Query psy3195
Match_columns 119
No_of_seqs 144 out of 1218
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 18:43:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3195.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3195hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01753 zf-MYND: MYND finger; 99.3 5.7E-13 1.2E-17 76.0 1.7 37 69-105 1-37 (37)
2 KOG3612|consensus 98.9 9.5E-12 2.1E-16 105.7 -8.4 107 1-109 439-568 (588)
3 KOG1710|consensus 98.6 1.1E-08 2.3E-13 82.7 0.2 43 66-108 319-362 (396)
4 PLN03158 methionine aminopepti 96.5 0.0017 3.7E-08 54.1 2.7 39 66-104 9-54 (396)
5 PF13824 zf-Mss51: Zinc-finger 95.8 0.0085 1.8E-07 37.2 2.4 43 68-110 1-47 (55)
6 KOG2084|consensus 94.9 0.017 3.6E-07 47.1 2.1 68 37-107 26-93 (482)
7 KOG2857|consensus 93.8 0.025 5.4E-07 41.5 0.8 37 67-108 6-45 (157)
8 PF04438 zf-HIT: HIT zinc fing 93.6 0.045 9.7E-07 29.8 1.4 28 67-95 3-30 (30)
9 KOG2061|consensus 92.8 0.032 6.9E-07 46.3 0.1 48 67-114 137-185 (362)
10 KOG3362|consensus 86.3 0.25 5.4E-06 36.4 0.3 32 65-97 117-148 (156)
11 PF09889 DUF2116: Uncharacteri 75.3 3.5 7.7E-05 25.8 2.7 32 66-103 3-34 (59)
12 PLN03144 Carbon catabolite rep 74.9 2.4 5.2E-05 37.6 2.5 38 67-104 60-108 (606)
13 KOG2738|consensus 73.1 1.8 3.9E-05 35.7 1.2 39 67-105 7-52 (369)
14 KOG4317|consensus 72.6 0.82 1.8E-05 37.7 -0.9 34 68-106 9-43 (383)
15 PF12855 Ecl1: Life-span regul 71.0 2.6 5.6E-05 24.7 1.2 31 67-100 7-37 (43)
16 PRK01343 zinc-binding protein; 68.0 4.9 0.00011 25.0 2.1 29 66-99 9-37 (57)
17 COG1096 Predicted RNA-binding 62.9 11 0.00023 28.9 3.4 44 43-86 117-174 (188)
18 PRK00418 DNA gyrase inhibitor; 41.2 21 0.00045 22.6 1.7 32 67-99 7-38 (62)
19 COG2888 Predicted Zn-ribbon RN 40.0 22 0.00048 22.4 1.7 18 68-85 29-46 (61)
20 PF03884 DUF329: Domain of unk 39.0 29 0.00063 21.5 2.1 30 68-98 4-33 (57)
21 KOG4215|consensus 38.8 12 0.00026 31.7 0.4 43 65-113 18-66 (432)
22 PF09297 zf-NADH-PPase: NADH p 37.3 17 0.00038 19.3 0.8 23 66-88 3-32 (32)
23 PF13717 zinc_ribbon_4: zinc-r 36.4 20 0.00043 19.8 1.0 12 76-87 24-35 (36)
24 PF00856 SET: SET domain; Int 35.9 21 0.00045 23.7 1.2 21 38-58 3-23 (162)
25 PF14803 Nudix_N_2: Nudix N-te 35.6 15 0.00032 20.4 0.3 21 68-88 2-33 (34)
26 COG4306 Uncharacterized protei 33.1 28 0.00061 25.3 1.5 61 15-75 13-77 (160)
27 PRK14890 putative Zn-ribbon RN 32.2 15 0.00032 23.1 -0.1 18 68-85 27-44 (59)
28 TIGR02098 MJ0042_CXXC MJ0042 f 26.1 36 0.00079 18.4 0.9 11 77-87 25-35 (38)
29 PRK14891 50S ribosomal protein 25.7 47 0.001 24.0 1.6 32 66-97 4-41 (131)
30 PF07295 DUF1451: Protein of u 25.4 39 0.00085 24.6 1.2 21 68-88 114-141 (146)
31 TIGR00100 hypA hydrogenase nic 25.3 49 0.0011 22.8 1.6 24 63-86 67-95 (115)
32 PF08189 Meleagrin: Meleagrin/ 25.2 17 0.00037 20.8 -0.6 20 83-102 6-26 (39)
33 PF04236 Transp_Tc5_C: Tc5 tra 24.9 28 0.00061 21.9 0.3 33 54-86 15-49 (63)
34 PF13719 zinc_ribbon_5: zinc-r 24.7 41 0.00088 18.6 0.9 12 76-87 24-35 (37)
35 PF13240 zinc_ribbon_2: zinc-r 24.5 35 0.00075 17.1 0.5 16 69-84 2-20 (23)
36 PF01529 zf-DHHC: DHHC palmito 23.4 51 0.0011 23.3 1.5 23 64-86 46-68 (174)
