Similarity=0.105 Sum_probs=28.8
Q ss_pred eEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeeeccHHH
Q 039975 47 KRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIPCKEKL 89 (100)
Q Consensus 47 ~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~ 89 (100)
.+.++..+-.. -.++.|.+++|+-.|...++-.+++|+....
T Consensus 33 ~g~I~d~~~~~-~~l~~l~~~a~~~~g~~~~~vvisVP~~~~~ 74 (239)
T TIGR02529 33 DGIVVDFLGAV-EIVRRLKDTLEQKLGIELTHAATAIPPGTIE 74 (239)
T ss_pred CCeEEEhHHHH-HHHHHHHHHHHHHhCCCcCcEEEEECCCCCc
Confidence 44444444332 3588899999888888766578999987643
No 35
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=27.34 E-value=1.9e+02 Score=23.18 Aligned_cols=54 Identities=22% Similarity=0.279 Sum_probs=41.7
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.++.+|.|+..+ .+.+| ++.+.|+..+..||.
T Consensus 32 ~p~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~~l~~~I~~lN~ 87 (285)
T PRK14189 32 QPGLAVILVGDNP-----------ASQVYVRNKVKACEDNGFHSL--KDRYPADLSEAELLARIDELNR 87 (285)
T ss_pred CCeEEEEEeCCCc-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHcC
Confidence 4478888999863 233456677889999999865 57788 888999999998875
No 36
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.68 E-value=2.4e+02 Score=22.61 Aligned_cols=55 Identities=24% Similarity=0.383 Sum_probs=40.6
Q ss_pred CCCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 32 VPKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 32 vpkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
.+.+...|.||++. ..-....--.++++++|+..+ .+.+| ++.++|...+..||+
T Consensus 30 ~~P~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 86 (284)
T PRK14170 30 KKPGLAVVLVGDNQ-----------ASRTYVRNKQKRTEEAGMKSV--LIELPENVTEEKLLSVVEELNE 86 (284)
T ss_pred CCCeEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 34478888999863 223456677788999998865 56777 777888888888874
No 37
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=26.34 E-value=90 Score=19.60 Aligned_cols=33 Identities=24% Similarity=0.480 Sum_probs=19.3
Q ss_pred eEEEEeecCCCChHHHHHHHHHHHhhCCccCCCce
Q 039975 47 KRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGL 81 (100)
Q Consensus 47 ~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L 81 (100)
+|+.|++.= .-.+.++|++|-+.||++.+.+.|
T Consensus 7 rr~~vkvtp--~~~l~~VL~eac~k~~l~~~~~~L 39 (65)
T PF11470_consen 7 RRFKVKVTP--NTTLNQVLEEACKKFGLDPSSYDL 39 (65)
T ss_dssp -EEEE---T--TSBHHHHHHHHHHHTT--GGG-EE
T ss_pred cEEEEEECC--CCCHHHHHHHHHHHcCCCccceEE
Confidence 677777653 336788999999999998654444
No 38
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=26.24 E-value=20 Score=29.89 Aligned_cols=24 Identities=38% Similarity=0.635 Sum_probs=18.6
Q ss_pred CcCCCCceEEEEecCCce-eEEEEe
Q 039975 29 SVDVPKGYLAVYVGERQK-KRFIIP 52 (100)
Q Consensus 29 ~~~vpkG~~~VyVG~~~~-~RfvVp 52 (100)
.--+|.|.|++|||-+.- ..|-||
T Consensus 87 ~i~iPh~sf~~y~g~~~ie~~~~vp 111 (366)
T PRK13277 87 AIFVPNRSFAVYVGYDAIENEFKVP 111 (366)
T ss_pred eEEecCCCeEEEecHHHHhhcCCCC
Confidence 356899999999998642 368888
No 39
>PRK14173 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.75 E-value=1.8e+02 Score=23.31 Aligned_cols=53 Identities=17% Similarity=0.333 Sum_probs=40.3
Q ss_pred CceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 34 KGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 34 kG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
.+...|.||++. ..-....--.+++|++|++.+ .+.+| ++.+.|...+..||.
