Query 047583
Match_columns 77
No_of_seqs 115 out of 579
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 12:30:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047583.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047583hhsearch_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 6.4E-36 1.4E-40 197.5 7.1 73 3-77 13-94 (104)
2 PLN03220 uncharacterized prote 100.0 1.3E-35 2.9E-40 196.3 7.5 75 3-77 10-94 (105)
3 PLN03219 uncharacterized prote 100.0 1.6E-34 3.5E-39 191.9 7.5 77 1-77 7-96 (108)
4 PF02519 Auxin_inducible: Auxi 100.0 2.7E-32 5.8E-37 178.1 6.3 58 18-77 33-90 (100)
5 PRK02899 adaptor protein; Prov 86.8 0.66 1.4E-05 33.2 2.7 24 48-72 39-62 (197)
6 smart00666 PB1 PB1 domain. Pho 85.0 2.1 4.5E-05 25.4 3.9 29 31-64 9-37 (81)
7 PRK02315 adaptor protein; Prov 82.7 1.1 2.3E-05 32.8 2.3 24 48-72 39-62 (233)
8 cd05992 PB1 The PB1 domain is 77.1 12 0.00026 21.8 5.3 32 29-64 6-37 (81)
9 PF05389 MecA: Negative regula 76.2 0.84 1.8E-05 32.5 0.0 25 47-72 38-62 (220)
10 cd06410 PB1_UP2 Uncharacterize 67.4 11 0.00024 24.3 3.8 34 27-65 17-50 (97)
11 cd06396 PB1_NBR1 The PB1 domai 57.9 31 0.00067 21.8 4.4 42 34-77 10-59 (81)
12 PF11834 DUF3354: Domain of un 57.7 9.3 0.0002 23.4 2.0 16 49-64 27-42 (69)
13 PF02100 ODC_AZ: Ornithine dec 55.9 9.2 0.0002 25.0 1.8 32 34-65 23-58 (108)
14 PF12518 DUF3721: Protein of u 54.0 16 0.00035 19.8 2.3 22 55-76 8-31 (34)
15 smart00153 VHP Villin headpiec 53.7 5.9 0.00013 21.5 0.5 19 44-62 1-19 (36)
16 PF02209 VHP: Villin headpiece 52.5 4.8 0.0001 21.9 0.0 19 44-62 1-19 (36)
17 cd06407 PB1_NLP A PB1 domain i 48.5 61 0.0013 20.1 4.6 31 30-65 7-37 (82)
18 PF12058 DUF3539: Protein of u 47.8 3 6.4E-05 27.1 -1.4 10 43-52 4-13 (88)
19 PF00564 PB1: PB1 domain; Int 42.8 68 0.0015 18.6 4.7 32 29-64 7-38 (84)
20 TIGR03793 TOMM_pelo TOMM prope 38.9 59 0.0013 20.2 3.5 27 45-72 14-44 (77)
21 PF08948 DUF1859: Domain of un 37.9 12 0.00026 25.5 0.2 28 22-51 86-123 (126)
22 KOG1748 Acyl carrier protein/N 36.9 18 0.00039 25.0 1.0 11 57-67 97-107 (131)
23 PF11470 TUG-UBL1: GLUT4 regul 36.1 59 0.0013 19.5 3.1 34 35-70 6-39 (65)
24 PF14317 YcxB: YcxB-like prote 35.9 72 0.0016 17.0 3.6 32 22-55 28-59 (62)
25 TIGR02529 EutJ ethanolamine ut 35.7 51 0.0011 23.7 3.2 41 35-76 32-72 (239)
26 cd06399 PB1_P40 The PB1 domain 34.9 44 0.00095 21.9 2.5 29 35-63 15-43 (92)
27 PF11876 DUF3396: Protein of u 34.5 36 0.00078 24.5 2.3 39 35-73 24-64 (208)
28 cd06536 CIDE_N_ICAD CIDE_N dom 33.5 64 0.0014 20.4 3.0 39 34-77 12-50 (80)
29 cd06398 PB1_Joka2 The PB1 doma 33.1 1.3E+02 0.0028 19.0 5.0 34 31-65 8-42 (91)
30 PF04341 DUF485: Protein of un 31.4 37 0.0008 21.2 1.7 12 45-56 2-13 (91)
31 PF12062 HSNSD: heparan sulfat 31.0 40 0.00087 27.9 2.2 43 20-63 92-141 (487)
32 KOG1290 Serine/threonine prote 30.3 31 0.00068 29.0 1.5 21 21-41 62-83 (590)
33 COG5431 Uncharacterized metal- 30.1 70 0.0015 21.7 2.9 28 23-52 32-59 (117)
34 cd01406 SIR2-like Sir2-like: P 29.6 82 0.0018 22.2 3.4 36 24-66 1-36 (242)
35 PF07351 DUF1480: Protein of u 29.1 40 0.00087 21.5 1.6 10 68-77 27-36 (80)
36 COG4862 MecA Negative regulato 29.1 34 0.00074 25.6 1.4 27 46-73 37-63 (224)
37 PRK13277 5-formaminoimidazole- 28.9 16 0.00035 28.9 -0.3 29 17-47 86-115 (366)
38 COG1759 5-formaminoimidazole-4 28.7 25 0.00054 28.0 0.7 26 17-42 86-112 (361)
39 cd03397 PAP2_acid_phosphatase 28.5 42 0.00092 24.2 1.8 20 42-61 212-231 (232)
40 cd06080 MUM1_like Mutated mela 26.8 1.3E+02 0.0028 18.8 3.6 42 22-63 28-75 (80)
41 cd06279 PBP1_LacI_like_3 Ligan 25.7 82 0.0018 21.8 2.8 26 39-64 5-36 (283)
42 PF00031 Cystatin: Cystatin do 24.3 1.2E+02 0.0027 17.9 3.1 22 41-63 5-26 (94)
43 cd01615 CIDE_N CIDE_N domain, 24.1 97 0.0021 19.5 2.6 37 34-77 12-48 (78)
44 PF05194 UreE_C: UreE urease a 23.8 1.1E+02 0.0024 18.7 2.9 27 24-57 25-51 (87)
45 PF07369 DUF1488: Protein of u 22.7 1.5E+02 0.0033 17.6 3.3 20 25-45 18-37 (83)
46 COG1724 Predicted RNA binding 22.5 2E+02 0.0043 17.7 4.1 55 3-58 7-64 (66)
47 PF02762 Cbl_N3: CBL proto-onc 22.1 67 0.0014 20.7 1.6 30 29-61 44-73 (86)
48 PF01584 CheW: CheW-like domai 21.9 1.2E+02 0.0026 18.6 2.8 19 25-46 2-20 (138)
49 COG0763 LpxB Lipid A disacchar 21.3 55 0.0012 26.2 1.4 36 35-70 151-191 (381)
50 PF08861 DUF1828: Domain of un 21.1 93 0.002 19.0 2.1 30 47-76 44-73 (90)
51 PRK10800 acyl-CoA thioesterase 21.1 68 0.0015 20.1 1.5 20 42-61 17-36 (130)
52 cd06397 PB1_UP1 Uncharacterize 21.0 2.4E+02 0.0052 18.1 4.4 28 34-65 10-37 (82)
53 TIGR00067 glut_race glutamate 20.9 2.3E+02 0.005 20.6 4.5 56 2-75 11-70 (251)
54 PF04304 DUF454: Protein of un 20.5 77 0.0017 18.4 1.6 19 44-62 5-23 (71)
55 PRK01021 lpxB lipid-A-disaccha 20.3 82 0.0018 26.6 2.2 30 37-66 378-412 (608)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=6.4e-36 Score=197.53 Aligned_cols=73 Identities=51% Similarity=0.848 Sum_probs=66.5
Q ss_pred hhHHHHHhhhhccc---------CCCCCCcceEEEEEccCCceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEec
Q 047583 3 SNAKQVLKLQNNAK---------NQCGVPKGHVAVYVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTIP 73 (77)
Q Consensus 3 ~~~k~~l~~~~s~~---------~~~~vpkG~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IP 73 (77)
.++||+|+||.|.+ .+.+||+||||||||+ +++||+||++|||||+|++||++|||||||+|+ |+|+||
T Consensus 13 ~~~kq~l~r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~-~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~-G~L~IP 90 (104)
T PLN03090 13 AMLKQILKRCSSLGKKQGYDEDGLPLDVPKGHFPVYVGE-NRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHD-MGLTIP 90 (104)
T ss_pred HHHHHHHHHHHHhcccCCcccccCCCCCCCCcEEEEECC-CCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCC-CcEEEe
Confidence 46899999998764 2457999999999998 899999999999999999999999999999997 999999
Q ss_pred CCCC
Q 047583 74 CRED 77 (77)
Q Consensus 74 C~~d 77 (77)
|+++
T Consensus 91 C~~~ 94 (104)
T PLN03090 91 CEEV 94 (104)
T ss_pred CCHH
Confidence 9974
No 2
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=1.3e-35 Score=196.29 Aligned_cols=75 Identities=67% Similarity=1.103 Sum_probs=65.4
Q ss_pred hhHHHHHhhhhcc-------cCCCCCCcceEEEEEccC---CceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEe
Q 047583 3 SNAKQVLKLQNNA-------KNQCGVPKGHVAVYVGEL---EKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTI 72 (77)
Q Consensus 3 ~~~k~~l~~~~s~-------~~~~~vpkG~~aVyVG~~---e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~I 72 (77)
.+.||+++|+... +.+++|||||||||||++ +++||+||++|||||.|++||++|||||||+|++|+|+|
T Consensus 10 ~~~k~~~~~~~~~~~~~~~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~I 89 (105)
T PLN03220 10 NATKQILKLNSLANRNRTSSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTI 89 (105)
T ss_pred HHHHHHHHHHhhcccccccccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEe
Confidence 4569999988622 245689999999999972 589999999999999999999999999999996699999
Q ss_pred cCCCC
Q 047583 73 PCRED 77 (77)
Q Consensus 73 PC~~d 77 (77)
||+++
T Consensus 90 PCd~~ 94 (105)
T PLN03220 90 PCREE 94 (105)
T ss_pred eCCHH
Confidence 99974
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=1.6e-34 Score=191.93 Aligned_cols=77 Identities=68% Similarity=1.096 Sum_probs=65.3
Q ss_pred ChhhHHHHHhhhh------cc------cCCCCCCcceEEEEEcc-CCceEEEEecccCCChhHHHHHHHHHHhhCCCCCC
Q 047583 1 ILSNAKQVLKLQN------NA------KNQCGVPKGHVAVYVGE-LEKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPM 67 (77)
Q Consensus 1 ~~~~~k~~l~~~~------s~------~~~~~vpkG~~aVyVG~-~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~ 67 (77)
|+.++||+.|-.. ++ +.+.+|||||||||||+ +|++||+||++|||||+|++||++|||||||+|++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~ 86 (108)
T PLN03219 7 MLPNAKQIFKSQSMRNKNGSSSPSSSTTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSM 86 (108)
T ss_pred HHhhHHHHHHHHHHhcccCCCCCccCCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCC
Confidence 4678888887332 11 14567999999999998 36999999999999999999999999999999866
Q ss_pred CcEEecCCCC
Q 047583 68 GALTIPCRED 77 (77)
Q Consensus 68 G~L~IPC~~d 77 (77)
|+|+|||+++
T Consensus 87 G~L~IPCd~~ 96 (108)
T PLN03219 87 GGLTIPCREE 96 (108)
T ss_pred CCEEEeCCHH
Confidence 9999999974
No 4
>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=99.97 E-value=2.7e-32 Score=178.13 Aligned_cols=58 Identities=62% Similarity=1.110 Sum_probs=54.9
Q ss_pred CCCCCcceEEEEEccCCceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEecCCCC
Q 047583 18 QCGVPKGHVAVYVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTIPCRED 77 (77)
Q Consensus 18 ~~~vpkG~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~d 77 (77)
..++|+||||||||+ +++||+||++|||||+|++||++|||||||+++ |+|+|||+++
T Consensus 33 ~~~vp~G~~~VyVG~-~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~-G~l~iPC~~~ 90 (100)
T PF02519_consen 33 ESDVPKGHFAVYVGE-ERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQD-GPLTIPCDVV 90 (100)
T ss_pred cCCCCCCeEEEEeCc-cceEEEechHHcCchhHHHHHHHHhhhcCcCCC-CcEEeeCCHH
Confidence 367899999999998 899999999999999999999999999999996 9999999974
No 5
>PRK02899 adaptor protein; Provisional
Probab=86.81 E-value=0.66 Score=33.23 Aligned_cols=24 Identities=33% Similarity=0.732 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHhhCCCCCCCcEEe
Q 047583 48 PPFVDLLKRAEEELGFHHPMGALTI 72 (77)
Q Consensus 48 P~F~~LL~~aeeEfG~~~~~G~L~I 72 (77)
-+|.++|++|..|+||.-+ |+|+|
T Consensus 39 ~lF~~mm~Ea~~e~~F~~~-~pl~~ 62 (197)
T PRK02899 39 QLFRDMMQEANKELGFEAD-GPIAV 62 (197)
T ss_pred HHHHHHHHHhhhccCcccC-CeEEE
Confidence 3677789999999999976 99986
No 6
>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=85.03 E-value=2.1 Score=25.38 Aligned_cols=29 Identities=31% Similarity=0.583 Sum_probs=25.4
Q ss_pred ccCCceEEEEecccCCChhHHHHHHHHHHhhCCC
Q 047583 31 GELEKKRFVVPISYLSPPPFVDLLKRAEEELGFH 64 (77)
Q Consensus 31 G~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 64 (77)
|+ +.+||.+|- ...|.+|..+..+-|+..