37 PRK12380 hydrogenase nickel in 23.3 61 0.0013 22.3 1.8 24 63-86 67-95 (113)
38 PRK00564 hypA hydrogenase nick 21.4 63 0.0014 22.3 1.6 24 63-86 68-97 (117)
39 PF10013 DUF2256: Uncharacteri 20.9 30 0.00065 20.2 -0.1 29 67-95 9-40 (42)
40 COG3357 Predicted transcriptio 20.8 50 0.0011 22.6 0.9 23 65-87 57-86 (97)
41 PF01155 HypA: Hydrogenase exp 20.7 46 0.001 22.8 0.7 23 64-86 68-95 (113)
42 KOG0402|consensus 20.2 41 0.00089 22.7 0.4 22 65-86 35-63 (92)
No 1
>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MYND-type zinc finger domains. The MYND domain (myeloid, Nervy, and DEAF-1) is present in a large group of proteins that includes RP-8 (PDCD2), Nervy, and predicted proteins from Drosophila, mammals, Caenorhabditis elegans, yeast, and plants [, , ]. The MYND domain consists of a cluster of cysteine and histidine residues, arranged with an invariant spacing to form a potential zinc-binding motif []. Mutating conserved cysteine residues in the DEAF-1 MYND domain does not abolish DNA binding, which suggests that the MYND domain might be involved in protein-protein interactions []. Indeed, the MYND domain of ETO/MTG8 interacts directly with the N-CoR and SMRT co-repressors [, ]. Aberrant recruitment of co-repressor complexes and inappropriate transcriptional repression is believed to be a general mechanism of leukemogenesis caused by the t(8;21) translocations that fuse ETO with the acute myelogenous leukemia 1 (AML1) protein. ETO has been shown to be a co-repressor recruited by the promyelocytic leukemia zinc finger (PLZF) protein []. A divergent MYND domain present in the adenovirus E1A binding protein BS69 was also shown to interact with N-CoR and mediate transcriptional repression []. The current evidence suggests that the MYND motif in mammalian proteins constitutes a protein-protein interaction domain that functions as a co-repressor-recruiting interface. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3QWW_A 3QWV_A 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3RU0_A ....
Probab=99.32 E-value=5.7e-13 Score=76.01 Aligned_cols=37 Identities=49% Similarity=1.163 Sum_probs=34.1
Q ss_pred cccccccccccCccCcccccCCHHHHHHhHHHHHHhc
Q psy3195 69 CANCNREAFAECSMCRQTPYCSTFCQRKDWTTHQVEC 105 (119)
Q Consensus 69 C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC 105 (119)
|.+|+++++.+|++|+.++|||++||++||+.|+.+|
T Consensus 1 C~~C~~~~~~~C~~C~~~~YCs~~Cq~~~w~~Hk~~C 37 (37)
T PF01753_consen 1 CAVCGKPALKRCSRCKSVYYCSEECQRADWPYHKFEC 37 (37)
T ss_dssp -TTTSSCSSEEETTTSSSEESSHHHHHHHHHHHCCTH
T ss_pred CcCCCCCcCCcCCCCCCEEecCHHHHHHHHHHHhhhC
Confidence 7889998888999999999999999999999999887
No 2
>KOG3612|consensus
Probab=98.90 E-value=9.5e-12 Score=105.67 Aligned_cols=107 Identities=21% Similarity=0.453 Sum_probs=72.3
Q ss_pred CchhccccCCCCCCCCccccccc-----cc-cccchhhhhhccCcccccCCCC-----------CceE------EecCCe
Q psy3195 1 MYSVIQQNAPNAQSGDESNTSAD-----QN-SFIDQAYVESASLPVLPIRLSI-----------GNTA------QVQGPL 57 (119)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~-----q~-~~~~~~~~e~~~~~~a~~~~~~-----------G~~i------~~~~p~ 57 (119)
||++++++++|+..+.+..+.++ |+ +++...+..++..++....... -+.+ +..+-.
