Query 035952
Match_columns 125
No_of_seqs 108 out of 649
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 07:56:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035952.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035952hhsearch_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 3.4E-39 7.3E-44 230.6 10.1 93 5-108 11-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 9.7E-36 2.1E-40 211.2 8.9 68 42-109 33-100 (100)
3 PLN03220 uncharacterized prote 100.0 7.5E-34 1.6E-38 203.0 10.2 89 6-107 9-102 (105)
4 PLN03219 uncharacterized prote 100.0 2.2E-32 4.7E-37 196.3 8.1 69 40-108 34-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 94.5 0.074 1.6E-06 35.7 4.2 72 51-124 2-81 (94)
6 PRK02899 adaptor protein; Prov 82.3 1.3 2.9E-05 34.6 2.8 25 70-94 38-62 (197)
7 smart00666 PB1 PB1 domain. Pho 75.4 10 0.00022 24.4 5.1 53 53-110 7-70 (81)
8 PRK02315 adaptor protein; Prov 75.4 2.5 5.4E-05 33.8 2.5 25 70-94 38-62 (233)
9 cd05992 PB1 The PB1 domain is 72.5 9.4 0.0002 24.4 4.4 55 52-110 5-70 (81)
10 PF05389 MecA: Negative regula 67.6 1.7 3.8E-05 33.9 0.0 25 70-94 38-62 (220)
11 PF11822 DUF3342: Domain of un 63.7 7.7 0.00017 32.9 3.1 60 57-119 12-76 (317)
12 PF00651 BTB: BTB/POZ domain; 62.4 14 0.00031 24.3 3.7 60 51-115 14-78 (111)
13 cd06398 PB1_Joka2 The PB1 doma 59.6 48 0.001 22.9 6.1 56 52-107 5-73 (91)
14 cd06410 PB1_UP2 Uncharacterize 56.6 23 0.00049 24.8 4.1 46 51-100 17-75 (97)
15 PF02186 TFIIE_beta: TFIIE bet 45.2 16 0.00034 23.9 1.6 24 101-124 7-30 (65)
16 cd06407 PB1_NLP A PB1 domain i 44.0 50 0.0011 22.3 4.1 49 52-104 5-65 (82)
17 cd07977 TFIIE_beta_winged_heli 41.9 35 0.00077 22.7 3.0 24 101-124 11-35 (75)
18 PF02209 VHP: Villin headpiece 41.5 13 0.00029 21.8 0.8 19 67-85 1-19 (36)
19 cd01406 SIR2-like Sir2-like: P 40.5 65 0.0014 25.0 4.8 61 48-114 1-61 (242)
20 PF14317 YcxB: YcxB-like prote 39.8 71 0.0015 18.7 4.0 32 46-78 28-59 (62)
21 smart00153 VHP Villin headpiec 39.0 17 0.00037 21.2 1.0 18 67-84 1-18 (36)
22 PF14062 DUF4253: Domain of un 38.1 85 0.0018 22.3 4.7 40 46-89 42-82 (111)
23 PRK02797 4-alpha-L-fucosyltran 37.2 1.8E+02 0.0039 24.9 7.2 64 44-110 141-226 (322)
24 PF12058 DUF3539: Protein of u 36.7 5.4 0.00012 28.0 -1.7 12 66-77 4-15 (88)
25 PF11834 DUF3354: Domain of un 35.4 31 0.00067 22.9 1.9 17 71-87 26-42 (69)
26 cd06396 PB1_NBR1 The PB1 domai 34.7 1.5E+02 0.0032 20.3 5.2 56 55-113 8-72 (81)
27 PF02880 PGM_PMM_III: Phosphog 34.5 70 0.0015 22.0 3.7 53 70-124 51-109 (113)
28 PHA03098 kelch-like protein; P 34.3 81 0.0018 27.1 4.8 66 50-121 12-79 (534)
29 PF02100 ODC_AZ: Ornithine dec 33.9 53 0.0011 23.3 3.0 52 56-108 22-77 (108)
30 PF00564 PB1: PB1 domain; Int 32.5 1.3E+02 0.0029 19.0 6.6 54 52-110 6-71 (84)
31 PRK10308 3-methyl-adenine DNA 32.0 1.8E+02 0.0039 23.8 6.3 62 47-108 45-121 (283)
32 TIGR02113 coaC_strep phosphopa 31.2 1.2E+02 0.0027 23.0 4.9 54 57-124 112-173 (177)
33 cd04395 RhoGAP_ARHGAP21 RhoGAP 30.9 1.2E+02 0.0026 22.9 4.8 43 71-113 19-61 (196)
34 smart00225 BTB Broad-Complex, 30.4 1E+02 0.0022 18.5 3.7 56 59-117 9-67 (90)
35 PRK07313 phosphopantothenoylcy 29.4 89 0.0019 23.9 3.9 58 57-124 113-174 (182)
36 COG4923 Predicted nuclease (RN 29.2 61 0.0013 26.4 2.9 18 89-106 86-103 (245)
37 cd06397 PB1_UP1 Uncharacterize 27.9 2.1E+02 0.0046 19.8 5.4 48 52-103 5-63 (82)
38 PF08279 HTH_11: HTH domain; 27.6 59 0.0013 19.2 2.1 23 102-124 3-25 (55)
39 KOG2124 Glycosylphosphatidylin 27.2 78 0.0017 30.5 3.7 82 40-121 87-194 (883)
40 COG1759 5-formaminoimidazole-4 27.2 30 0.00064 29.9 0.9 39 41-80 86-135 (361)
41 PRK00035 hemH ferrochelatase; 25.5 1.5E+02 0.0033 24.2 4.8 73 7-95 54-126 (333)
42 PF13833 EF-hand_8: EF-hand do 24.8 1.5E+02 0.0033 17.1 4.8 29 96-124 22-51 (54)
43 cd04407 RhoGAP_myosin_IXB RhoG 24.2 1.7E+02 0.0037 22.2 4.6 40 72-112 18-57 (186)
44 PF07429 Glyco_transf_56: 4-al 24.1 3.7E+02 0.008 23.4 7.0 44 44-87 180-245 (360)
45 cd07311 terB_like_1 tellurium 23.8 1E+02 0.0022 23.0 3.2 35 81-120 9-45 (150)
46 COG4862 MecA Negative regulato 23.7 62 0.0014 26.3 2.1 27 69-95 37-63 (224)
47 TIGR03793 TOMM_pelo TOMM prope 23.7 1.2E+02 0.0027 20.3 3.3 27 68-94 14-44 (77)
48 PF07369 DUF1488: Protein of u 23.7 1.4E+02 0.0031 19.4 3.6 20 49-68 18-37 (83)
49 PF08948 DUF1859: Domain of un 23.5 35 0.00076 25.0 0.6 30 44-74 84-123 (126)
50 PF14164 YqzH: YqzH-like prote 23.1 2.3E+02 0.0051 18.7 5.6 52 69-123 2-56 (64)
51 cd03411 Ferrochelatase_N Ferro 22.6 1.7E+02 0.0037 21.5 4.2 88 7-110 48-143 (159)
52 PF00762 Ferrochelatase: Ferro 21.9 1.7E+02 0.0037 24.2 4.5 83 8-110 50-144 (316)
53 cd04372 RhoGAP_chimaerin RhoGA 21.4 2.2E+02 0.0049 21.5 4.7 40 73-113 20-59 (194)
54 KOG1748 Acyl carrier protein/N 20.9 60 0.0013 24.3 1.4 34 74-107 91-126 (131)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=3.4e-39 Score=230.64 Aligned_cols=93 Identities=33% Similarity=0.712 Sum_probs=84.5
Q ss_pred hHHHHHHHHHHhhhhcCCCCCCcchhhhhhhhhhcccCCCCCCceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhc
Q 035952 5 KMASFKKLAKKVKVMSGGDKNQPHKQCLLEEYEDMASMATTPTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEF 84 (125)
Q Consensus 5 ~~~~l~ki~kkw~~~~~~~~~~~~~~~l~~~~~~~~~~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEf 84 (125)
+++++++|+|||+++++... ++++..+.+||+||||||||++++||+||++|||||+|++||++|||||
T Consensus 11 ~~~~~kq~l~r~~s~~~~~~-----------~~~~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEf 79 (104)
T PLN03090 11 QTAMLKQILKRCSSLGKKQG-----------YDEDGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEF 79 (104)
T ss_pred HHHHHHHHHHHHHHhcccCC-----------cccccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHh
Confidence 58999999999999977542 1223356789999999999999999999999999999999999999999
Q ss_pred CCCCCCceEecCCHHHHHHHHHHH
Q 035952 85 GFEQKDRLVVPCSVSTFQEIVSAV 108 (125)
Q Consensus 85 G~~~~G~L~iPC~~~~F~~vl~~l 108 (125)
||+++|+|+|||+++.|++++|+|
T Consensus 80 Gf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 80 GFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCCCcEEEeCCHHHHHHHHHHh
Confidence 999999999999999999999998
No 2