T Consensus 9 ~~-~~~~~~~~~----~~s~~dL~~~i~~~~~~~ 37 (81)
T smart00666 9 GG-ETRRLSVPR----DISFEDLRSKVAKRFGLD 37 (81)
T ss_pred CC-EEEEEEECC----CCCHHHHHHHHHHHhCCC
Confidence 65 789999986 788999999999999985
No 7
>PRK02315 adaptor protein; Provisional
Probab=82.71 E-value=1.1 Score=32.80 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=21.6
Q ss_pred hhHHHHHHHHHHhhCCCCCCCcEEe
Q 047583 48 PPFVDLLKRAEEELGFHHPMGALTI 72 (77)
Q Consensus 48 P~F~~LL~~aeeEfG~~~~~G~L~I 72 (77)
-+|.++|++|..|+||.. +|+|+|
T Consensus 39 ~fF~~mm~Ea~~e~~F~~-~~pl~~ 62 (233)
T PRK02315 39 EFFYSMMDEVDEEDDFAD-EGPLWF 62 (233)
T ss_pred HHHHHHHHHhccccCccc-CCeEEE
Confidence 479999999999999997 499986
No 8
>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=77.09 E-value=12 Score=21.80 Aligned_cols=32 Identities=34% Similarity=0.512 Sum_probs=27.3
Q ss_pred EEccCCceEEEEecccCCChhHHHHHHHHHHhhCCC
Q 047583 29 YVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFH 64 (77)
Q Consensus 29 yVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 64 (77)
+-+. +.+||.+|. .++.|.+|..+-++.|++.
T Consensus 6 ~~~~-~~~~~~~~~---~~~s~~~L~~~i~~~~~~~ 37 (81)
T cd05992 6 KYGG-EIRRFVVVS---RSISFEDLRSKIAEKFGLD 37 (81)
T ss_pred EecC-CCEEEEEec---CCCCHHHHHHHHHHHhCCC
Confidence 3343 689999998 8999999999999999986
No 9
>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=76.16 E-value=0.84 Score=32.49 Aligned_cols=25 Identities=40% Similarity=0.658 Sum_probs=0.0
Q ss_pred ChhHHHHHHHHHHhhCCCCCCCcEEe
Q 047583 47 PPPFVDLLKRAEEELGFHHPMGALTI 72 (77)
Q Consensus 47 hP~F~~LL~~aeeEfG~~~~~G~L~I 72 (77)
+-.|.++|++|.+|+||..+ |+|++
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 45799999999999999984 99876
No 10
>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=67.44 E-value=11 Score=24.25 Aligned_cols=34 Identities=29% Similarity=0.359 Sum_probs=26.7
Q ss_pred EEEEccCCceEEEEecccCCChhHHHHHHHHHHhhCCCC
Q 047583 27 AVYVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFHH 65 (77)
Q Consensus 27 aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~ 65 (77)
.=|||. +.+--.|+-+ -.|.+|..+..+.++..+
T Consensus 17 l~Y~GG-~tr~i~V~r~----~s~~el~~kl~~~~~~~~ 50 (97)
T cd06410 17 LRYVGG-ETRIVSVDRS----ISFKELVSKLSELFGAGV 50 (97)
T ss_pred EEEcCC-ceEEEEEcCC----CCHHHHHHHHHHHhCCCC
Confidence 469997 7777778876 478888889888888775
No 11
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. 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. The NBR1 protein contains a type I PB1 domain.
Probab=57.85 E-value=31 Score=21.80 Aligned_cols=42 Identities=10% Similarity=0.237 Sum_probs=31.9
Q ss_pred CceEEEEecccCCChhHHHHHHHHHHhhCCC--------CCCCcEEecCCCC
Q 047583 34 EKKRFVVPISYLSPPPFVDLLKRAEEELGFH--------HPMGALTIPCRED 77 (77)
Q Consensus 34 e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~--------~~~G~L~IPC~~d 77 (77)
+..||.++- -.++.|.+|..+-+.-|+++ .++.+++|.|++|
T Consensus 10 d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~e 59 (81)
T cd06396 10 ESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGE 59 (81)
T ss_pred eEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhh
Confidence 589998875 23567999999999999963 3345788888865
No 12
>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=57.72 E-value=9.3 Score=23.40 Aligned_cols=16 Identities=44% Similarity=0.725 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHhhCCC
Q 047583 49 PFVDLLKRAEEELGFH 64 (77)
Q Consensus 49 ~F~~LL~~aeeEfG~~ 64 (77)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 7999999999999996
No 13
>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=55.88 E-value=9.2 Score=24.98 Aligned_cols=32 Identities=50% Similarity=0.703 Sum_probs=18.7
Q ss_pred CceEEE-EecccC---CChhHHHHHHHHHHhhCCCC
Q 047583 34 EKKRFV-VPISYL---SPPPFVDLLKRAEEELGFHH 65 (77)
Q Consensus 34 e~~Rfv-Vp~~~L---~hP~F~~LL~~aeeEfG~~~ 65 (77)
++.=|+ +|-..+ +-..|.+||+.|||.+|.++
T Consensus 23 ~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~ 58 (108)
T PF02100_consen 23 ERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH 58 (108)
T ss_dssp TTEEEEE-SS---SS--SHHHHHHHHHHHHHH----
T ss_pred CCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE
Confidence 566666 465443 45689999999999999874
No 14
>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=54.02 E-value=16 Score=19.79 Aligned_cols=22 Identities=36% Similarity=0.776 Sum_probs=17.1
Q ss_pred HHHHHhhCCC--CCCCcEEecCCC
Q 047583 55 KRAEEELGFH--HPMGALTIPCRE 76 (77)
Q Consensus 55 ~~aeeEfG~~--~~~G~L~IPC~~ 76 (77)
++.+.++|+. |+||....||+.
T Consensus 8 e~~A~~~GC~G~H~mg~~WMPC~~ 31 (34)
T PF12518_consen 8 EKRAKELGCKGAHKMGDKWMPCSN 31 (34)
T ss_pred HHHHHHcCCcchhhccCccccCcc
Confidence 4455679987 568999999975
No 15
>smart00153 VHP Villin headpiece domain.
Probab=53.69 E-value=5.9 Score=21.48 Aligned_cols=19 Identities=32% Similarity=0.476 Sum_probs=17.1
Q ss_pred cCCChhHHHHHHHHHHhhC
Q 047583 44 YLSPPPFVDLLKRAEEELG 62 (77)
Q Consensus 44 ~L~hP~F~~LL~~aeeEfG 62 (77)
||+.-.|+.++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7889999999999999984
No 16
>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=52.47 E-value=4.8 Score=21.93 Aligned_cols=19 Identities=32% Similarity=0.447 Sum_probs=15.2
Q ss_pred cCCChhHHHHHHHHHHhhC
Q 047583 44 YLSPPPFVDLLKRAEEELG 62 (77)
Q Consensus 44 ~L~hP~F~~LL~~aeeEfG 62 (77)
||+.-.|+++..++.+||.
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 17
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like 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-inte
Probab=48.47 E-value=61 Score=20.07 Aligned_cols=31 Identities=32% Similarity=0.570 Sum_probs=24.6
Q ss_pred EccCCceEEEEecccCCChhHHHHHHHHHHhhCCCC
Q 047583 30 VGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFHH 65 (77)
Q Consensus 30 VG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~ 65 (77)
.|+ +..||-+|.+. .|++|.++-++-|+.+.