T Consensus 30 P~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 84 (287)
T PRK14173 30 PHLRVVRLGEDP-----------ASVSYVRLKDRQAKALGLRSQ--VEVLPESTSQEELLELIARLNA 84 (287)
T ss_pred CcEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 478888999863 122445667788999999865 67888 888999999988875
No 40
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=24.70 E-value=49 Score=25.99 Aligned_cols=27 Identities=26% Similarity=0.366 Sum_probs=23.4
Q ss_pred CChHHHHHHHHHHHhhCCccCCCceeee
Q 039975 57 NQPSFQELLSKAEEEFGFNHPMGGLTIP 84 (100)
Q Consensus 57 ~hP~F~~LL~~aeeEfG~~~~~G~L~IP 84 (100)
.|-+|-++++.+.+|-+|..+ |+|+|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~-GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDE-GPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccC-CceEEE
Confidence 466899999999999999887 999874
No 41
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.62 E-value=2.9e+02 Score=22.12 Aligned_cols=52 Identities=13% Similarity=0.256 Sum_probs=39.5
Q ss_pred ceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 35 GYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 35 G~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+...|.||++. ..-....--.++.+++|+..+ .+.+| |+.+.|...+..||.
T Consensus 35 ~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~s~~el~~~I~~lN~ 88 (284)
T PRK14177 35 KLATILVGNNP-----------ASETYVSMKVKACHKVGMGSE--MIRLKEQTTTEELLGVIDKLNL 88 (284)
T ss_pred eEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 67788999863 123445667788999999865 57777 888999999998874
No 42
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.58 E-value=3.4e+02 Score=21.79 Aligned_cols=54 Identities=22% Similarity=0.391 Sum_probs=41.1
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.++.|+.|+..+ .+.+| ++.+.+...+..||.
T Consensus 38 ~P~Laii~vg~d~-----------aS~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~el~~~I~~LN~ 93 (287)
T PRK14176 38 TPGLATILVGDDP-----------ASKMYVRLKHKACERVGIRAE--DQFLPADTTQEELLELIDSLNK 93 (287)
T ss_pred CCeEEEEEECCCc-----------chHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 233556777889999999865 57777 778889999988874
No 43
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.41 E-value=3.1e+02 Score=22.08 Aligned_cols=54 Identities=17% Similarity=0.306 Sum_probs=39.8
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-.....-.+++++.|+..+ -+.+| ++.+.|...+..||.
T Consensus 32 ~P~LaiI~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~e~~l~~~I~~lN~ 87 (294)
T PRK14187 32 FPCLIVILVGDDP-----------ASQLYVRNKQRKAEMLGLRSE--TILLPSTISESSLIEKINELNN 87 (294)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 233456677788999998865 56776 677888888888864
No 44
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=23.76 E-value=77 Score=20.99 Aligned_cols=20 Identities=15% Similarity=0.413 Sum_probs=18.1
Q ss_pred CceeeeccHHHHHHHHHhhc
Q 039975 79 GGLTIPCKEKLFIDITSSLN 98 (100)
Q Consensus 79 G~L~IPC~~~~Fe~vl~~l~ 98 (100)
..+.+-|+++.|.+++..|.
T Consensus 65 ~~i~f~c~~e~L~~Li~~Lk 84 (95)
T cd04751 65 PDINFTCTLEQLQDLVNKLK 84 (95)
T ss_pred ceEEEEeCHHHHHHHHHHHH
Confidence 47999999999999999875
No 45
>PF05194 UreE_C: UreE urease accessory protein, C-terminal domain; InterPro: IPR007864 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The C-terminal domain of this protein is the metal-binding region, which can bind up to six Ni molecules per dimer. Most members of this group contain a histidine-rich C-terminal motif that is involved in, but not solely responsible for, binding nickel ions in K. aerogenes UreE []. However, internal ligands, not the histidine residues at the C terminus, are necessary for UreE to assist in urease activation in K. aerogenes [], even though the truncated protein lacking the His-rich region binds two nickel ions instead of six. In H. pylori and some other organisms, the terminal histidine-rich binding sites are absent, but the internal histidine sites are present, and the latter probably function as nickel donors. Deletion analysis shows that this domain alone is sufficient for metal-binding and activation of urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=23.70 E-value=1.1e+02 Score=19.65 Aligned_cols=26 Identities=23% Similarity=0.492 Sum_probs=16.8
Q ss_pred ceEEEEecCCceeEEEEeecCCCChHHHHHHHH
Q 039975 35 GYLAVYVGERQKKRFIIPVSFLNQPSFQELLSK 67 (100)
Q Consensus 35 G~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~ 67 (100)
-|+|++++++. ..|| ..+.+.+||++
T Consensus 25 rH~p~~i~~~~---l~v~----~d~~l~~~L~~ 50 (87)
T PF05194_consen 25 RHWPLFIEEDE---LYVP----YDHVLEELLRK 50 (87)
T ss_dssp TT--EEEETTE---EEEE------HHHHHHHHH
T ss_pred CccceEEcCCE---EEec----CcHHHHHHHHH
Confidence 37899999874 8888 56666777776
No 46
>PF14317 YcxB: YcxB-like protein
Probab=23.68 E-value=1.5e+02 Score=16.54 Aligned_cols=31 Identities=29% Similarity=0.601 Sum_probs=22.8
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHH
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELL 65 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL 65 (100)
-+.++-+|+++. .-++||-+.++.-...++.