>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=9.7e-36 Score=211.16 Aligned_cols=68 Identities=50% Similarity=0.968 Sum_probs=66.0
Q ss_pred CCCCCCceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHH
Q 035952 42 MATTPTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVE 109 (125)
Q Consensus 42 ~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~ 109 (125)
...+|+||||||||++++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++|+|+
T Consensus 33 ~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 33 ESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred cCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 47899999999999999999999999999999999999999999999999999999999999999985
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=7.5e-34 Score=203.02 Aligned_cols=89 Identities=36% Similarity=0.716 Sum_probs=75.5
Q ss_pred HHHHHHHHHHhhhhcCCCCCCcchhhhhhhhhhcccCCCCCCceEEEEEcc----CceeEEEeccCCCcHHHHHHHHHHh
Q 035952 6 MASFKKLAKKVKVMSGGDKNQPHKQCLLEEYEDMASMATTPTGFFAVYVGE----EQERFVVPTGFLSHPLFKMLLEKSY 81 (125)
Q Consensus 6 ~~~l~ki~kkw~~~~~~~~~~~~~~~l~~~~~~~~~~~~vpkG~~~VyVG~----~~~RfvVp~~~L~~P~F~~LL~~ae 81 (125)
.+.+|+|+|++. ++...+.++ +.+.+||+||||||||+ +++||+||++|||||.|++||++||
T Consensus 9 ~~~~k~~~~~~~-~~~~~~~~~------------~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~Ae 75 (105)
T PLN03220 9 SNATKQILKLNS-LANRNRTSS------------SSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAE 75 (105)
T ss_pred HHHHHHHHHHHh-hcccccccc------------cccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHH
Confidence 356789999987 555432221 24568999999999997 5899999999999999999999999
Q ss_pred hhcCCCC-CCceEecCCHHHHHHHHHH
Q 035952 82 NEFGFEQ-KDRLVVPCSVSTFQEIVSA 107 (125)
Q Consensus 82 eEfG~~~-~G~L~iPC~~~~F~~vl~~ 107 (125)
|||||+| +|+|+|||+++.|++++..
T Consensus 76 EEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 76 EEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred HHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 9999999 5999999999999999864
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=2.2e-32 Score=196.32 Aligned_cols=69 Identities=39% Similarity=0.829 Sum_probs=63.9
Q ss_pred ccCCCCCCceEEEEEcc--CceeEEEeccCCCcHHHHHHHHHHhhhcCCCC-CCceEecCCHHHHHHHHHHH
Q 035952 40 ASMATTPTGFFAVYVGE--EQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQ-KDRLVVPCSVSTFQEIVSAV 108 (125)
Q Consensus 40 ~~~~~vpkG~~~VyVG~--~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~-~G~L~iPC~~~~F~~vl~~l 108 (125)
+.+..||+||+|||||+ |++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|+++++.-
T Consensus 34 ~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 34 TTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 35678999999999997 58999999999999999999999999999998 59999999999999999753
No 5
>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=94.48 E-value=0.074 Score=35.75 Aligned_cols=72 Identities=15% Similarity=0.175 Sum_probs=49.0
Q ss_pred EEEEccCceeEEEeccCCC-c--HHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcC-CC----CCChHHHHH
Q 035952 51 AVYVGEEQERFVVPTGFLS-H--PLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECS-NK----RFDFGNLVE 122 (125)
Q Consensus 51 ~VyVG~~~~RfvVp~~~L~-~--P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~-~~----~~~~~~~~~ 122 (125)
..-|| +++|.++.+-|. + ..|..++........-..+|.+-|-++...|++||..++++ .- ...++.+.+
T Consensus 2 ~lNVG--G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~~~l~~~~~~~~~~l~~ 79 (94)
T PF02214_consen 2 RLNVG--GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTGGKLPIPDEICLEELLE 79 (94)
T ss_dssp EEEET--TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHTSSB---TTS-HHHHHH
T ss_pred EEEEC--CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhcCccCCCCchhHHHHHH
Confidence 34566 789999977776 4 47888887542222223468999999999999999999995 21 125666666
Q ss_pred hh
Q 035952 123 EL 124 (125)
Q Consensus 123 ~~ 124 (125)
|+
T Consensus 80 Ea 81 (94)
T PF02214_consen 80 EA 81 (94)
T ss_dssp HH
T ss_pred HH
Confidence 64
No 6
>PRK02899 adaptor protein; Provisional
Probab=82.27 E-value=1.3 Score=34.63 Aligned_cols=25 Identities=32% Similarity=0.721 Sum_probs=21.6
Q ss_pred cHHHHHHHHHHhhhcCCCCCCceEe
Q 035952 70 HPLFKMLLEKSYNEFGFEQKDRLVV 94 (125)
Q Consensus 70 ~P~F~~LL~~aeeEfG~~~~G~L~i 94 (125)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 4577888999999999999999874
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=75.42 E-value=10 Score=24.41 Aligned_cols=53 Identities=21% Similarity=0.371 Sum_probs=39.5
Q ss_pred EEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCC----------CCC-ceEecCCHHHHHHHHHHHHc
Q 035952 53 YVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFE----------QKD-RLVVPCSVSTFQEIVSAVEC 110 (125)
Q Consensus 53 yVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~----------~~G-~L~iPC~~~~F~~vl~~l~~ 110 (125)
+-|++.+||.+|- .+.|.+|..+..+.|+.. .+| .++|.++. .+..++.+...
T Consensus 7 ~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 7 RYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred EECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 3377899999985 778999999999999885 134 68888866 55666665553
No 8
>PRK02315 adaptor protein; Provisional
Probab=75.39 E-value=2.5 Score=33.78 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=22.4
Q ss_pred cHHHHHHHHHHhhhcCCCCCCceEe
Q 035952 70 HPLFKMLLEKSYNEFGFEQKDRLVV 94 (125)
Q Consensus 70 ~P~F~~LL~~aeeEfG~~~~G~L~i 94 (125)
+-+|.++|+++..|+||..+|+|+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4689999999999999999999875
No 9
>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=72.51 E-value=9.4 Score=24.42 Aligned_cols=55 Identities=24% Similarity=0.379 Sum_probs=40.7
Q ss_pred EEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCC----------CCC-ceEecCCHHHHHHHHHHHHc
Q 035952 52 VYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFE----------QKD-RLVVPCSVSTFQEIVSAVEC 110 (125)
Q Consensus 52 VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~----------~~G-~L~iPC~~~~F~~vl~~l~~ 110 (125)
|+-+++.+||.+|. .++.|.+|..+..+.|++. .+| .++|.++ ..|+..+.....