T Consensus 7 ~~~-d~~r~~l~~~~----~~~~L~~~i~~r~~~~~ 37 (82)
T cd06407 7 YGE-EKIRFRLPPSW----GFTELKQEIAKRFKLDD 37 (82)
T ss_pred eCC-eEEEEEcCCCC----CHHHHHHHHHHHhCCCC
Confidence 354 68899888643 79999999999998864
No 18
>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=47.81 E-value=3 Score=27.13 Aligned_cols=10 Identities=40% Similarity=0.683 Sum_probs=7.3
Q ss_pred ccCCChhHHH
Q 047583 43 SYLSPPPFVD 52 (77)
Q Consensus 43 ~~L~hP~F~~ 52 (77)
.|||||.|--
T Consensus 4 ~YLNHPtFGl 13 (88)
T PF12058_consen 4 TYLNHPTFGL 13 (88)
T ss_dssp -EEEETTTEE
T ss_pred ccccCCccch
Confidence 5899998853
No 19
>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=42.81 E-value=68 Score=18.62 Aligned_cols=32 Identities=31% Similarity=0.405 Sum_probs=22.9
Q ss_pred EEccCCceEEEEecccCCChhHHHHHHHHHHhhCCC
Q 047583 29 YVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFH 64 (77)
Q Consensus 29 yVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 64 (77)
+-++ +.+| .+..-..+.|.+|..+.++.||..
T Consensus 7 ~~~~-~~~~---~~~~~~~~s~~~L~~~i~~~~~~~ 38 (84)
T PF00564_consen 7 RYGG-DIRR---IISLPSDVSFDDLRSKIREKFGLL 38 (84)
T ss_dssp EETT-EEEE---EEEECSTSHHHHHHHHHHHHHTTS
T ss_pred EECC-eeEE---EEEcCCCCCHHHHHHHHHHHhCCC
Confidence 3344 4555 334445679999999999999985
No 20
>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=38.89 E-value=59 Score=20.16 Aligned_cols=27 Identities=26% Similarity=0.382 Sum_probs=18.5
Q ss_pred CCChhHHHHH----HHHHHhhCCCCCCCcEEe
Q 047583 45 LSPPPFVDLL----KRAEEELGFHHPMGALTI 72 (77)
Q Consensus 45 L~hP~F~~LL----~~aeeEfG~~~~~G~L~I 72 (77)
-..|.|++.| ..+-+||||.-+ ..+.|
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 3578999966 455578899877 44433
No 21
>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=37.90 E-value=12 Score=25.50 Aligned_cols=28 Identities=25% Similarity=0.412 Sum_probs=7.7
Q ss_pred CcceEEEEEccCCceEEE----------EecccCCChhHH
Q 047583 22 PKGHVAVYVGELEKKRFV----------VPISYLSPPPFV 51 (77)
Q Consensus 22 pkG~~aVyVG~~e~~Rfv----------Vp~~~L~hP~F~ 51 (77)
.+||+|+.|-. +-.|+ +|+-+||.|+-|
T Consensus 86 ~QGYfPlL~~~--~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 86 KQGYFPLLVPG--RAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp --SS--EEE----SSSSEEEEEEEESS----S--------
T ss_pred Ccccceeeccc--hhhhhhhhccCCCcceeeEEEeceeee
Confidence 58999999943 34444 788899988754
No 22
>KOG1748 consensus Acyl carrier protein/NADH-ubiquinone oxidoreductase, NDUFAB1/SDAP subunit [Energy production and conversion; Lipid transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=36.88 E-value=18 Score=24.98 Aligned_cols=11 Identities=45% Similarity=0.667 Sum_probs=8.7
Q ss_pred HHHhhCCCCCC
Q 047583 57 AEEELGFHHPM 67 (77)
Q Consensus 57 aeeEfG~~~~~ 67 (77)
-||||||+.++
T Consensus 97 lEEEFgiEIpd 107 (131)
T KOG1748|consen 97 LEEEFGIEIPD 107 (131)
T ss_pred hHHHhCCccCc
Confidence 38999998764
No 23
>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=36.10 E-value=59 Score=19.48 Aligned_cols=34 Identities=21% Similarity=0.310 Sum_probs=20.1
Q ss_pred ceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcE
Q 047583 35 KKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGAL 70 (77)
Q Consensus 35 ~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L 70 (77)
.+|+.|++.= .-.+.++|++|-+-||++.+.+.|
T Consensus 6 ~rr~~vkvtp--~~~l~~VL~eac~k~~l~~~~~~L 39 (65)
T PF11470_consen 6 FRRFKVKVTP--NTTLNQVLEEACKKFGLDPSSYDL 39 (65)
T ss_dssp S-EEEE---T--TSBHHHHHHHHHHHTT--GGG-EE
T ss_pred CcEEEEEECC--CCCHHHHHHHHHHHcCCCccceEE
Confidence 4777777653 336789999999999998654444
No 24
>PF14317 YcxB: YcxB-like protein
Probab=35.89 E-value=72 Score=16.95 Aligned_cols=32 Identities=19% Similarity=0.392 Sum_probs=24.2
Q ss_pred CcceEEEEEccCCceEEEEecccCCChhHHHHHH
Q 047583 22 PKGHVAVYVGELEKKRFVVPISYLSPPPFVDLLK 55 (77)
Q Consensus 22 pkG~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~ 55 (77)
-+.++-+|++. ..-++||-+.++.-...++.+
T Consensus 28 ~~~~~~l~~~~--~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLGK--NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEECC--CeEEEEEHHHCCHhHHHHHHH
Confidence 46788889986 699999999998555555443
No 25
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=35.68 E-value=51 Score=23.65 Aligned_cols=41 Identities=22% Similarity=0.186 Sum_probs=28.5
Q ss_pred ceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEecCCC
Q 047583 35 KKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTIPCRE 76 (77)
Q Consensus 35 ~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~ 76 (77)
+.+-++..+-.. -.++.|.+++++-.|...++=.+++|++.