T Consensus 28 ~~~~~~l~~~~~--~~~~iPk~~f~~~e~~~f~ 58 (62)
T PF14317_consen 28 TKDYFYLYLGKN--QAFIIPKRAFSEEEKEEFR 58 (62)
T ss_pred eCCEEEEEECCC--eEEEEEHHHCCHhHHHHHH
Confidence 467788899876 6799999999844444443
No 47
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=23.32 E-value=2.1e+02 Score=23.71 Aligned_cols=54 Identities=24% Similarity=0.370 Sum_probs=40.1
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.+++|++|+..+ .+.+| ++.+++...+..||.
T Consensus 86 ~P~LaiIlvGddp-----------aS~~Yv~~k~K~a~~~GI~~~--~~~l~~~~te~ell~~I~~lN~ 141 (345)
T PLN02897 86 VPGLAVVLVGQQR-----------DSQTYVRNKIKACEETGIKSL--LAELPEDCTEGQILSALRKFNE 141 (345)
T ss_pred CCeEEEEEeCCCh-----------HHHHHHHHHHHHHHhcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 3478888999863 112455667788999999865 57777 778889999888874
No 48
>PRK14192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.89 E-value=2.3e+02 Score=22.35 Aligned_cols=54 Identities=11% Similarity=0.236 Sum_probs=39.5
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceee--eccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTI--PCKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~I--PC~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-.....-.++.++.|.+.. -+.+ .|+.+.|+.++..++.
T Consensus 33 ~p~L~~i~vg~~~-----------~s~~Y~~~~~~~~~~~Gi~~~--~~~l~~~~~~~~l~~~i~~Ln~ 88 (283)
T PRK14192 33 TPILATILVGDDP-----------ASATYVRMKGNACRRVGMDSL--KVELPQETTTEQLLAKIEELNA 88 (283)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCeEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4488888999863 233456777888899998754 4666 4888889988888764
No 49
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=22.59 E-value=1.8e+02 Score=21.14 Aligned_cols=40 Identities=20% Similarity=0.289 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHhhCCccCCCceeeeccHHHHHHHHHhhcC
Q 039975 59 PSFQELLSKAEEEFGFNHPMGGLTIPCKEKLFIDITSSLNG 99 (100)
Q Consensus 59 P~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~~ 99 (100)
|.|-+..-..-++.|.+.+ |.-++|.+...-+++...+++
T Consensus 19 P~iv~~~~~~l~~~g~~~e-GIFR~~g~~~~i~~l~~~l~~ 58 (196)
T cd04395 19 PLIVEVCCNIVEARGLETV-GIYRVPGNNAAISALQEELNR 58 (196)
T ss_pred ChHHHHHHHHHHHcCCCCc-cceeCCCcHHHHHHHHHHHhc
Confidence 5555555556678898887 999999999888888887764
No 50
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.52 E-value=2.5e+02 Score=22.39 Aligned_cols=54 Identities=19% Similarity=0.343 Sum_probs=40.0
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.+++|+.|++.+ .+.+| ++.++|...+..||.