T Consensus 439 i~~~~~~~~sd~~~~rer~l~a~t~kL~~E~e~~q~~~~~~l~~~~~~~~~em~~~r~tlE~k~~~n~~e~~kkl~~~~q 518 (588)
T KOG3612|consen 439 IIDLQESTLSDYSGSRERSLVAATEKLRQEFEELQQTSRRELPVPLRNFELEMAEMRKTLEQKHAENIKEEIKKLAEEHQ 518 (588)
T ss_pred HHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999988 22 3333333333333332211111 1111 001111
Q ss_pred eEeecCCcccccccccccccccCccCcccccCCHHHHHHhHHHHHHhccccc
Q psy3195 58 TIVENIDLRTRCANCNREAFAECSMCRQTPYCSTFCQRKDWTTHQVECVRSD 109 (119)
Q Consensus 58 ~~v~~~~~~~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~~~~ 109 (119)
..+....+..+|++|.+++.+.| |+.+.|||.+||+.||+.|+..|+.-.
T Consensus 519 r~l~etKkKQWC~nC~~EAiy~C--CWNTSYCsveCQQ~HW~~H~ksCrrk~ 568 (588)
T KOG3612|consen 519 RALAETKKKQWCYNCLDEAIYHC--CWNTSYCSVECQQGHWPEHRKSCRRKK 568 (588)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHh--hccccccCcchhhccchhHhhhhcccC
Confidence 12222347789999999999999 999999999999999999999998654
No 3
>KOG1710|consensus
Probab=98.58 E-value=1.1e-08 Score=82.70 Aligned_cols=43 Identities=30% Similarity=0.746 Sum_probs=39.3
Q ss_pred cccccccccc-ccccCccCcccccCCHHHHHHhHHHHHHhcccc
Q psy3195 66 RTRCANCNRE-AFAECSMCRQTPYCSTFCQRKDWTTHQVECVRS 108 (119)
Q Consensus 66 ~~~C~~C~k~-~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~~~ 108 (119)
..+|..||.+ +.++|+.|+.+.||+.+||+.||..||+.|+.+
T Consensus 319 ~~fCstCG~~ga~KrCs~CKav~YCdqeCQk~hWf~HKK~C~~L 362 (396)
T KOG1710|consen 319 CQFCSTCGHPGAKKRCSQCKAVAYCDQECQKFHWFIHKKVCSFL 362 (396)
T ss_pred cccccccCCCCccchhhhhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 4678888876 799999999999999999999999999999865
No 4
>PLN03158 methionine aminopeptidase; Provisional
Probab=96.54 E-value=0.0017 Score=54.15 Aligned_cols=39 Identities=28% Similarity=0.840 Sum_probs=33.4
Q ss_pred ccccccccccccccCccCcc-------cccCCHHHHHHhHHHHHHh
Q psy3195 66 RTRCANCNREAFAECSMCRQ-------TPYCSTFCQRKDWTTHQVE 104 (119)
Q Consensus 66 ~~~C~~C~k~~l~~Cs~C~~-------~~YCs~~CQ~~dW~~Hk~e 104 (119)
...|..|++++.+.|..|.. .++||.+|-+..|+.||..