T Consensus 32 ~~g~I~d~~~~~-~~l~~l~~~a~~~~g~~~~~vvisVP~~~ 72 (239)
T TIGR02529 32 RDGIVVDFLGAV-EIVRRLKDTLEQKLGIELTHAATAIPPGT 72 (239)
T ss_pred cCCeEEEhHHHH-HHHHHHHHHHHHHhCCCcCcEEEEECCCC
Confidence 345555554443 36788899988888887666679999863
No 26
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. 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 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. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=34.91 E-value=44 Score=21.90 Aligned_cols=29 Identities=24% Similarity=0.259 Sum_probs=24.6
Q ss_pred ceEEEEecccCCChhHHHHHHHHHHhhCC
Q 047583 35 KKRFVVPISYLSPPPFVDLLKRAEEELGF 63 (77)
Q Consensus 35 ~~RfvVp~~~L~hP~F~~LL~~aeeEfG~ 63 (77)
.+-..|.-+.-..|.|++||.....+|+-
T Consensus 15 ~rdi~vee~l~~~P~~kdLl~lmr~~f~~ 43 (92)
T cd06399 15 IRDIAVEEDLSSTPLLKDLLELTRREFQR 43 (92)
T ss_pred ccceEeecccccCccHHHHHHHHHHHhch
Confidence 45567777888999999999999999974
No 27
>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=34.48 E-value=36 Score=24.47 Aligned_cols=39 Identities=26% Similarity=0.415 Sum_probs=29.9
Q ss_pred ceEEEEecccCCC-h-hHHHHHHHHHHhhCCCCCCCcEEec
Q 047583 35 KKRFVVPISYLSP-P-PFVDLLKRAEEELGFHHPMGALTIP 73 (77)
Q Consensus 35 ~~RfvVp~~~L~h-P-~F~~LL~~aeeEfG~~~~~G~L~IP 73 (77)
.=+|.+|++||.. | .|++|+...++.+...|--+++.+-
T Consensus 24 ~l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~G~aGl~~~ 64 (208)
T PF11876_consen 24 YLSFSLPLEWLEEGPGHFRALFLELAERLPPSHGYAGLAFN 64 (208)
T ss_pred EEEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCeEeeEEEEe
Confidence 4689999999987 3 4999999999987777644555543
No 28
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=33.52 E-value=64 Score=20.42 Aligned_cols=39 Identities=31% Similarity=0.405 Sum_probs=27.2
Q ss_pred CceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEecCCCC
Q 047583 34 EKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTIPCRED 77 (77)
Q Consensus 34 e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~d 77 (77)
..+||=|-.+ .+++|+.++.+-|....+.++++|=+++|
T Consensus 12 r~~k~GV~A~-----sL~eL~~K~~~~l~l~~~~~~~~lvL~eD 50 (80)
T cd06536 12 RQKQHGVAAS-----SLEELRIKACESLGFDSSSAPITLVLAED 50 (80)
T ss_pred CCeeEeEEcC-----CHHHHHHHHHHHhCCCCCCCceEEEEecC
Confidence 4566666655 46899999999999985434566655443
No 29
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. 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 noncanonical PB1-interactions. The PB1 domain module
Probab=33.05 E-value=1.3e+02 Score=19.00 Aligned_cols=34 Identities=21% Similarity=0.312 Sum_probs=26.1
Q ss_pred ccCCceEEEEeccc-CCChhHHHHHHHHHHhhCCCC
Q 047583 31 GELEKKRFVVPISY-LSPPPFVDLLKRAEEELGFHH 65 (77)
Q Consensus 31 G~~e~~RfvVp~~~-L~hP~F~~LL~~aeeEfG~~~ 65 (77)
|+ +.+||-+|.+= -.+..|..|.++-++-|....
T Consensus 8 ~~-~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~ 42 (91)
T cd06398 8 GG-TLRRFTFPVAENQLDLNMDGLREKVEELFSLSP 42 (91)
T ss_pred CC-EEEEEEeccccccCCCCHHHHHHHHHHHhCCCC
Confidence 55 79999999741 114589999999999888764
No 30
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=31.36 E-value=37 Score=21.20 Aligned_cols=12 Identities=42% Similarity=0.908 Sum_probs=10.4
Q ss_pred CCChhHHHHHHH
Q 047583 45 LSPPPFVDLLKR 56 (77)
Q Consensus 45 L~hP~F~~LL~~ 56 (77)
++||.|++|.++
T Consensus 2 ~~~p~f~~L~r~ 13 (91)
T PF04341_consen 2 LRSPEFQELVRR 13 (91)
T ss_pred CCCHHHHHHHHH
Confidence 689999999875
No 31
>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=31.00 E-value=40 Score=27.86 Aligned_cols=43 Identities=28% Similarity=0.420 Sum_probs=35.6
Q ss_pred CCC-cceEEEEEccCCceEEEEec-----ccCCChh-HHHHHHHHHHhhCC
Q 047583 20 GVP-KGHVAVYVGELEKKRFVVPI-----SYLSPPP-FVDLLKRAEEELGF 63 (77)
Q Consensus 20 ~vp-kG~~aVyVG~~e~~RfvVp~-----~~L~hP~-F~~LL~~aeeEfG~ 63 (77)
.++ ||.+|+++-. .+.||.|=+ .|+|.|. -++||++=..|||-
T Consensus 92 i~~~kg~lP~LT~~-~kGRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~V 141 (487)
T PF12062_consen 92 IASGKGDLPVLTDN-DKGRYSLIIFENLLKYLNLDSWNRELLDKYCREYGV 141 (487)
T ss_pred EccCCCCCCccccC-CCCcEEEEEehhHHHHcCChHHHHHHHHHHhHccCc
Confidence 344 6899999955 678888775 8999998 89999999999874
No 32
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=30.26 E-value=31 Score=29.05 Aligned_cols=21 Identities=24% Similarity=0.390 Sum_probs=16.1
Q ss_pred CCcceEEEEEccC-CceEEEEe
Q 047583 21 VPKGHVAVYVGEL-EKKRFVVP 41 (77)
Q Consensus 21 vpkG~~aVyVG~~-e~~RfvVp 41 (77)
.+-||+||++|+. ...||+|-
T Consensus 62 ~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 62 RKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hcCCCceeeccccccCceEEEE
Confidence 4689999999983 24788874
No 33
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=30.07 E-value=70 Score=21.73 Aligned_cols=28 Identities=29% Similarity=0.574 Sum_probs=23.0
Q ss_pred cceEEEEEccCCceEEEEecccCCChhHHH
Q 047583 23 KGHVAVYVGELEKKRFVVPISYLSPPPFVD 52 (77)
Q Consensus 23 kG~~aVyVG~~e~~RfvVp~~~L~hP~F~~ 52 (77)
++-|.||||+ .+-|++-..|-+-|.|..
T Consensus 32 ~~~~fVyvG~--~rdYIl~~gfCSCp~~~~ 59 (117)
T COG5431 32 KVKFFVYVGK--ERDYILEGGFCSCPDFLG 59 (117)
T ss_pred eEEEEEEEcc--ccceEEEcCcccCHHHHh
Confidence 4558999997 467999999999999874
No 34
>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=29.62 E-value=82 Score=22.15 Aligned_cols=36 Identities=28% Similarity=0.442 Sum_probs=27.6
Q ss_pred ceEEEEEccCCceEEEEecccCCChhHHHHHHHHHHhhCCCCC
Q 047583 24 GHVAVYVGELEKKRFVVPISYLSPPPFVDLLKRAEEELGFHHP 66 (77)
Q Consensus 24 G~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~ 66 (77)
|.+++++|.+--.+ .+-|.+.+|++...+++|.+.+
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 67889998731122 5889999999999999987643
No 35
>PF07351 DUF1480: Protein of unknown function (DUF1480); InterPro: IPR009950 This family consists of several hypothetical Enterobacterial proteins of around 80 residues in length. The function of this family is unknown.