T Consensus 26 ~P~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 81 (279)
T PRK14178 26 YPRLATVIVGDDP-----------ASQMYVRMKHRACERVGIGSV--GIELPGDATTRTVLERIRRLNE 81 (279)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 122345667788999999865 56776 778889999988874
No 51
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=21.88 E-value=1.8e+02 Score=19.62 Aligned_cols=56 Identities=20% Similarity=0.367 Sum_probs=35.5
Q ss_pred CCCCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 31 DVPKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 31 ~vpkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
..+.+...|+||++. ..-.......++.+++|..-. ...+| ++.+.|...+..+|.
T Consensus 27 ~~~P~Laii~vg~d~-----------~S~~Y~~~k~k~~~~~Gi~~~--~~~l~~~~~~~el~~~i~~lN~ 84 (117)
T PF00763_consen 27 GITPKLAIILVGDDP-----------ASISYVRSKQKAAEKLGIEFE--LIELPEDISEEELLELIEKLNE 84 (117)
T ss_dssp T---EEEEEEES--H-----------HHHHHHHHHHHHHHHHT-EEE--EEEE-TTSSHHHHHHHHHHHHH
T ss_pred CCCcEEEEEecCCCh-----------hHHHHHHHHHHHHHHcCCceE--EEECCCCcCHHHHHHHHHHHhC
Confidence 456788889999863 123466778888999998764 56665 677778888877763
No 52
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.68 E-value=2.5e+02 Score=22.63 Aligned_cols=54 Identities=15% Similarity=0.234 Sum_probs=40.9
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-.....-.+++|+.|...+ .+.+| ++.+.+...+..||.
T Consensus 33 ~P~LaiI~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~t~~~l~~~I~~lN~ 88 (301)
T PRK14194 33 EPALAVILVGNDP-----------ASQVYVRNKILRAEEAGIRSL--EHRLPADTSQARLLALIAELNA 88 (301)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHcC
Confidence 4588888999863 123455677889999999865 57777 788899999988874
No 53
>PF08948 DUF1859: Domain of unknown function (DUF1859); InterPro: IPR015043 This entry is represented by Bacteriophage PRD1, P5. This protein has no known function though it is sometimes found in the N terminus of bacteriophage spike proteins []. ; PDB: 1W8X_N.
Probab=21.47 E-value=35 Score=24.27 Aligned_cols=28 Identities=36% Similarity=0.689 Sum_probs=7.1
Q ss_pred CCceEEEEecCCceeEEE----------EeecCCCChHHH
Q 039975 33 PKGYLAVYVGERQKKRFI----------IPVSFLNQPSFQ 62 (100)
Q Consensus 33 pkG~~~VyVG~~~~~Rfv----------Vp~~yL~hP~F~ 62 (100)
..||+|+.|-.. -+|+ +|+-|||.|+-+
T Consensus 86 ~QGYfPlL~~~~--~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 86 KQGYFPLLVPGR--AKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp --SS--EEE--S--SSSEEEEEEEESS----S--------
T ss_pred Ccccceeeccch--hhhhhhhccCCCcceeeEEEeceeee
Confidence 479999998543 2233 788899988644
No 54
>PLN02752 [acyl-carrier protein] S-malonyltransferase
Probab=21.32 E-value=93 Score=24.45 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=28.2
Q ss_pred CCCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCc
Q 039975 32 VPKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFN 75 (100)
Q Consensus 32 vpkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~ 75 (100)
.+.-.+-++-|++. .+--.=-+|.++|.|+++++++++-.|++
T Consensus 36 ~~~~~a~lFpGQGs-q~~gm~~~~~~~p~~~~~~~~~~~~lg~~ 78 (343)
T PLN02752 36 YKPTTAFLFPGQGA-QAVGMGKEAAEVPAAKALFDKASEILGYD 78 (343)
T ss_pred CCCCEEEEECCCCc-chhhHHHHHHhCHHHHHHHHHHHHHhCCC
Confidence 34445556667753 22222223778999999999999988865
No 55
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.13 E-value=3.3e+02 Score=21.76 Aligned_cols=53 Identities=26% Similarity=0.395 Sum_probs=40.2
Q ss_pred CceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 34 KGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 34 kG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
.+...|.||++. ..-....--.++++|.|++.+ .+.+| ++.++|...+..||.