T Consensus 9 ~~~c~~c~~~a~l~Cp~C~k~~~~~~~s~fCsq~CFk~~w~~Hk~~ 54 (396)
T PLN03158 9 PLACARCSKPAHLQCPKCLELKLPREGASFCSQDCFKAAWSSHKSV 54 (396)
T ss_pred cccccCCCCcccccCccchhcCCCCCCceeECHHHHHHHHHHHHHH
Confidence 34699999999899999864 7899999999999987653
No 5
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=95.80 E-value=0.0085 Score=37.17 Aligned_cols=43 Identities=28% Similarity=0.540 Sum_probs=37.2
Q ss_pred ccccccc----cccccCccCcccccCCHHHHHHhHHHHHHhcccccc
Q psy3195 68 RCANCNR----EAFAECSMCRQTPYCSTFCQRKDWTTHQVECVRSDQ 110 (119)
Q Consensus 68 ~C~~C~k----~~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~~~~~ 110 (119)
.|..|.+ ...+.|+.|....|||++.-..|.+.|+..|..+.+
T Consensus 1 ~Cpv~~~~~~~~v~~~Cp~cGipthcS~ehw~~D~e~H~~~c~~LRq 47 (55)
T PF13824_consen 1 LCPVCKKDLPAHVNFECPDCGIPTHCSEEHWEDDYEEHRQLCERLRQ 47 (55)
T ss_pred CCCCCccccccccCCcCCCCCCcCccCHHHHHHhHHHHHHHHHHHHH
Confidence 3677776 568999999999999999998888899999988765
No 6
>KOG2084|consensus
Probab=94.85 E-value=0.017 Score=47.05 Aligned_cols=68 Identities=18% Similarity=0.280 Sum_probs=57.0
Q ss_pred cCcccccCCCCCceEEecCCeeEeecCCcccccccccccccccCccCcccccCCHHHHHHhHHHHHHhccc
Q psy3195 37 SLPVLPIRLSIGNTAQVQGPLTIVENIDLRTRCANCNREAFAECSMCRQTPYCSTFCQRKDWTTHQVECVR 107 (119)
Q Consensus 37 ~~~~a~~~~~~G~~i~~~~p~~~v~~~~~~~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~~ 107 (119)
.+.+++.+|.+|++|+.+.|+.+.... ..|..|.......|.+|+...||...++...|..|+..|..
T Consensus 26 r~~~a~~~i~~g~~i~~e~p~~~~p~~---~~~~~c~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (482)
T KOG2084|consen 26 RGLVATQAIEAGEVILEEEPLVVGPAS---KSCSRCLGCSCDHCRRCLEAIECNKCQQRGWALCGKFACSA 93 (482)
T ss_pred cceeeecccCCCceEEecCcceeeecc---cCCccccccchhhhhcCCccHhhhhhhccCccccchhhcch
Confidence 378899999999999999999988776 55666666688899999999999998888888877777665
No 7
>KOG2857|consensus
Probab=93.80 E-value=0.025 Score=41.49 Aligned_cols=37 Identities=32% Similarity=0.829 Sum_probs=30.8
Q ss_pred ccccccccc-ccccCccCcccccCCHHHHHHhHHHHHH--hcccc
Q psy3195 67 TRCANCNRE-AFAECSMCRQTPYCSTFCQRKDWTTHQV--ECVRS 108 (119)
Q Consensus 67 ~~C~~C~k~-~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~--eC~~~ 108 (119)
..|.-|.+. ...+|+.|. +.|||..| |+.||. .|.+-
T Consensus 6 ~tC~ic~e~~~KYKCpkC~-vPYCSl~C----fKiHk~tPq~~~v 45 (157)
T KOG2857|consen 6 TTCVICLESEIKYKCPKCS-VPYCSLPC----FKIHKSTPQCETV 45 (157)
T ss_pred eeehhhhcchhhccCCCCC-Cccccchh----hhhccCCcccccc
Confidence 468889875 589999998 78999999 999998 66653
No 8
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=93.58 E-value=0.045 Score=29.78 Aligned_cols=28 Identities=32% Similarity=0.810 Sum_probs=21.6
Q ss_pred cccccccccccccCccCcccccCCHHHHH
Q psy3195 67 TRCANCNREAFAECSMCRQTPYCSTFCQR 95 (119)
Q Consensus 67 ~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~ 95 (119)
..|..|+.++..+|.+|. ..|||.+|-+
T Consensus 3 ~~C~vC~~~~kY~Cp~C~-~~~CSl~C~k 30 (30)
T PF04438_consen 3 KLCSVCGNPAKYRCPRCG-ARYCSLACYK 30 (30)
T ss_dssp EEETSSSSEESEE-TTT---EESSHHHHH
T ss_pred CCCccCcCCCEEECCCcC-CceeCcEeEC
Confidence 468999999999999998 4599999853
No 9
>KOG2061|consensus
Probab=92.80 E-value=0.032 Score=46.28 Aligned_cols=48 Identities=33% Similarity=0.718 Sum_probs=41.2
Q ss_pred cccccccccccccCccCcccccCCHHHHHHhHHH-HHHhcccccceeEe
Q psy3195 67 TRCANCNREAFAECSMCRQTPYCSTFCQRKDWTT-HQVECVRSDQIMLI 114 (119)