Probab=29.15 E-value=40 Score=21.54 Aligned_cols=10 Identities=50% Similarity=1.228 Sum_probs=8.5
Q ss_pred CcEEecCCCC
Q 047583 68 GALTIPCRED 77 (77)
Q Consensus 68 G~L~IPC~~d 77 (77)
..|.|||..|
T Consensus 27 ~tlsIPCksd 36 (80)
T PF07351_consen 27 DTLSIPCKSD 36 (80)
T ss_pred CeEEeecCCC
Confidence 6899999865
No 36
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=29.06 E-value=34 Score=25.61 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=23.2
Q ss_pred CChhHHHHHHHHHHhhCCCCCCCcEEec
Q 047583 46 SPPPFVDLLKRAEEELGFHHPMGALTIP 73 (77)
Q Consensus 46 ~hP~F~~LL~~aeeEfG~~~~~G~L~IP 73 (77)
.|-+|-++++.+..|-+|... |+|+|-
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 467899999999999999976 999873
No 37
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=28.93 E-value=16 Score=28.87 Aligned_cols=29 Identities=38% Similarity=0.478 Sum_probs=20.7
Q ss_pred CCCCCCcceEEEEEccCCce-EEEEecccCCC
Q 047583 17 NQCGVPKGHVAVYVGELEKK-RFVVPISYLSP 47 (77)
Q Consensus 17 ~~~~vpkG~~aVyVG~~e~~-RfvVp~~~L~h 47 (77)
+.--||.|-|++|||-+.-. .|.|| ++.+
T Consensus 86 n~i~iPh~sf~~y~g~~~ie~~~~vp--~fGn 115 (366)
T PRK13277 86 NAIFVPNRSFAVYVGYDAIENEFKVP--IFGN 115 (366)
T ss_pred CeEEecCCCeEEEecHHHHhhcCCCC--cccC
Confidence 34568999999999973333 68888 4544
No 38
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=28.67 E-value=25 Score=27.99 Aligned_cols=26 Identities=35% Similarity=0.574 Sum_probs=18.3
Q ss_pred CCCCCCcceEEEEEccC-CceEEEEec
Q 047583 17 NQCGVPKGHVAVYVGEL-EKKRFVVPI 42 (77)
Q Consensus 17 ~~~~vpkG~~aVyVG~~-e~~RfvVp~ 42 (77)
+.--+|.|-|++|||-+ --..|.||+
T Consensus 86 n~I~IP~gSfv~Y~G~d~ie~~~~vP~ 112 (361)
T COG1759 86 NAIFIPHGSFVAYVGYDGIENEFEVPM 112 (361)
T ss_pred CeEEecCCceEEEecchhhhhcccCcc
Confidence 34568999999999962 135566664
No 39
>cd03397 PAP2_acid_phosphatase PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains to be determined.
Probab=28.46 E-value=42 Score=24.19 Aligned_cols=20 Identities=35% Similarity=0.481 Sum_probs=16.7
Q ss_pred cccCCChhHHHHHHHHHHhh
Q 047583 42 ISYLSPPPFVDLLKRAEEEL 61 (77)
Q Consensus 42 ~~~L~hP~F~~LL~~aeeEf 61 (77)
...++.|.|++.+++|..|+
T Consensus 212 a~l~~~~~f~~~~~~A~~El 231 (232)
T cd03397 212 AALLADPAFAADLAAARAEL 231 (232)
T ss_pred HHHhcCHHHHHHHHHHHHHh
Confidence 34678899999999999885
No 40
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=26.81 E-value=1.3e+02 Score=18.78 Aligned_cols=42 Identities=21% Similarity=0.222 Sum_probs=33.5
Q ss_pred CcceEEEEEccC---CceEEEEecccCCChhH---HHHHHHHHHhhCC
Q 047583 22 PKGHVAVYVGEL---EKKRFVVPISYLSPPPF---VDLLKRAEEELGF 63 (77)
Q Consensus 22 pkG~~aVyVG~~---e~~RfvVp~~~L~hP~F---~~LL~~aeeEfG~ 63 (77)
++-+.+.+.|+. ...++-+..-|+.|+.+ |.|+++|.|.|.-
T Consensus 28 ~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~ek~~~~~k~ke~~~~ 75 (80)
T cd06080 28 KQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTEKQKLTNKAKESYEQ 75 (80)
T ss_pred CCEEEEEEeCCCCceeccchhhcccccccHHHHHHHHHHHHHHHHHHH
Confidence 566777788873 24778888899999999 5899999998864
No 41
>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=25.71 E-value=82 Score=21.83 Aligned_cols=26 Identities=23% Similarity=0.272 Sum_probs=17.5
Q ss_pred EEecc---cCCChhHHHHHH---HHHHhhCCC
Q 047583 39 VVPIS---YLSPPPFVDLLK---RAEEELGFH 64 (77)
Q Consensus 39 vVp~~---~L~hP~F~~LL~---~aeeEfG~~ 64 (77)
+||.. ++.||.|..+++ ++.+++||.
T Consensus 5 i~p~~~~~~~~~~~~~~~~~gi~~~a~~~g~~ 36 (283)
T cd06279 5 VLTDSLSYAFSDPVASQFLAGVAEVLDAAGVN 36 (283)
T ss_pred EeCCcccccccCccHHHHHHHHHHHHHHCCCE
Confidence 55643 378999999976 444567764
No 42
>PF00031 Cystatin: Cystatin domain; InterPro: IPR000010 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The cystatins are cysteine proteinase inhibitors belonging to MEROPS inhibitor family I25, clan IH [, , ]. They mainly inhibit peptidases belonging to peptidase families C1 (papain family) and C13 (legumain family). The cystatin family includes: The Type 1 cystatins, which are intracellular cystatins that are present in the cytosol of many cell types, but can also appear in body fluids at significant concentrations. They are single-chain polypeptides of about 100 residues, which have neither disulphide bonds nor carbohydrate side chains. The Type 2 cystatins, which are mainly extracellular secreted polypeptides synthesised with a 19-28 residue signal peptide. They are broadly distributed and found in most body fluids. The Type 3 cystatins, which are multidomain proteins. The mammalian representatives of this group are the kininogens. There are three different kininogens in mammals: H- (high molecular mass, IPR002395 from INTERPRO) and L- (low molecular mass) kininogen which are found in a number of species, and T-kininogen that is found only in rat. Unclassified cystatins. These are cystatin-like proteins found in a range of organisms: plant phytocystatins, fetuin in mammals, insect cystatins and a puff adder venom cystatin which inhibits metalloproteases of the MEROPS peptidase family M12 (astacin/adamalysin). Also a number of the cystatins-like proteins have been shown to be devoid of inhibitory activity. All true cystatins inhibit cysteine peptidases of the papain family (MEROPS peptidase family C1), and some also inhibit legumain family enzymes (MEROPS peptidase family C13). These peptidases play key roles in physiological processes, such as intracellular protein degradation (cathepsins B, H and L), are pivotal in the remodelling of bone (cathepsin K), and may be important in the control of antigen presentation (cathepsin S, mammalian legumain). Moreover, the activities of such peptidases are increased in pathophysiological conditions, such as cancer metastasis and inflammation. Additionally, such peptidases are essential for several pathogenic parasites and bacteria. Thus in animals cystatins not only have capacity to regulate normal body processes and perhaps cause disease when down-regulated, but in other organisms may also participate in defence against biotic and abiotic stress. ; GO: 0004869 cysteine-type endopeptidase inhibitor activity; PDB: 3L0R_B 2W9P_K 2W9Q_A 3S67_A 3QRD_D 1R4C_G 3GAX_A 1TIJ_B 1G96_A 3NX0_A ....