T Consensus 5 ~~~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 5 VKYGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred EEecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 44456899999997 7899999999999999886 133 3556665 567777777654
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=67.59 E-value=1.7 Score=33.89 Aligned_cols=25 Identities=32% Similarity=0.553 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHhhhcCCCCCCceEe
Q 035952 70 HPLFKMLLEKSYNEFGFEQKDRLVV 94 (125)
Q Consensus 70 ~P~F~~LL~~aeeEfG~~~~G~L~i 94 (125)
+-.|.++|++|.+|+||..+|+|++
T Consensus 38 e~fF~~ileea~~e~~F~~~~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFENDGPLTF 62 (220)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 5689999999999999999998875
No 11
>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=63.68 E-value=7.7 Score=32.94 Aligned_cols=60 Identities=20% Similarity=0.324 Sum_probs=44.5
Q ss_pred CceeEEEeccCC--CcHHHHHHHHH---HhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCCCCChHH
Q 035952 57 EQERFVVPTGFL--SHPLFKMLLEK---SYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNKRFDFGN 119 (125)
Q Consensus 57 ~~~RfvVp~~~L--~~P~F~~LL~~---aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~~~~~~~ 119 (125)
..+=|..|.+.| +...|++.|.. ..++ ..+=.|.+-||+..|+.++..++...++++.++
T Consensus 12 ~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~---~~~idisVhCDv~iF~WLm~yv~~~~p~l~~~N 76 (317)
T PF11822_consen 12 EKRDFTCPRDLLVSEMRYFAEYLSRYINDSQR---WEEIDISVHCDVHIFEWLMRYVKGEPPSLTPSN 76 (317)
T ss_pred cceeeeccHHHHHHhhHHHHHHHhhcccccCc---CCCcceEEecChhHHHHHHHHhhcCCCcCCcCc
Confidence 467789998877 45789999965 3222 113358888999999999999998877765443
No 12
>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=62.40 E-value=14 Score=24.28 Aligned_cols=60 Identities=23% Similarity=0.467 Sum_probs=41.9
Q ss_pred EEEEccCceeEEEeccCC--CcHHHHHHHHHHhhhcCCCCCC--ceEec-CCHHHHHHHHHHHHcCCCCC
Q 035952 51 AVYVGEEQERFVVPTGFL--SHPLFKMLLEKSYNEFGFEQKD--RLVVP-CSVSTFQEIVSAVECSNKRF 115 (125)
Q Consensus 51 ~VyVG~~~~RfvVp~~~L--~~P~F~~LL~~aeeEfG~~~~G--~L~iP-C~~~~F~~vl~~l~~~~~~~ 115 (125)
.+.||+ .++|-+.-..| ..|.|+.+++.. +....+ .+.++ |+...|+.++..+-.+....
T Consensus 14 ~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~~~~~ 78 (111)
T PF00651_consen 14 TIRVGD-GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTGEIEI 78 (111)
T ss_dssp EEEETT-TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHSEEEE
T ss_pred EEEECC-CEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCCcccC
Confidence 445553 78888887776 459999999988 112233 46555 88999999999997665433
No 13
>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=59.60 E-value=48 Score=22.88 Aligned_cols=56 Identities=20% Similarity=0.118 Sum_probs=39.6
Q ss_pred EEEccCceeEEEeccC-CCcHHHHHHHHHHhhhcCCCC-----------C-CceEecCCHHHHHHHHHH
Q 035952 52 VYVGEEQERFVVPTGF-LSHPLFKMLLEKSYNEFGFEQ-----------K-DRLVVPCSVSTFQEIVSA 107 (125)
Q Consensus 52 VyVG~~~~RfvVp~~~-L~~P~F~~LL~~aeeEfG~~~-----------~-G~L~iPC~~~~F~~vl~~ 107 (125)
|.-|++.+||-+|.+= -.+..|..|.++.++-|.... + ..++|.|+.++-+-+-..
T Consensus 5 v~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 5 VKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred EEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 3347789999999640 114578999999988887763 2 348899998877665443
No 14
>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=56.57 E-value=23 Score=24.84 Aligned_cols=46 Identities=26% Similarity=0.278 Sum_probs=33.5
Q ss_pred EEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCC-------------CCceEecCCHHH
Q 035952 51 AVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQ-------------KDRLVVPCSVST 100 (125)
Q Consensus 51 ~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~-------------~G~L~iPC~~~~ 100 (125)
.=|||.+.+-..|+-+ . .|.+|..+..+.++... ++-+.|.||.++
T Consensus 17 l~Y~GG~tr~i~V~r~-~---s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeDl 75 (97)
T cd06410 17 LRYVGGETRIVSVDRS-I---SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDEDL 75 (97)
T ss_pred EEEcCCceEEEEEcCC-C---CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHHH
Confidence 4699999999999976 3 56677777777776664 345667888754
No 15
>PF02186 TFIIE_beta: TFIIE beta subunit core domain; InterPro: IPR003166 Initiation of eukaryotic mRNA transcription requires melting of promoter DNA with the help of the general transcription factors TFIIE and TFIIH. In higher eukaryotes, the general transcription factor TFIIE consists of two subunits: the large alpha subunit (IPR002853 from INTERPRO) and the small beta (IPR003166 from INTERPRO). TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The approximately 120-residue central core domain of TFIIE beta plays a role in double-stranded DNA binding of TFIIE []. The TFIIE beta central core DNA-binding domain consists of three helices with a beta hairpin at the C terminus, resembling the winged helix proteins. It shows a novel double-stranded DNA-binding activity where the DNA-binding surface locates on the opposite side to the previously reported winged helix motif by forming a positively charged furrow []. This entry represents the beta subunit of the transcription factor TFIIE.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005673 transcription factor TFIIE complex; PDB: 1D8K_A 1D8J_A.
Probab=45.17 E-value=16 Score=23.93 Aligned_cols=24 Identities=8% Similarity=0.252 Sum_probs=16.7
Q ss_pred HHHHHHHHHcCCCCCChHHHHHhh
Q 035952 101 FQEIVSAVECSNKRFDFGNLVEEL 124 (125)
Q Consensus 101 F~~vl~~l~~~~~~~~~~~~~~~~ 124 (125)
.-.++..|+..++..+++|+.+|+
T Consensus 7 l~~~VeymK~r~~Plt~~eI~d~l 30 (65)
T PF02186_consen 7 LAKAVEYMKKRDHPLTLEEILDYL 30 (65)
T ss_dssp HHHHHHHHHHH-S-B-HHHHHHHH
T ss_pred HHHHHHHHHhcCCCcCHHHHHHHH
Confidence 345677788888888999999986
No 16
>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=44.00 E-value=50 Score=22.27 Aligned_cols=49 Identities=22% Similarity=0.380 Sum_probs=36.3
Q ss_pred EEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCC-----------C-CceEecCCHHHHHHH
Q 035952 52 VYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQ-----------K-DRLVVPCSVSTFQEI 104 (125)
Q Consensus 52 VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~-----------~-G~L~iPC~~~~F~~v 104 (125)
+..|++..||.+|.. ..|++|.++..+-|++.. + ...+|.|+.++=+-+
T Consensus 5 ~~~~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 5 ATYGEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred EEeCCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 344778999998853 368999999999888752 2 457788998876654
No 17
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=41.86 E-value=35 Score=22.73 Aligned_cols=24 Identities=13% Similarity=0.321 Sum_probs=18.8
Q ss_pred HHHHHHHHHcCC-CCCChHHHHHhh
Q 035952 101 FQEIVSAVECSN-KRFDFGNLVEEL 124 (125)
Q Consensus 101 F~~vl~~l~~~~-~~~~~~~~~~~~ 124 (125)
+-.++..|+..+ ...+++|+++|+
T Consensus 11 l~~aV~ymK~r~~~Plt~~EIl~~l 35 (75)
T cd07977 11 LAKIVDYMKKRHQHPLTLDEILDYL 35 (75)
T ss_pred HHHHHHHHHhcCCCCccHHHHHHHH
Confidence 345667777888 778999999986
No 18
>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=41.54 E-value=13 Score=21.76 Aligned_cols=19 Identities=32% Similarity=0.413 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHHhhhcC
Q 035952 67 FLSHPLFKMLLEKSYNEFG 85 (125)
Q Consensus 67 ~L~~P~F~~LL~~aeeEfG 85 (125)
||+.-.|+++..++.+||.