T Consensus 34 P~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~s~~el~~~I~~lN~ 88 (285)
T PRK10792 34 PGLAVVLVGSDP-----------ASQVYVASKRKACEEVGFVSR--SYDLPETTSEAELLALIDELNA 88 (285)
T ss_pred ceEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 477788999863 123456677788999999864 57777 888999999998874
No 56
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=21.05 E-value=95 Score=23.87 Aligned_cols=19 Identities=32% Similarity=0.740 Sum_probs=17.1
Q ss_pred eeeeccHHHHHHHHHhhcC
Q 039975 81 LTIPCKEKLFIDITSSLNG 99 (100)
Q Consensus 81 L~IPC~~~~Fe~vl~~l~~ 99 (100)
+.|.|++.+|..|+.-|.+
T Consensus 105 vIiTcEERvfD~Vvedl~~ 123 (195)
T PF04722_consen 105 VIITCEERVFDQVVEDLNS 123 (195)
T ss_dssp EEEESSHHHHHHHHHHHHC
T ss_pred EEEEechHHHHHHHHHHHh
Confidence 8999999999999998764
No 57
>PRK14169 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.99 E-value=2.7e+02 Score=22.28 Aligned_cols=54 Identities=15% Similarity=0.233 Sum_probs=39.9
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.++++++|+..+ -+.+| ++.+.|...+..|+.
T Consensus 30 ~P~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 85 (282)
T PRK14169 30 TPTLAVVLVGSDP-----------ASEVYVRNKQRRAEDIGVRSL--MFRLPEATTQADLLAKVAELNH 85 (282)
T ss_pred CCeEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 3478888999863 123345667788899999865 56777 888889999988874
No 58
>PRK14184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.83 E-value=2.8e+02 Score=22.20 Aligned_cols=54 Identities=20% Similarity=0.361 Sum_probs=40.7
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.++.++.|+..+ .+.+| ++.+.|...+..||.
T Consensus 31 ~P~Laii~vg~d~-----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~~l~~~I~~lN~ 86 (286)
T PRK14184 31 APGLAVILVGEDP-----------ASQVYVRNKERACEDAGIVSE--AFRLPADTTQEELEDLIAELNA 86 (286)
T ss_pred CCEEEEEEeCCCh-----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 122445667788999999865 57777 888999999998875
No 59
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.59 E-value=2.7e+02 Score=22.26 Aligned_cols=54 Identities=17% Similarity=0.269 Sum_probs=40.6
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
..+...|.||++. ..-....--.++++++|++.+ .+.+| ++.+.|...+..|+.
T Consensus 30 ~P~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~t~~~l~~~I~~lN~ 85 (282)
T PRK14166 30 ESCLAVILVGDNP-----------ASQTYVKSKAKACEECGIKSL--VYHLNENTTQNELLALINTLNH 85 (282)
T ss_pred CceEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4478888999863 123455667788999999864 57777 888899999988874
No 60
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=20.56 E-value=75 Score=20.79 Aligned_cols=12 Identities=50% Similarity=0.941 Sum_probs=10.4
Q ss_pred CCChHHHHHHHH
Q 039975 56 LNQPSFQELLSK 67 (100)
Q Consensus 56 L~hP~F~~LL~~ 67 (100)
++||.|++|.++
T Consensus 2 ~~~p~f~~L~r~ 13 (91)
T PF04341_consen 2 LRSPEFQELVRR 13 (91)
T ss_pred CCCHHHHHHHHH
Confidence 589999999876
No 61
>PF04304 DUF454: Protein of unknown function (DUF454); InterPro: IPR007401 This is a predicted membrane protein.
Probab=20.36 E-value=70 Score=19.56 Aligned_cols=21 Identities=29% Similarity=0.388 Sum_probs=17.3
Q ss_pred CCCChHHHHHHHHHHHhhCCc
Q 039975 55 FLNQPSFQELLSKAEEEFGFN 75 (100)
Q Consensus 55 yL~hP~F~~LL~~aeeEfG~~ 75 (100)
.+|||.|+..++.-+|.=|..