Probab=24.30 E-value=1.2e+02 Score=17.88 Aligned_cols=22 Identities=14% Similarity=0.218 Sum_probs=17.7
Q ss_pred ecccCCChhHHHHHHHHHHhhCC
Q 047583 41 PISYLSPPPFVDLLKRAEEELGF 63 (77)
Q Consensus 41 p~~~L~hP~F~~LL~~aeeEfG~ 63 (77)
|++- +.|.++++++.|-++|.=
T Consensus 5 ~~~~-~dp~v~~~~~~al~~~N~ 26 (94)
T PF00031_consen 5 PVDP-NDPEVQEAAEFALDKFNE 26 (94)
T ss_dssp EECT-TSHHHHHHHHHHHHHHHH
T ss_pred cCCC-CCHHHHHHHHHHHHHHHH
Confidence 4454 899999999999887743
No 43
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=24.08 E-value=97 Score=19.46 Aligned_cols=37 Identities=27% Similarity=0.357 Sum_probs=25.7
Q ss_pred CceEEEEecccCCChhHHHHHHHHHHhhCCCCCCCcEEecCCCC
Q 047583 34 EKKRFVVPISYLSPPPFVDLLKRAEEELGFHHPMGALTIPCRED 77 (77)
Q Consensus 34 e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~d 77 (77)
..+||=|-.. .+++|+.++.+-|+... .+++|=++.|
T Consensus 12 r~~k~GV~A~-----sL~eL~~K~~~~l~l~~--~~~~lvL~eD 48 (78)
T cd01615 12 RSRKKGVAAS-----SLEELLSKACEKLKLPS--APVTLVLEED 48 (78)
T ss_pred CCeeEEEEcC-----CHHHHHHHHHHHcCCCC--CCeEEEEeCC
Confidence 3566766665 46899999999999973 4555544443
No 44
>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=23.79 E-value=1.1e+02 Score=18.67 Aligned_cols=27 Identities=22% Similarity=0.495 Sum_probs=17.2
Q ss_pred ceEEEEEccCCceEEEEecccCCChhHHHHHHHH
Q 047583 24 GHVAVYVGELEKKRFVVPISYLSPPPFVDLLKRA 57 (77)
Q Consensus 24 G~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~a 57 (77)
=|+|+++++ + +..|| ..+.+++||++-
T Consensus 25 rH~p~~i~~-~--~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 25 RHWPLFIEE-D--ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp TT--EEEET-T--EEEEE------HHHHHHHHHT
T ss_pred CccceEEcC-C--EEEec----CcHHHHHHHHHC
Confidence 378999997 3 88888 666777888763
No 45
>PF07369 DUF1488: Protein of unknown function (DUF1488); InterPro: IPR009962 This family consists of several hypothetical bacterial proteins of around 85 residues in length. The function of this family is unknown.; PDB: 2GPI_A.
Probab=22.69 E-value=1.5e+02 Score=17.59 Aligned_cols=20 Identities=15% Similarity=0.139 Sum_probs=17.2
Q ss_pred eEEEEEccCCceEEEEecccC
Q 047583 25 HVAVYVGELEKKRFVVPISYL 45 (77)
Q Consensus 25 ~~aVyVG~~e~~RfvVp~~~L 45 (77)
.|+++|+. ..-++.|..+-|
T Consensus 18 ~F~a~~~g-~~i~C~Is~~aL 37 (83)
T PF07369_consen 18 RFPAQVDG-MQIRCAISAEAL 37 (83)
T ss_dssp EEEEEETT-EEEEEEEEHHHH
T ss_pred EEEEEECC-EEEEEEEeHHHH
Confidence 58889986 789999999887
No 46
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=22.54 E-value=2e+02 Score=17.71 Aligned_cols=55 Identities=29% Similarity=0.333 Sum_probs=34.4
Q ss_pred hhHHHHHhhhhcccCCCCCCcceEEEEEccCCceEEEEec---ccCCChhHHHHHHHHH
Q 047583 3 SNAKQVLKLQNNAKNQCGVPKGHVAVYVGELEKKRFVVPI---SYLSPPPFVDLLKRAE 58 (77)
Q Consensus 3 ~~~k~~l~~~~s~~~~~~vpkG~~aVyVG~~e~~RfvVp~---~~L~hP~F~~LL~~ae 58 (77)
++.|.+++.+....=.-.-.||-.+-|+=. +..|-+||. +-|.-=..++.+++|.
T Consensus 7 ~~~ke~ik~Le~~Gf~~vrqkGSH~q~kHp-~~~~vtVP~Hp~~dl~~Gtl~~Ilkqa~ 64 (66)
T COG1724 7 MKAKEVIKALEKDGFQLVRQKGSHRQYKHP-DGGRVTVPFHPGEDLPPGTLRSILKQAG 64 (66)
T ss_pred CCHHHHHHHHHhCCcEEEEeecceeEEEcC-CCCEEEecCCCccccCcHHHHHHHHHhc
Confidence 356677766643321222358888888876 578999984 4455556666666653
No 47
>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=22.07 E-value=67 Score=20.74 Aligned_cols=30 Identities=13% Similarity=0.246 Sum_probs=19.6
Q ss_pred EEccCCceEEEEecccCCChhHHHHHHHHHHhh
Q 047583 29 YVGELEKKRFVVPISYLSPPPFVDLLKRAEEEL 61 (77)
Q Consensus 29 yVG~~e~~RfvVp~~~L~hP~F~~LL~~aeeEf 61 (77)
||-. +. =++-+-=-|-|++|+|++-.+|-|
T Consensus 44 yV~~-dg--~I~QTIPqnk~L~qaLidG~reG~ 73 (86)
T PF02762_consen 44 YVTQ-DG--KILQTIPQNKSLYQALIDGSREGF 73 (86)
T ss_dssp EEET-TS--EEEEE--SSS-HHHHHHHHHHTTS
T ss_pred EEcC-CC--cEEEecCCCchHHHHHHhccccce
Confidence 6654 22 255566679999999999998854
No 48
>PF01584 CheW: CheW-like domain; InterPro: IPR002545 CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flagellar rotation. This family includes CheW and other related proteins that are involved in chemotaxis. The CheW-like regulatory domain in CheA [] binds to CheW, suggesting that these domains can interact with each other.; GO: 0004871 signal transducer activity, 0006935 chemotaxis, 0007165 signal transduction, 0005622 intracellular; PDB: 2HO9_A 2CH4_A 1B3Q_A 3UR1_A 1K0S_A 2QDL_B.
Probab=21.89 E-value=1.2e+02 Score=18.56 Aligned_cols=19 Identities=26% Similarity=0.544 Sum_probs=13.8
Q ss_pred eEEEEEccCCceEEEEecccCC
Q 047583 25 HVAVYVGELEKKRFVVPISYLS 46 (77)
Q Consensus 25 ~~aVyVG~~e~~RfvVp~~~L~ 46 (77)
++-+++|+ +||.+|++++.