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 7899999999999999873
No 19
>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=40.51 E-value=65 Score=24.96 Aligned_cols=61 Identities=21% Similarity=0.266 Sum_probs=39.2
Q ss_pred ceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCCC
Q 035952 48 GFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNKR 114 (125)
Q Consensus 48 G~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~~ 114 (125)
|.+++++|-.-.+= .+-|...+|++...+++|.+.+....-.=+...+..+...+.+..+.
T Consensus 1 g~lvlFiGAG~S~~------~glP~W~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 61 (242)
T cd01406 1 GRVVIFVGAGVSVS------SGLPDWKTLLDEIASELGLEIDGYSVEAKDENDYLELAELLEKEFGT 61 (242)
T ss_pred CCEEEEecCccccc------cCCCChHHHHHHHHHHcCCccchhhccccchhhHHHHHHHHHHHhcc
Confidence 67889998542221 57899999999999999877542211001345566666666655544
No 20
>PF14317 YcxB: YcxB-like protein
Probab=39.80 E-value=71 Score=18.65 Aligned_cols=32 Identities=22% Similarity=0.515 Sum_probs=24.5
Q ss_pred CCceEEEEEccCceeEEEeccCCCcHHHHHHHH
Q 035952 46 PTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLE 78 (125)
Q Consensus 46 pkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~ 78 (125)
-+.++.+|++ ...-+.||.+.++.-...++.+
T Consensus 28 ~~~~~~l~~~-~~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLG-KNQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEEC-CCeEEEEEHHHCCHhHHHHHHH
Confidence 4678888998 5699999999998655555544
No 21
>smart00153 VHP Villin headpiece domain.
Probab=38.96 E-value=17 Score=21.25 Aligned_cols=18 Identities=28% Similarity=0.486 Sum_probs=16.3
Q ss_pred CCCcHHHHHHHHHHhhhc
Q 035952 67 FLSHPLFKMLLEKSYNEF 84 (125)
Q Consensus 67 ~L~~P~F~~LL~~aeeEf 84 (125)
||+.-.|+..+.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 788999999999999887
No 22
>PF14062 DUF4253: Domain of unknown function (DUF4253)
Probab=38.14 E-value=85 Score=22.25 Aligned_cols=40 Identities=15% Similarity=0.097 Sum_probs=27.4
Q ss_pred CCceEEEEEccCceeEEEeccCCCcH-HHHHHHHHHhhhcCCCCC
Q 035952 46 PTGFFAVYVGEEQERFVVPTGFLSHP-LFKMLLEKSYNEFGFEQK 89 (125)
Q Consensus 46 pkG~~~VyVG~~~~RfvVp~~~L~~P-~F~~LL~~aeeEfG~~~~ 89 (125)
.=|..+|.+|.+.==|.|+ +-| ...+.+..|.|-|.|..+
T Consensus 42 r~ga~i~~i~~d~le~~v~----~pP~~~~ea~~lA~E~y~fCpD 82 (111)
T PF14062_consen 42 RYGAEIVGIGFDTLELSVA----RPPQTPEEAEALAAEHYAFCPD 82 (111)
T ss_pred HhCEEEEEEECCEEEEEEC----CCCCCHHHHHHHHHHHHHhCcc
Confidence 3467777777664334333 345 578888999999999864
No 23
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=37.22 E-value=1.8e+02 Score=24.85 Aligned_cols=64 Identities=16% Similarity=0.374 Sum_probs=43.6
Q ss_pred CCCCceEEEEEcc--------------------CceeEEEeccC--CCcHHHHHHHHHHhhhcCCCCCCceEecCCHHHH
Q 035952 44 TTPTGFFAVYVGE--------------------EQERFVVPTGF--LSHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTF 101 (125)
Q Consensus 44 ~vpkG~~~VyVG~--------------------~~~RfvVp~~~--L~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 101 (125)
..+++.+++.||. +.-|+.||++| =|.-..++..+.+.+-||-+. +++-=+---|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~~~---~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGAEN---FQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCccc---EEehhhhCCH
Confidence 4567889999984 23599999999 677778888888888887442 3333344445
Q ss_pred HHHHHHHHc
Q 035952 102 QEIVSAVEC 110 (125)
Q Consensus 102 ~~vl~~l~~ 110 (125)
+..+..|.+
T Consensus 218 ~eYl~lL~~ 226 (322)
T PRK02797 218 DDYLALLRQ 226 (322)
T ss_pred HHHHHHHHh
Confidence 555555543
No 24
>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=36.68 E-value=5.4 Score=28.04 Aligned_cols=12 Identities=42% Similarity=0.941 Sum_probs=8.4
Q ss_pred cCCCcHHHHHHH
Q 035952 66 GFLSHPLFKMLL 77 (125)
Q Consensus 66 ~~L~~P~F~~LL 77 (125)
.|||||.|.-|-
T Consensus 4 ~YLNHPtFGlLy 15 (88)
T PF12058_consen 4 TYLNHPTFGLLY 15 (88)
T ss_dssp -EEEETTTEEEE
T ss_pred ccccCCccchhe
Confidence 589999886543
No 25
>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=35.37 E-value=31 Score=22.88 Aligned_cols=17 Identities=29% Similarity=0.542 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhhcCCC
Q 035952 71 PLFKMLLEKSYNEFGFE 87 (125)
Q Consensus 71 P~F~~LL~~aeeEfG~~ 87 (125)
-.+++||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 47999999999999996
No 26
>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=34.73 E-value=1.5e+02 Score=20.32 Aligned_cols=56 Identities=13% Similarity=0.208 Sum_probs=40.2
Q ss_pred ccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCC---------CCceEecCCHHHHHHHHHHHHcCCC
Q 035952 55 GEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQ---------KDRLVVPCSVSTFQEIVSAVECSNK 113 (125)
Q Consensus 55 G~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~---------~G~L~iPC~~~~F~~vl~~l~~~~~ 113 (125)
|++..||.+|- -.++.|.+|..+.+.-|++.. ..+++|.|++++ +..+.+.++++.
T Consensus 8 ~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eL-eE~~rl~~~~~~ 72 (81)
T cd06396 8 NGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEY-EEALKSAVRQGN 72 (81)
T ss_pred CCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhH-HHHHHHHHhCCC
Confidence 55889999983 224579999999999998762 257899998765 444555555543
No 27
>PF02880 PGM_PMM_III: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III; InterPro: IPR005846 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain III found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B 3UW2_A 2F7L_B 3I3W_B 2Z0F_A ....