T Consensus 5 l~~h~~~g~~I~~w~~~r~i~ 25 (71)
T PF04304_consen 5 LLNHRLFGPYIRNWEEHRGIP 25 (71)
T ss_pred HHcCchhHHHHHHHHHCCCcC
Confidence 579999999999988865544
No 62
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=20.30 E-value=79 Score=21.82 Aligned_cols=18 Identities=28% Similarity=0.606 Sum_probs=13.1
Q ss_pred Cceeeecc----HHHHHHHHHh
Q 039975 79 GGLTIPCK----EKLFIDITSS 96 (100)
Q Consensus 79 G~L~IPC~----~~~Fe~vl~~ 96 (100)
--|++||+ .+-|+.+|+-
T Consensus 13 q~lrv~ce~p~~~d~~q~LlsG 34 (96)
T PF15387_consen 13 QRLRVPCEAPGDADPFQGLLSG 34 (96)
T ss_pred ceEEEeeecCCCcccHHHHHHH
Confidence 46899998 4677777654
No 63
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=20.26 E-value=1.8e+02 Score=18.85 Aligned_cols=27 Identities=22% Similarity=0.411 Sum_probs=17.8
Q ss_pred CCChHHHHHH----HHHHHhhCCccCCCceee
Q 039975 56 LNQPSFQELL----SKAEEEFGFNHPMGGLTI 83 (100)
Q Consensus 56 L~hP~F~~LL----~~aeeEfG~~~~~G~L~I 83 (100)
-..|.|++.| ..+=+||||+-+ ..+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P-~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVP-AEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCC-CceEE
Confidence 3578899866 445578899876 44443
No 64
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.18 E-value=4.6e+02 Score=21.02 Aligned_cols=53 Identities=15% Similarity=0.154 Sum_probs=39.2
Q ss_pred CceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 34 KGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 34 kG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
.+...|.||++. ..-....--.+++++.|++.+ .+.+| ++.+.+...+..||.
T Consensus 33 P~LaiI~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~~l~~~I~~LN~ 87 (288)
T PRK14171 33 PKLAIVLVGDNP-----------ASIIYVKNKIKNAHKIGIDTL--LVNLSTTIHTNDLISKINELNL 87 (288)
T ss_pred CeEEEEEeCCCc-----------cHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHcC
Confidence 368888999863 123445666788899999864 57777 888888888888874
No 65
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.16 E-value=1.1e+02 Score=22.39 Aligned_cols=26 Identities=19% Similarity=0.379 Sum_probs=17.7
Q ss_pred EEeec---CCCChHHHHHHH---HHHHhhCCc
Q 039975 50 IIPVS---FLNQPSFQELLS---KAEEEFGFN 75 (100)
Q Consensus 50 vVp~~---yL~hP~F~~LL~---~aeeEfG~~ 75 (100)
+||.. ++.+|.|..+++ ++.+++||.
T Consensus 5 i~p~~~~~~~~~~~~~~~~~gi~~~a~~~g~~ 36 (283)
T cd06279 5 VLTDSLSYAFSDPVASQFLAGVAEVLDAAGVN 36 (283)
T ss_pred EeCCcccccccCccHHHHHHHHHHHHHHCCCE
Confidence 55542 378999999876 455667764
No 66
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.11 E-value=4.3e+02 Score=21.12 Aligned_cols=54 Identities=22% Similarity=0.331 Sum_probs=40.1
Q ss_pred CCceEEEEecCCceeEEEEeecCCCChHHHHHHHHHHHhhCCccCCCceeee--ccHHHHHHHHHhhcC
Q 039975 33 PKGYLAVYVGERQKKRFIIPVSFLNQPSFQELLSKAEEEFGFNHPMGGLTIP--CKEKLFIDITSSLNG 99 (100)
Q Consensus 33 pkG~~~VyVG~~~~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 99 (100)
+.+...|.||++. ..-....--.++.++.|+..+ .+.+| ++.++|+..+..+|.
T Consensus 32 ~P~Laii~vg~d~-----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 87 (284)
T PRK14190 32 VPGLAVILVGDDP-----------ASHSYVRGKKKAAEKVGIYSE--LYEFPADITEEELLALIDRLNA 87 (284)
T ss_pred CCeEEEEEeCCCH-----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 4477788999863 223455677888999999864 57777 778889999888874
Done!