Q Consensus 67 ~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~-Hk~eC~~~~~~~~~ 114 (119)
..|..|+-.+...|..|+.+.|||+..|..||+. |+.+|......-.+
T Consensus 137 ~~~~~~~~~a~~~~~~~~~a~~~S~~~q~~d~~~~~~~a~aq~~~~~~~ 185 (362)
T KOG2061|consen 137 DLCGSCGCSAPAACSPCKAAAYCSKKHQSLDWPKGHKDACAQPSTLGEI 185 (362)
T ss_pred chhccCcccCcccccccchhhhcCchhhcccccccccccccCccccccc
Confidence 5688888779999999999999999999999997 99999987654333
No 10
>KOG3362|consensus
Probab=86.27 E-value=0.25 Score=36.39 Aligned_cols=32 Identities=38% Similarity=0.812 Sum_probs=27.4
Q ss_pred cccccccccccccccCccCcccccCCHHHHHHh
Q psy3195 65 LRTRCANCNREAFAECSMCRQTPYCSTFCQRKD 97 (119)
Q Consensus 65 ~~~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~d 97 (119)
....|+.||-+....|..|. +.||+..|...+
T Consensus 117 ~r~fCaVCG~~S~ysC~~CG-~kyCsv~C~~~H 148 (156)
T KOG3362|consen 117 LRKFCAVCGYDSKYSCVNCG-TKYCSVRCLKTH 148 (156)
T ss_pred cchhhhhcCCCchhHHHhcC-Cceeechhhhhc
Confidence 45689999999999999998 779999996544
No 11
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=75.29 E-value=3.5 Score=25.75 Aligned_cols=32 Identities=16% Similarity=0.504 Sum_probs=22.8
Q ss_pred ccccccccccccccCccCcccccCCHHHHHHhHHHHHH
Q psy3195 66 RTRCANCNREAFAECSMCRQTPYCSTFCQRKDWTTHQV 103 (119)
Q Consensus 66 ~~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~ 103 (119)
...|-+||++-.. .-.|||.+|....++.++.
T Consensus 3 HkHC~~CG~~Ip~------~~~fCS~~C~~~~~k~qk~ 34 (59)
T PF09889_consen 3 HKHCPVCGKPIPP------DESFCSPKCREEYRKRQKR 34 (59)
T ss_pred CCcCCcCCCcCCc------chhhhCHHHHHHHHHHHHH
Confidence 4578888875322 3569999999888776554
No 12
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional
Probab=74.90 E-value=2.4 Score=37.56 Aligned_cols=38 Identities=29% Similarity=0.624 Sum_probs=28.0
Q ss_pred ccccccc----ccccccCccCc-------ccccCCHHHHHHhHHHHHHh
Q psy3195 67 TRCANCN----REAFAECSMCR-------QTPYCSTFCQRKDWTTHQVE 104 (119)
Q Consensus 67 ~~C~~C~----k~~l~~Cs~C~-------~~~YCs~~CQ~~dW~~Hk~e 104 (119)
..+.-|. +++...|..|. ..++|+.+|-+..|+.||..
T Consensus 60 ~~~~~c~~h~~~~a~lqCp~C~k~~~~~~~s~fCsq~CFk~~w~~Hk~~ 108 (606)
T PLN03144 60 RKVAVCSVHPSEPATLQCVGCVKAKLPVSKSYHCSPKCFSDAWRHHRVL 108 (606)
T ss_pred ccceeEeecCCCcccccCccchhcCCCcCcceeeCHHHHHHHHHHHHHH
Confidence 3455664 34667777775 26799999999999998753
No 13
>KOG2738|consensus
Probab=73.11 E-value=1.8 Score=35.70 Aligned_cols=39 Identities=26% Similarity=0.741 Sum_probs=30.5
Q ss_pred ccc--ccccccccccCccCc-----ccccCCHHHHHHhHHHHHHhc
Q psy3195 67 TRC--ANCNREAFAECSMCR-----QTPYCSTFCQRKDWTTHQVEC 105 (119)
Q Consensus 67 ~~C--~~C~k~~l~~Cs~C~-----~~~YCs~~CQ~~dW~~Hk~eC 105 (119)
..| ..|++++...|..|. .+++|+.+|-+..|..||..=
T Consensus 7 ~~c~~~~c~~~a~l~Cp~c~~~~i~~~~fc~q~cf~~~w~~hK~~h 52 (369)
T KOG2738|consen 7 ISCEGLQCGSEASLQCPTCLKLGIKSAYFCAQECFKNSWLSHKKLH 52 (369)
T ss_pred ceeeccccCChhhccCchhhhcCCCcccccCchhhhcchhhhhhhc
Confidence 356 568887778888775 357999999999999988754
No 14
>KOG4317|consensus
Probab=72.57 E-value=0.82 Score=37.74 Aligned_cols=34 Identities=29% Similarity=0.792 Sum_probs=26.0
Q ss_pred cccccccc-ccccCccCcccccCCHHHHHHhHHHHHHhcc
Q psy3195 68 RCANCNRE-AFAECSMCRQTPYCSTFCQRKDWTTHQVECV 106 (119)
Q Consensus 68 ~C~~C~k~-~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~ 106 (119)
.|..|++. ..+.|.+|. ..||+-.| ++.|+..|.