Probab=34.49 E-value=70 Score=22.01 Aligned_cols=53 Identities=13% Similarity=0.194 Sum_probs=36.1
Q ss_pred cHHHHHHHHHHhhhcCCCCCCceEec----CC--HHHHHHHHHHHHcCCCCCChHHHHHhh
Q 035952 70 HPLFKMLLEKSYNEFGFEQKDRLVVP----CS--VSTFQEIVSAVECSNKRFDFGNLVEEL 124 (125)
Q Consensus 70 ~P~F~~LL~~aeeEfG~~~~G~L~iP----C~--~~~F~~vl~~l~~~~~~~~~~~~~~~~ 124 (125)
|.-+.+.+.+..--||++..|...+| |. ....-.++.++.+.+ -++.|+++++
T Consensus 51 ~~~i~~~~~~~~~~~ggE~sgg~~~~~~~~~~Dgi~a~~~~l~~l~~~~--~~ls~ll~~l 109 (113)
T PF02880_consen 51 FKNIAEKMREENAVFGGEESGGFIFPDFSYDKDGIYAALLLLELLAEEG--KTLSELLDEL 109 (113)
T ss_dssp HHHHHHHHHHTTESEEEETTSEEEETTTESSE-HHHHHHHHHHHHHHHT--S-HHHHHHHH
T ss_pred cHHHHHHHhhhceeEEecccCeEEecCCCCCCcHHHHHHHHHHHHHHhC--CCHHHHHHHH
Confidence 77788888777778999999999888 21 223335556666443 5788888775
No 28
>PHA03098 kelch-like protein; Provisional
Probab=34.33 E-value=81 Score=27.12 Aligned_cols=66 Identities=14% Similarity=0.237 Sum_probs=48.2
Q ss_pred EEEEEccCceeEEEeccCCC--cHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCCCCChHHHH
Q 035952 50 FAVYVGEEQERFVVPTGFLS--HPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNKRFDFGNLV 121 (125)
Q Consensus 50 ~~VyVG~~~~RfvVp~~~L~--~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~~~~~~~~~ 121 (125)
+.+.|+-+.++|-++-..|. .|.|++++... +. +..+.|+=+.+.|+.+|..+-++.-.++.+++.
T Consensus 12 v~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~-----~~-~~~i~l~~~~~~~~~~l~y~Ytg~~~i~~~~~~ 79 (534)
T PHA03098 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNN-----FK-ENEINLNIDYDSFNEVIKYIYTGKINITSNNVK 79 (534)
T ss_pred EEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCC-----CC-CceEEecCCHHHHHHHHHHhcCCceEEcHHHHH
Confidence 34555556788888877776 58999988543 22 346777669999999999999988777766643
No 29
>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=33.89 E-value=53 Score=23.32 Aligned_cols=52 Identities=19% Similarity=0.295 Sum_probs=26.6
Q ss_pred cCceeEE-Eec---cCCCcHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHH
Q 035952 56 EEQERFV-VPT---GFLSHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAV 108 (125)
Q Consensus 56 ~~~~Rfv-Vp~---~~L~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l 108 (125)
+++.=|+ +|- ...+-..|.+||+.|||.+|.++ =.++++=+-.....++..+
T Consensus 22 ~~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 22 DERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp -TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHH
T ss_pred cCCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhhc
Confidence 3555566 453 34455789999999999998775 2456664444455555444
No 30
>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=32.54 E-value=1.3e+02 Score=19.01 Aligned_cols=54 Identities=22% Similarity=0.340 Sum_probs=35.6
Q ss_pred EEEccCcee-EEEeccCCCcHHHHHHHHHHhhhcCCC----------CCC-ceEecCCHHHHHHHHHHHHc
Q 035952 52 VYVGEEQER-FVVPTGFLSHPLFKMLLEKSYNEFGFE----------QKD-RLVVPCSVSTFQEIVSAVEC 110 (125)
Q Consensus 52 VyVG~~~~R-fvVp~~~L~~P~F~~LL~~aeeEfG~~----------~~G-~L~iPC~~~~F~~vl~~l~~ 110 (125)
++-+++.+| +.+| ..+.|.+|..+.++.||.. .+| .++|.++.+ |+..+.....
T Consensus 6 ~~~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~D-l~~a~~~~~~ 71 (84)
T PF00564_consen 6 VRYGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDED-LQEAIEQAKE 71 (84)
T ss_dssp EEETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHH-HHHHHHHHHH
T ss_pred EEECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHH-HHHHHHHHHh
Confidence 344556666 4444 5679999999999999994 245 466666654 5555555554
No 31
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=31.96 E-value=1.8e+02 Score=23.80 Aligned_cols=62 Identities=21% Similarity=0.232 Sum_probs=43.3
Q ss_pred CceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCCC---------------CceEecCCHHHHHHHHHHH
Q 035952 47 TGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQK---------------DRLVVPCSVSTFQEIVSAV 108 (125)
Q Consensus 47 kG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~~---------------G~L~iPC~~~~F~~vl~~l 108 (125)
.|.+.|.-.++..++.+.++.-.-|....++.....-|+.+.+ -+|++|...+.||.+++.|
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 5666666555555666665554345566777777777777643 4699999999999888876
No 32
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=31.22 E-value=1.2e+02 Score=23.04 Aligned_cols=54 Identities=15% Similarity=0.492 Sum_probs=38.7
Q ss_pred CceeEEEe---ccCCCcHHHHHHHHHHhhhcCCCC----CCceEecCCHHHHHHHHHHHHcCCCCC-ChHHHHHhh
Q 035952 57 EQERFVVP---TGFLSHPLFKMLLEKSYNEFGFEQ----KDRLVVPCSVSTFQEIVSAVECSNKRF-DFGNLVEEL 124 (125)
Q Consensus 57 ~~~RfvVp---~~~L~~P~F~~LL~~aeeEfG~~~----~G~L~iPC~~~~F~~vl~~l~~~~~~~-~~~~~~~~~ 124 (125)
...-+++| ....+||..++=+++.++ .|+.- .|.| .|. +.+.+++ +.+++++++
T Consensus 112 ~~pv~i~PaMn~~M~~~p~~~~nl~~L~~-~G~~vi~P~~g~l--a~g-----------~~g~g~~~~~~~i~~~~ 173 (177)
T TIGR02113 112 ETPKLIAPAMNTKMYQNPITQRNIKILKK-IGYQEIQPKESLL--ACG-----------DYGRGALADLDDILQTI 173 (177)
T ss_pred CCCEEEEeCCCHHHhCCHHHHHHHHHHHH-CCCEEECCCcCcc--cCC-----------CccccCCCCHHHHHHHH
Confidence 35677888 788899999999999976 57652 2444 366 4566775 788877764
No 33
>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=30.94 E-value=1.2e+02 Score=22.95 Aligned_cols=43 Identities=14% Similarity=0.142 Sum_probs=34.6
Q ss_pred HHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCC
Q 035952 71 PLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNK 113 (125)
Q Consensus 71 P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~ 113 (125)
|.|-...-..-++.|...+|.-++|.+...-+.+...++++..
T Consensus 19 P~iv~~~~~~l~~~g~~~eGIFR~~g~~~~i~~l~~~l~~~~~ 61 (196)
T cd04395 19 PLIVEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGGF 61 (196)
T ss_pred ChHHHHHHHHHHHcCCCCccceeCCCcHHHHHHHHHHHhcCCC
Confidence 5555444455678899999999999999999999999987754
No 34
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=30.40 E-value=1e+02 Score=18.47 Aligned_cols=56 Identities=18% Similarity=0.347 Sum_probs=39.6
Q ss_pred eeEEEeccCCC--cHHHHHHHHHHhhhcCCCCCCceEec-CCHHHHHHHHHHHHcCCCCCCh
Q 035952 59 ERFVVPTGFLS--HPLFKMLLEKSYNEFGFEQKDRLVVP-CSVSTFQEIVSAVECSNKRFDF 117 (125)
Q Consensus 59 ~RfvVp~~~L~--~P~F~~LL~~aeeEfG~~~~G~L~iP-C~~~~F~~vl~~l~~~~~~~~~ 117 (125)
++|-++-..|. .|.|+.++.....+- ....+.++ .+...|+.++..+..+......