T Consensus 2 ~l~f~~g~---~~~aip~~~V~ 20 (138)
T PF01584_consen 2 YLLFRLGG---ERFAIPLSDVV 20 (138)
T ss_dssp EEEEEETT---EEEEEEGGGEE
T ss_pred EEEEEECC---EEEEEEHHHee
Confidence 45567776 67999988753
No 49
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=21.33 E-value=55 Score=26.17 Aligned_cols=36 Identities=28% Similarity=0.494 Sum_probs=27.0
Q ss_pred ceEEEEecccCCChhHHHH--H---HHHHHhhCCCCCCCcE
Q 047583 35 KKRFVVPISYLSPPPFVDL--L---KRAEEELGFHHPMGAL 70 (77)
Q Consensus 35 ~~RfvVp~~~L~hP~F~~L--L---~~aeeEfG~~~~~G~L 70 (77)
-+|+=+|+.|++||+--+. . +.+.+++|.+.+.-.|
T Consensus 151 y~k~g~~~~yVGHpl~d~i~~~~~r~~ar~~l~~~~~~~~l 191 (381)
T COG0763 151 YDKFGLPCTYVGHPLADEIPLLPDREAAREKLGIDADEKTL 191 (381)
T ss_pred HHhcCCCeEEeCChhhhhccccccHHHHHHHhCCCCCCCeE
Confidence 3688899999999998776 2 4467889998763333
No 50
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=21.10 E-value=93 Score=19.04 Aligned_cols=30 Identities=20% Similarity=0.201 Sum_probs=25.5
Q ss_pred ChhHHHHHHHHHHhhCCCCCCCcEEecCCC
Q 047583 47 PPPFVDLLKRAEEELGFHHPMGALTIPCRE 76 (77)
Q Consensus 47 hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~ 76 (77)
.|.=+++|+..-..||..-++|.|.+.++.
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~ 73 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSE 73 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCH
Confidence 577789999999999999888999887764
No 51
>PRK10800 acyl-CoA thioesterase YbgC; Provisional
Probab=21.06 E-value=68 Score=20.11 Aligned_cols=20 Identities=20% Similarity=0.326 Sum_probs=17.0
Q ss_pred cccCCChhHHHHHHHHHHhh
Q 047583 42 ISYLSPPPFVDLLKRAEEEL 61 (77)
Q Consensus 42 ~~~L~hP~F~~LL~~aeeEf 61 (77)
..++|||.+..+++.|..+|
T Consensus 17 ~Ghv~~~~y~~~~e~a~~~~ 36 (130)
T PRK10800 17 GGVVYHASYVAFYERARTEM 36 (130)
T ss_pred CCeEehHHHHHHHHHHHHHH
Confidence 45789999999999998875
No 52
>cd06397 PB1_UP1 Uncharacterized protein 1. 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 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 noncanonical PB1-interactions.
Probab=21.02 E-value=2.4e+02 Score=18.06 Aligned_cols=28 Identities=21% Similarity=0.392 Sum_probs=25.1
Q ss_pred CceEEEEecccCCChhHHHHHHHHHHhhCCCC
Q 047583 34 EKKRFVVPISYLSPPPFVDLLKRAEEELGFHH 65 (77)
Q Consensus 34 e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~ 65 (77)
..|||..|. -|.+.+|-++-+.=|-+..
T Consensus 10 ~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~ 37 (82)
T cd06397 10 DTRRIVFPD----IPTWEALASKLENLYNLPE 37 (82)
T ss_pred ceEEEecCC----CccHHHHHHHHHHHhCCCh
Confidence 689999998 8999999999999888874
No 53
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=20.92 E-value=2.3e+02 Score=20.57 Aligned_cols=56 Identities=34% Similarity=0.573 Sum_probs=28.9
Q ss_pred hhhHHHHHhhhhcccCCCCCCcceEEEEEccCCceEEEEecccCCChhHHHHHHHH----HHhhCCCCCCCcEEecCC
Q 047583 2 LSNAKQVLKLQNNAKNQCGVPKGHVAVYVGELEKKRFVVPISYLSPPPFVDLLKRA----EEELGFHHPMGALTIPCR 75 (77)
Q Consensus 2 ~~~~k~~l~~~~s~~~~~~vpkG~~aVyVG~~e~~RfvVp~~~L~hP~F~~LL~~a----eeEfG~~~~~G~L~IPC~ 75 (77)
|+-+|++.++. |.-.+ +|+|+ ..|| |----+.....+++.++ +|..|. ..|.|||.
T Consensus 11 ltv~~~l~~~~---------p~~~~-iy~~D--~~~~--PYG~ks~~~i~~~~~~~~~~L~~~~g~----d~ivIaCN 70 (251)
T TIGR00067 11 LSVLKEIRKQL---------PKEHY-IYVGD--TKRF--PYGEKSPEFILEYVLELLTFLKERHNI----KLLVVACN 70 (251)
T ss_pred HHHHHHHHHHC---------CCCCE-EEEec--CCCC--CCCCCCHHHHHHHHHHHHHHHHHhCCC----CEEEEeCc
Confidence 34566666666 43333 89997 2222 22222333444444333 334442 36999996
No 54
>PF04304 DUF454: Protein of unknown function (DUF454); InterPro: IPR007401 This is a predicted membrane protein.
Probab=20.46 E-value=77 Score=18.39 Aligned_cols=19 Identities=26% Similarity=0.314 Sum_probs=15.7
Q ss_pred cCCChhHHHHHHHHHHhhC
Q 047583 44 YLSPPPFVDLLKRAEEELG 62 (77)
Q Consensus 44 ~L~hP~F~~LL~~aeeEfG 62 (77)
.+|||.|+..++.-+|.=|
T Consensus 5 l~~h~~~g~~I~~w~~~r~ 23 (71)
T PF04304_consen 5 LLNHRLFGPYIRNWEEHRG 23 (71)
T ss_pred HHcCchhHHHHHHHHHCCC
Confidence 5799999999999887443
No 55
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=20.26 E-value=82 Score=26.64 Aligned_cols=30 Identities=17% Similarity=0.145 Sum_probs=21.9
Q ss_pred EEEEecccCCChhHHHHH-----HHHHHhhCCCCC
Q 047583 37 RFVVPISYLSPPPFVDLL-----KRAEEELGFHHP 66 (77)
Q Consensus 37 RfvVp~~~L~hP~F~~LL-----~~aeeEfG~~~~ 66 (77)
++=+|+.|.+||++.++= +.+.+++|.+.+
T Consensus 378 ~~gv~v~yVGHPL~d~i~~~~~~~~~r~~lgl~~~ 412 (608)
T PRK01021 378 DSPLRTVYLGHPLVETISSFSPNLSWKEQLHLPSD 412 (608)
T ss_pred hcCCCeEEECCcHHhhcccCCCHHHHHHHcCCCCC
Confidence 345899999999999853 234567888644
Done!