T Consensus 9 ~C~ic~vq~~~YtCPRCn-~~YCsl~C----Yr~h~~~Cs 43 (383)
T KOG4317|consen 9 ACGICGVQKREYTCPRCN-LLYCSLKC----YRNHKHSCS 43 (383)
T ss_pred eccccccccccccCCCCC-ccceeeee----ecCCCccch
Confidence 58888874 679999998 66999988 555665554
No 15
>PF12855 Ecl1: Life-span regulatory factor; InterPro: IPR024368 The fungal proteins in this entry are involved in the regulation of chronological life-span [, ]. Overexpression of these proteins has been shown to extend the chronological life-span of wild-type strains. The mechanism by which this happens is not known, but microarray data suggests that they may function as pleiptropic stress regulators.
Probab=70.98 E-value=2.6 Score=24.74 Aligned_cols=31 Identities=26% Similarity=0.491 Sum_probs=20.9
Q ss_pred cccccccccccccCccCcccccCCHHHHHHhHHH
Q psy3195 67 TRCANCNREAFAECSMCRQTPYCSTFCQRKDWTT 100 (119)
Q Consensus 67 ~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~~ 100 (119)
.+|-.|.|.-.. .--..-|||.+|+..|+..
T Consensus 7 ~yC~~Cdk~~~~---~~~~~lYCSe~Cr~~D~~~ 37 (43)
T PF12855_consen 7 DYCIVCDKQIDP---PDDGSLYCSEECRLKDQEK 37 (43)
T ss_pred hHHHHhhccccC---CCCCccccCHHHHhHhhhc
Confidence 356666664222 2345679999999999875
No 16
>PRK01343 zinc-binding protein; Provisional
Probab=68.01 E-value=4.9 Score=25.03 Aligned_cols=29 Identities=24% Similarity=0.693 Sum_probs=21.6
Q ss_pred ccccccccccccccCccCcccccCCHHHHHHhHH
Q psy3195 66 RTRCANCNREAFAECSMCRQTPYCSTFCQRKDWT 99 (119)
Q Consensus 66 ~~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~ 99 (119)
...|-.|++.... ....|||+.|+..|..
T Consensus 9 ~~~CP~C~k~~~~-----~~rPFCS~RC~~iDLg 37 (57)
T PRK01343 9 TRPCPECGKPSTR-----EAYPFCSERCRDIDLN 37 (57)
T ss_pred CCcCCCCCCcCcC-----CCCcccCHHHhhhhHH
Confidence 4578889886442 3568999999998754
No 17
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=62.95 E-value=11 Score=28.89 Aligned_cols=44 Identities=20% Similarity=0.534 Sum_probs=27.7
Q ss_pred cCCCCCceEE-----ecCCeeEeecC----Cccccccccccc-----ccccCccCccc
Q psy3195 43 IRLSIGNTAQ-----VQGPLTIVENI----DLRTRCANCNRE-----AFAECSMCRQT 86 (119)
Q Consensus 43 ~~~~~G~~i~-----~~~p~~~v~~~----~~~~~C~~C~k~-----~l~~Cs~C~~~ 86 (119)
..|.+||++. ...|+...-.. ....+|.+|... ..++|..|...