T Consensus 9 ~~~~~h~~iL~~~s~~f~~~~~~~~~~~---~~~~i~l~~~~~~~f~~~l~~ly~~~~~~~~ 67 (90)
T smart00225 9 KKFKAHKAVLAACSPYFKALFSGDFKES---KKSEIYLDDVSPEDFRALLEFLYTGKLDLPE 67 (90)
T ss_pred EEEehHHHHHhhcCHHHHHHHcCCCccC---CCCEEEecCCCHHHHHHHHHeecCceeecCH
Confidence 67777765554 488999987654331 34567776 6999999999999887655433
No 35
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=29.42 E-value=89 Score=23.86 Aligned_cols=58 Identities=9% Similarity=0.162 Sum_probs=41.1
Q ss_pred CceeEEEec---cCCCcHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCCCC-ChHHHHHhh
Q 035952 57 EQERFVVPT---GFLSHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNKRF-DFGNLVEEL 124 (125)
Q Consensus 57 ~~~RfvVp~---~~L~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~~~-~~~~~~~~~ 124 (125)
.+.-+++|. ....||..++=+++.++ .|...||...... ..-+.+.+++ +.+|+++.+
T Consensus 113 ~~pvvi~Pamn~~m~~~p~~~~Nl~~L~~------~G~~vi~p~~g~l----a~~~~g~g~~~~~~~i~~~v 174 (182)
T PRK07313 113 TTPKLIAPAMNTKMYENPATQRNLKTLKE------DGVQEIEPKEGLL----ACGDEGYGALADIETILETI 174 (182)
T ss_pred CCCEEEEECCCHHHhcCHHHHHHHHHHHH------CCCEEECCCCCcc----ccCCccCCCCCCHHHHHHHH
Confidence 456677886 67789999999988876 3566777665443 2345566776 889888764
No 36
>COG4923 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=29.15 E-value=61 Score=26.39 Aligned_cols=18 Identities=22% Similarity=0.613 Sum_probs=13.8
Q ss_pred CCceEecCCHHHHHHHHH
Q 035952 89 KDRLVVPCSVSTFQEIVS 106 (125)
Q Consensus 89 ~G~L~iPC~~~~F~~vl~ 106 (125)
..+.+|||.+..+..+-.
T Consensus 86 sSvF~vPcR~A~Y~~~y~ 103 (245)
T COG4923 86 SSVFSVPCRAALYSDIYG 103 (245)
T ss_pred cceeccchHHHHHHHHHH
Confidence 456789999999877643
No 37
>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=27.86 E-value=2.1e+02 Score=19.83 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=36.8
Q ss_pred EEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCCCC----------C-CceEecCCHHHHHH
Q 035952 52 VYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGFEQ----------K-DRLVVPCSVSTFQE 103 (125)
Q Consensus 52 VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~~~----------~-G~L~iPC~~~~F~~ 103 (125)
|--|.+.|||+.|. .|.+.+|-++.+.=|-+.. + ..|||.=+.++.+.
T Consensus 5 v~~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 5 SSFLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred EEeCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHH
Confidence 44456899999998 8999999999998887762 2 46888776665554
No 38
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=27.61 E-value=59 Score=19.24 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=16.4
Q ss_pred HHHHHHHHcCCCCCChHHHHHhh
Q 035952 102 QEIVSAVECSNKRFDFGNLVEEL 124 (125)
Q Consensus 102 ~~vl~~l~~~~~~~~~~~~~~~~ 124 (125)
..++.+|-..++..+.+||.++|
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l 25 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEEL 25 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHC
T ss_pred HHHHHHHHHcCCCcCHHHHHHHh
Confidence 35677774444449999998876
No 39
>KOG2124 consensus Glycosylphosphatidylinositol anchor synthesis protein [Signal transduction mechanisms]
Probab=27.23 E-value=78 Score=30.52 Aligned_cols=82 Identities=18% Similarity=0.316 Sum_probs=59.5
Q ss_pred ccCCCCCCceEEEEEccCceeEEEeccCCCcH-HHHHHHHHHhhhcCCCCCCce-------------------------E
Q 035952 40 ASMATTPTGFFAVYVGEEQERFVVPTGFLSHP-LFKMLLEKSYNEFGFEQKDRL-------------------------V 93 (125)
Q Consensus 40 ~~~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P-~F~~LL~~aeeEfG~~~~G~L-------------------------~ 93 (125)
+.+...+.||+|..-|---.==.|+....++| .|.....++..-|+|.++..+ .
T Consensus 87 r~PTeSRpghvAliaGfyedpSAvtkgwk~NPv~FDsvFN~S~~t~~~gs~dil~~fs~~~~~v~~~~y~~~~~~~~~d~ 166 (883)
T KOG2124|consen 87 RVPTESRPGHVALIAGFYEDPSAVTKGWKSNPVNFDSVFNRSRHTYSFGSPDILPMFSEDLSHVDTPMYDHELEDFDSDA 166 (883)
T ss_pred CCCCCCCCCcEEEEeccccChHHhhhhhhcCCchhhhhhhhhhhhhcccCcccchhhhcCCCccCccccchhHhhccccc
Confidence 45667789999999994333334455566676 489999999888888655333 3
Q ss_pred ecCCHHHHHHHHHHHHcCCCCCChHHHH
Q 035952 94 VPCSVSTFQEIVSAVECSNKRFDFGNLV 121 (125)
Q Consensus 94 iPC~~~~F~~vl~~l~~~~~~~~~~~~~ 121 (125)
+-||+-.|+++-.++++....-.++|++
T Consensus 167 ~~lD~WvFd~~~~l~~~~~~~~~L~~~~ 194 (883)
T KOG2124|consen 167 IELDEWVFDRVDDLLHNSTNDQELRDLL 194 (883)
T ss_pred cccchhhhhhHHHHHhhhhcchhHHHhh
Confidence 4578888999999998877777777665
No 40
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=27.19 E-value=30 Score=29.92 Aligned_cols=39 Identities=38% Similarity=0.576 Sum_probs=26.4
Q ss_pred cCCCCCCceEEEEEccC--ceeEEEeccCCCcH---------HHHHHHHHH
Q 035952 41 SMATTPTGFFAVYVGEE--QERFVVPTGFLSHP---------LFKMLLEKS 80 (125)
Q Consensus 41 ~~~~vpkG~~~VyVG~~--~~RfvVp~~~L~~P---------~F~~LL~~a 80 (125)
.+.-+|.|.|++|||-+ -..|.||+ |-|-- .=..||++|
T Consensus 86 n~I~IP~gSfv~Y~G~d~ie~~~~vP~-fGnR~lLrwE~~~~~~~~lLekA 135 (361)
T COG1759 86 NAIFIPHGSFVAYVGYDGIENEFEVPM-FGNRELLRWEEDRKLEYKLLEKA 135 (361)
T ss_pred CeEEecCCceEEEecchhhhhcccCcc-cccHhHhhhhcchhhHHHHHHHc
Confidence 46689999999999965 35677773 22322 234677776
No 41
>PRK00035 hemH ferrochelatase; Reviewed
Probab=25.55 E-value=1.5e+02 Score=24.22 Aligned_cols=73 Identities=21% Similarity=0.265 Sum_probs=36.9
Q ss_pred HHHHHHHHHhhhhcCCCCCCcchhhhhhhhhhcccCCCCCCceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCC
Q 035952 7 ASFKKLAKKVKVMSGGDKNQPHKQCLLEEYEDMASMATTPTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGF 86 (125)
Q Consensus 7 ~~l~ki~kkw~~~~~~~~~~~~~~~l~~~~~~~~~~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~ 86 (125)
.|.++..++++.++.++.-....+.+...-.+.-. . ..+-+.|++| -.+.+|.+.+-|++..++ |+
T Consensus 54 ~r~~~~~~~Y~~ig~gSPl~~~t~~q~~~L~~~l~--~-~~~~~~V~~a----------m~y~~P~i~eal~~l~~~-G~ 119 (333)
T PRK00035 54 ERLPKVAKHYASIGGGSPLNVITRRQAEALQAELA--A-RGPDLPVYLG----------MRYWNPSIEEALEALKAD-GV 119 (333)
T ss_pred hhHHHHHHHHHHcCCCChhHHHHHHHHHHHHHHHh--c-cCCCceEEEe----------ecCCCCCHHHHHHHHHhc-CC
Confidence 46678889999998754322111111111111100 0 1234777776 234567777777766654 43
Q ss_pred CCCCceEec
Q 035952 87 EQKDRLVVP 95 (125)
Q Consensus 87 ~~~G~L~iP 95 (125)
+. .+.+|
T Consensus 120 ~~--IivlP 126 (333)
T PRK00035 120 DR--IVVLP 126 (333)
T ss_pred CE--EEEEE
Confidence 32 55555
No 42
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=24.84 E-value=1.5e+02 Score=17.14 Aligned_cols=29 Identities=7% Similarity=0.208 Sum_probs=24.2
Q ss_pred CCHHHHHHHHHHHH-cCCCCCChHHHHHhh
Q 035952 96 CSVSTFQEIVSAVE-CSNKRFDFGNLVEEL 124 (125)
Q Consensus 96 C~~~~F~~vl~~l~-~~~~~~~~~~~~~~~ 124 (125)
.+...++.+++.++ +++|..+.+|.+..+
T Consensus 22 ~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~ 51 (54)
T PF13833_consen 22 LSEEEVDRLFREFDTDGDGYISFDEFISMM 51 (54)
T ss_dssp SCHHHHHHHHHHHTTSSSSSEEHHHHHHHH
T ss_pred CCHHHHHHHHHhcccCCCCCCCHHHHHHHH
Confidence 78889999999997 566788999988764
No 43
>cd04407 RhoGAP_myosin_IXB RhoGAP_myosin_IXB: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in myosins IXB. Class IX myosins contain a characteristic head domain, a neck domain and a tail domain which contains a C6H2-zinc binding motif and a Rho-GAP domain. Class IX myosins are single-headed, processive myosins that are partly cytoplasmic, and partly associated with membranes and the actin cytoskeleton. Class IX myosins are implicated in the regulation of neuronal morphogenesis and function of sensory systems, like the inner ear. There are two major isoforms, myosin IXA and IXB with several splice variants, which are both expressed in developing neurons 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 prolifer
Probab=24.17 E-value=1.7e+02 Score=22.16 Aligned_cols=40 Identities=15% Similarity=0.220 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCC
Q 035952 72 LFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSN 112 (125)
Q Consensus 72 ~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~ 112 (125)
....+++.. +..|...+|.-++|.+...-+.+...++++.
T Consensus 18 il~~~i~~l-~~~gl~~EGIfR~~Gs~~~i~~l~~~~~~~~ 57 (186)
T cd04407 18 VLEKLLEHV-EMHGLYTEGIYRKSGSANRMKELHQLLQADP 57 (186)
T ss_pred HHHHHHHHH-HHcCCCCCceeecCCCHHHHHHHHHHHhcCC
Confidence 444555555 5678999999999999999999998888654
No 44
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=24.10 E-value=3.7e+02 Score=23.40 Aligned_cols=44 Identities=18% Similarity=0.453 Sum_probs=34.8
Q ss_pred CCCCceEEEEEcc--------------------CceeEEEeccCC--CcHHHHHHHHHHhhhcCCC
Q 035952 44 TTPTGFFAVYVGE--------------------EQERFVVPTGFL--SHPLFKMLLEKSYNEFGFE 87 (125)
Q Consensus 44 ~vpkG~~~VyVG~--------------------~~~RfvVp~~~L--~~P~F~~LL~~aeeEfG~~ 87 (125)
..+++-..+.||. +..|+.||++|= |.-..+++.+.+++-||-+
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~~ 245 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGAE 245 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCcc
Confidence 4567889999983 358999999997 4568888888888888844
No 45
>cd07311 terB_like_1 tellurium resistance terB-like protein, subgroup 1. This family includes several uncharacterized bacterial proteins. The prototype of this CD is tellurite resistance protein from Nostoc punctiforme that belongs to COG3793. Its precise biological function and its mechanism responsible for tellurium resistance still remains rather poorly understood.
Probab=23.83 E-value=1e+02 Score=23.04 Aligned_cols=35 Identities=11% Similarity=0.231 Sum_probs=24.5
Q ss_pred hhhcCCCCCCceEecCCHHHHHHHHHH--HHcCCCCCChHHH
Q 035952 81 YNEFGFEQKDRLVVPCSVSTFQEIVSA--VECSNKRFDFGNL 120 (125)
Q Consensus 81 eeEfG~~~~G~L~iPC~~~~F~~vl~~--l~~~~~~~~~~~~ 120 (125)
.++|||++ ||-+.+....+..+ +.+.||+.+-.|+
T Consensus 9 ~~~~~~~~-----~~~~~~~~~~~~~Ll~iAkADG~Vse~Ei 45 (150)
T cd07311 9 QQTWGFDQ-----IPTNQDKLAYLKALLVCAKGDGVISPEER 45 (150)
T ss_pred HHHhCccc-----CCCcccHHHHHHHHHHHHHcCCCCCHHHH
Confidence 68999986 66565555555555 4688998877665
No 46
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=23.73 E-value=62 Score=26.31 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=24.3
Q ss_pred CcHHHHHHHHHHhhhcCCCCCCceEec
Q 035952 69 SHPLFKMLLEKSYNEFGFEQKDRLVVP 95 (125)
Q Consensus 69 ~~P~F~~LL~~aeeEfG~~~~G~L~iP 95 (125)
.|-.|-++++.+..|-+|..+|+|.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 478999999999999999999999874
No 47
>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=23.70 E-value=1.2e+02 Score=20.34 Aligned_cols=27 Identities=19% Similarity=0.258 Sum_probs=18.4
Q ss_pred CCcHHHHHHH----HHHhhhcCCCCCCceEe
Q 035952 68 LSHPLFKMLL----EKSYNEFGFEQKDRLVV 94 (125)
Q Consensus 68 L~~P~F~~LL----~~aeeEfG~~~~G~L~i 94 (125)
-..|.|++.| ..+-+||||..+..+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVPAEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCCCceEE
Confidence 3578999966 44456889997655444
No 48
>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=23.65 E-value=1.4e+02 Score=19.42 Aligned_cols=20 Identities=25% Similarity=0.205 Sum_probs=17.4
Q ss_pred eEEEEEccCceeEEEeccCC
Q 035952 49 FFAVYVGEEQERFVVPTGFL 68 (125)
Q Consensus 49 ~~~VyVG~~~~RfvVp~~~L 68 (125)
.|+++|+...-++.|+..-|
T Consensus 18 ~F~a~~~g~~i~C~Is~~aL 37 (83)
T PF07369_consen 18 RFPAQVDGMQIRCAISAEAL 37 (83)
T ss_dssp EEEEEETTEEEEEEEEHHHH
T ss_pred EEEEEECCEEEEEEEeHHHH
Confidence 68999998999999998766
No 49
>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=23.52 E-value=35 Score=25.04 Aligned_cols=30 Identities=30% Similarity=0.605 Sum_probs=7.4
Q ss_pred CCCCceEEEEEccCceeEE----------EeccCCCcHHHH
Q 035952 44 TTPTGFFAVYVGEEQERFV----------VPTGFLSHPLFK 74 (125)
Q Consensus 44 ~vpkG~~~VyVG~~~~Rfv----------Vp~~~L~~P~F~ 74 (125)
.-..||+||.|- .+-+|+ +|+-|||.|+-+
T Consensus 84 AG~QGYfPlL~~-~~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 84 AGKQGYFPLLVP-GRAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp ----SS--EEE---SSSSEEEEEEEESS----S--------
T ss_pred CCCcccceeecc-chhhhhhhhccCCCcceeeEEEeceeee
Confidence 345799999984 233333 788899988644
No 50
>PF14164 YqzH: YqzH-like protein
Probab=23.10 E-value=2.3e+02 Score=18.70 Aligned_cols=52 Identities=15% Similarity=0.402 Sum_probs=38.4
Q ss_pred CcHHHHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHH---cCCCCCChHHHHHh
Q 035952 69 SHPLFKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVE---CSNKRFDFGNLVEE 123 (125)
Q Consensus 69 ~~P~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~---~~~~~~~~~~~~~~ 123 (125)
|.-.+..++.++-+.||++. =+.|=+...++.+...+. +.++..++-|+|+.
T Consensus 2 ~ek~I~Kmi~~~l~QYg~d~---~~~pls~~E~~~L~~~i~~~~~~~~~~Dl~eiVeD 56 (64)
T PF14164_consen 2 NEKLIEKMIINCLRQYGYDV---ECMPLSDEEWEELCKHIQERKNEEPDEDLHEIVED 56 (64)
T ss_pred cHHHHHHHHHHHHHHhCCcc---cCCCCCHHHHHHHHHHHHHHHhcCCCchHHHHHHH
Confidence 34467788889999999983 367888999999887775 44455577777764
No 51
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=22.59 E-value=1.7e+02 Score=21.48 Aligned_cols=88 Identities=22% Similarity=0.191 Sum_probs=46.6
Q ss_pred HHHHHHHHHhhhhcCCCCCCcchhhhhhhhhhcccCCCCCCceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhhcCC
Q 035952 7 ASFKKLAKKVKVMSGGDKNQPHKQCLLEEYEDMASMATTPTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNEFGF 86 (125)
Q Consensus 7 ~~l~ki~kkw~~~~~~~~~~~~~~~l~~~~~~~~~~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeEfG~ 86 (125)
.|..+..++|++++.++.-....+.......+.-... ..-+.|++| -...+|.+.+.|++..+ .|.
T Consensus 48 ~r~~k~~~~Y~~ig~~SPL~~~t~~q~~~l~~~L~~~---~~~~~v~~a----------mry~~P~i~~~l~~l~~-~g~ 113 (159)
T cd03411 48 RRPPKVAKNYKKIGGGSPLNEITRAQAEALEKALDER---GIDVKVYLA----------MRYGPPSIEEALEELKA-DGV 113 (159)
T ss_pred cccHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhcc---CCCcEEEeh----------HhcCCCCHHHHHHHHHH-cCC
Confidence 3567788999999874321111111111111000000 023678887 34468999999999986 343
Q ss_pred CCCCceEec--------CCHHHHHHHHHHHHc
Q 035952 87 EQKDRLVVP--------CSVSTFQEIVSAVEC 110 (125)
Q Consensus 87 ~~~G~L~iP--------C~~~~F~~vl~~l~~ 110 (125)
+ ..+.+| .....++.+...+..
T Consensus 114 ~--~iivlPl~P~~S~~Tt~s~~~~~~~~~~~ 143 (159)
T cd03411 114 D--RIVVLPLYPQYSASTTGSYLDEVERALKK 143 (159)
T ss_pred C--EEEEEECCcccccccHHHHHHHHHHHHHh
Confidence 3 356665 223455555555543
No 52
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=21.87 E-value=1.7e+02 Score=24.23 Aligned_cols=83 Identities=20% Similarity=0.253 Sum_probs=47.5
Q ss_pred HHHHHHHHhhhhcCCCCCCcchh----hhhhhhhhcccCCCCCCceEEEEEccCceeEEEeccCCCcHHHHHHHHHHhhh
Q 035952 8 SFKKLAKKVKVMSGGDKNQPHKQ----CLLEEYEDMASMATTPTGFFAVYVGEEQERFVVPTGFLSHPLFKMLLEKSYNE 83 (125)
Q Consensus 8 ~l~ki~kkw~~~~~~~~~~~~~~----~l~~~~~~~~~~~~vpkG~~~VyVG~~~~RfvVp~~~L~~P~F~~LL~~aeeE 83 (125)
|..+..++++.++.++.-....+ .+....++.. +-+.|++| -...+|.+.+-|++..++
T Consensus 50 R~~~~~~~Y~~ig~~SPL~~~t~~qa~~l~~~L~~~~-------~~~~V~~a----------mry~~P~i~~~l~~l~~~ 112 (316)
T PF00762_consen 50 RPKKSAERYQKIGGGSPLNEITRRQAEALQQRLDERG-------VDVEVYYA----------MRYGPPSIEDALEELKAD 112 (316)
T ss_dssp HHHHHHHHHHHTTSSCCHHHHHHHHHHHHHHHHHHH--------EEEEEEEE----------ESSSSSBHHHHHHHHHHT
T ss_pred hHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHhcC-------CCeeEEEE----------eccCCCCHHHHHHHHHHc
Confidence 67788999999954432111100 1111111111 67889988 566788889988888875
Q ss_pred cCCCCCCceEec--------CCHHHHHHHHHHHHc
Q 035952 84 FGFEQKDRLVVP--------CSVSTFQEIVSAVEC 110 (125)
Q Consensus 84 fG~~~~G~L~iP--------C~~~~F~~vl~~l~~ 110 (125)
|++ ..+.|| -....++.+-..+..
T Consensus 113 -g~~--~ivvlPLyPqyS~~ttgs~~~~~~~~~~~ 144 (316)
T PF00762_consen 113 -GVD--RIVVLPLYPQYSSSTTGSYLDEVERALKK 144 (316)
T ss_dssp -T-S--EEEEEESSSS--TTTHHHHHHHHHHHHHH
T ss_pred -CCC--eEEEEeCCCchhHhhHHHHHHHHHHHHHh
Confidence 554 366666 234455555555544
No 53
>cd04372 RhoGAP_chimaerin RhoGAP_chimaerin: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of chimaerins. Chimaerins are a family of phorbolester- and diacylglycerol-responsive GAPs specific for the Rho-like GTPase Rac. Chimaerins exist in two alternative splice forms that each contain a C-terminal GAP domain, and a central C1 domain which binds phorbol esters, inducing a conformational change that activates the protein; one splice form is lacking the N-terminal Src homology-2 (SH2) domain. 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 GT
Probab=21.36 E-value=2.2e+02 Score=21.49 Aligned_cols=40 Identities=10% Similarity=0.177 Sum_probs=31.2
Q ss_pred HHHHHHHHhhhcCCCCCCceEecCCHHHHHHHHHHHHcCCC
Q 035952 73 FKMLLEKSYNEFGFEQKDRLVVPCSVSTFQEIVSAVECSNK 113 (125)
Q Consensus 73 F~~LL~~aeeEfG~~~~G~L~iPC~~~~F~~vl~~l~~~~~ 113 (125)
+..+++.. ++.|...+|.-++|-+...-+.+...++++..
T Consensus 20 v~~ci~~l-~~~gl~~EGIFR~sG~~~~i~~l~~~~d~~~~ 59 (194)
T cd04372 20 VDMCIREI-EARGLQSEGLYRVSGFAEEIEDVKMAFDRDGE 59 (194)
T ss_pred HHHHHHHH-HHcCCCcCceeecCCcHHHHHHHHHHHcCCCC
Confidence 33444544 56899999999999999999999888886543
No 54
>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=20.87 E-value=60 Score=24.34 Aligned_cols=34 Identities=18% Similarity=0.125 Sum_probs=23.0
Q ss_pred HHHHHHHhhhcCCCCC--CceEecCCHHHHHHHHHH
Q 035952 74 KMLLEKSYNEFGFEQK--DRLVVPCSVSTFQEIVSA 107 (125)
Q Consensus 74 ~~LL~~aeeEfG~~~~--G~L~iPC~~~~F~~vl~~ 107 (125)
.|++--.||||||+.+ .+=.|-|-.+.+++|...
T Consensus 91 VEiVMAlEEEFgiEIpd~dAdki~t~~da~~yI~~~ 126 (131)
T KOG1748|consen 91 VEIVMALEEEFGIEIPDEDADKIKTVRDAADYIADK 126 (131)
T ss_pred chhhhhhHHHhCCccCcchhhhhCCHHHHHHHHHhc
Confidence 3555666999999974 445566767777666543
Done!