T Consensus 117 d~f~~GDivrA~Vis~~~~~~Lst~~~dlGVI~A~CsrC~~~L~~~~~~l~Cp~Cg~t 174 (188)
T COG1096 117 DAFRIGDIVRARVISTGDPIQLSTKGNDLGVIYARCSRCRAPLVKKGNMLKCPNCGNT 174 (188)
T ss_pred cccccccEEEEEEEecCCCeEEEecCCcceEEEEEccCCCcceEEcCcEEECCCCCCE
Confidence 7888888772 22444332221 255789999763 58889988753
No 18
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=41.19 E-value=21 Score=22.55 Aligned_cols=32 Identities=25% Similarity=0.527 Sum_probs=19.4
Q ss_pred cccccccccccccCccCcccccCCHHHHHHhHH
Q psy3195 67 TRCANCNREAFAECSMCRQTPYCSTFCQRKDWT 99 (119)
Q Consensus 67 ~~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW~ 99 (119)
..|-.|++.....= .=....+||+.|+..|..
T Consensus 7 v~CP~C~k~~~w~~-~~~~rPFCS~RCk~IDLg 38 (62)
T PRK00418 7 VNCPTCGKPVEWGE-ISPFRPFCSKRCQLIDLG 38 (62)
T ss_pred ccCCCCCCcccccC-CCCcCCcccHHHHhhhHH
Confidence 45777777532210 012346999999998754
No 19
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=40.01 E-value=22 Score=22.39 Aligned_cols=18 Identities=33% Similarity=0.984 Sum_probs=13.5
Q ss_pred ccccccccccccCccCcc
Q psy3195 68 RCANCNREAFAECSMCRQ 85 (119)
Q Consensus 68 ~C~~C~k~~l~~Cs~C~~ 85 (119)
.|-+|++....||.+||.
T Consensus 29 ~CPnCGe~~I~Rc~~CRk 46 (61)
T COG2888 29 PCPNCGEVEIYRCAKCRK 46 (61)
T ss_pred eCCCCCceeeehhhhHHH
Confidence 488888877777777763
No 20
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=38.95 E-value=29 Score=21.45 Aligned_cols=30 Identities=23% Similarity=0.512 Sum_probs=15.4
Q ss_pred ccccccccccccCccCcccccCCHHHHHHhH
Q psy3195 68 RCANCNREAFAECSMCRQTPYCSTFCQRKDW 98 (119)
Q Consensus 68 ~C~~C~k~~l~~Cs~C~~~~YCs~~CQ~~dW 98 (119)
.|-.|++.....=. =....+||+.|+..|.
T Consensus 4 ~CP~C~k~~~~~~~-n~~rPFCS~RCk~iDL 33 (57)
T PF03884_consen 4 KCPICGKPVEWSPE-NPFRPFCSERCKLIDL 33 (57)
T ss_dssp E-TTT--EEE-SSS-SS--SSSSHHHHHHHH
T ss_pred cCCCCCCeecccCC-CCcCCcccHhhcccCH
Confidence 57777775332111 1345699999998874
No 21
>KOG4215|consensus
Probab=38.81 E-value=12 Score=31.67 Aligned_cols=43 Identities=23% Similarity=0.448 Sum_probs=32.1
Q ss_pred ccccccccccc------ccccCccCcccccCCHHHHHHhHHHHHHhcccccceeE
Q psy3195 65 LRTRCANCNRE------AFAECSMCRQTPYCSTFCQRKDWTTHQVECVRSDQIML 113 (119)
Q Consensus 65 ~~~~C~~C~k~------~l~~Cs~C~~~~YCs~~CQ~~dW~~Hk~eC~~~~~~~~ 113 (119)
....|+-|+.+ .-..|-+|+..+ .+.-|+.|+..|+-.++..+
T Consensus 18 ~~~~CaICGDkaTGKHYGA~SCdGCKGFF------RRSVrk~~~YtCRF~k~C~V 66 (432)
T KOG4215|consen 18 VAEFCAICGDKATGKHYGAISCDGCKGFF------RRSVRKNHQYTCRFNKQCVV 66 (432)
T ss_pred ccchhheeCCcccccccceeecCcchHHH------HHHHHhcceeeeeccccccc
Confidence 34579999874 578999999664 45568889999987776544
No 22
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=37.29 E-value=17 Score=19.28 Aligned_cols=23 Identities=22% Similarity=0.624 Sum_probs=11.9
Q ss_pred cccccccccc-------ccccCccCccccc
Q psy3195 66 RTRCANCNRE-------AFAECSMCRQTPY 88 (119)
Q Consensus 66 ~~~C~~C~k~-------~l~~Cs~C~~~~Y 88 (119)
..+|..|+.+ -.+.|..|....|
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~~~y 32 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGHEHY 32 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-EE-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcCEeC
Confidence 4578888864 3678888876554
No 23
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=36.40 E-value=20 Score=19.82 Aligned_cols=12 Identities=25% Similarity=0.467 Sum_probs=8.4
Q ss_pred ccccCccCcccc
Q psy3195 76 AFAECSMCRQTP 87 (119)
Q Consensus 76 ~l~~Cs~C~~~~ 87 (119)
...+|+.|..+|
T Consensus 24 ~~v~C~~C~~~f 35 (36)
T PF13717_consen 24 RKVRCSKCGHVF 35 (36)
T ss_pred cEEECCCCCCEe
Confidence 367788887665
No 24
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=35.85 E-value=21 Score=23.75 Aligned_cols=21 Identities=10% Similarity=0.074 Sum_probs=14.1
Q ss_pred CcccccCCCCCceEEecCCee
Q psy3195 38 LPVLPIRLSIGNTAQVQGPLT 58 (119)
Q Consensus 38 ~~~a~~~~~~G~~i~~~~p~~ 58 (119)
+.+|+++|++|++|+...++.
T Consensus 3 Gl~At~dI~~Ge~I~~p~~~~ 23 (162)
T PF00856_consen 3 GLFATRDIKAGEVILIPRPAI 23 (162)
T ss_dssp EEEESS-B-TTEEEEEESEEE
T ss_pred EEEECccCCCCCEEEEECcce
Confidence 568999999999998434433
No 25
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=35.58 E-value=15 Score=20.38 Aligned_cols=21 Identities=24% Similarity=0.613 Sum_probs=10.8
Q ss_pred cccccccc-----------ccccCccCccccc
Q psy3195 68 RCANCNRE-----------AFAECSMCRQTPY 88 (119)
Q Consensus 68 ~C~~C~k~-----------~l~~Cs~C~~~~Y 88 (119)
+|..|+.+ ....|+.|..+.|
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~IhY 33 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFIHY 33 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEEE-
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCEEe
Confidence 56677652 3567777777665
No 26
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.13 E-value=28 Score=25.34 Aligned_cols=61 Identities=16% Similarity=0.204 Sum_probs=35.6
Q ss_pred CCccccccccccccchhhhhhccCcccccCCCCCceEEecCCeeEeecC----Cccccccccccc
Q psy3195 15 GDESNTSADQNSFIDQAYVESASLPVLPIRLSIGNTAQVQGPLTIVENI----DLRTRCANCNRE 75 (119)
Q Consensus 15 ~~~~~~~~~q~~~~~~~~~e~~~~~~a~~~~~~G~~i~~~~p~~~v~~~----~~~~~C~~C~k~ 75 (119)
|-.-.++|+|+.-+...|..+-++...+.--.-..-|.-+.-...+... ....+|++|+++
T Consensus 13 gh~attaadq~pel~eafcskcgeati~qcp~csasirgd~~vegvlglg~dye~psfchncgs~ 77 (160)
T COG4306 13 GHVATTAADQSPELMEAFCSKCGEATITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSR 77 (160)
T ss_pred CceeeccccCCHHHHHHHHhhhchHHHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCC
Confidence 6677789999998989998877754433222222222111112223322 256789999983
No 27
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=32.19 E-value=15 Score=23.07 Aligned_cols=18 Identities=33% Similarity=0.929 Sum_probs=13.5
Q ss_pred ccccccccccccCccCcc
Q psy3195 68 RCANCNREAFAECSMCRQ 85 (119)
Q Consensus 68 ~C~~C~k~~l~~Cs~C~~ 85 (119)
.|-+|++....||.+||.
T Consensus 27 ~CPnCG~~~I~RC~~CRk 44 (59)
T PRK14890 27 LCPNCGEVIIYRCEKCRK 44 (59)
T ss_pred eCCCCCCeeEeechhHHh
Confidence 588888776777877774
No 28
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=26.12 E-value=36 Score=18.40 Aligned_cols=11 Identities=18% Similarity=0.437 Sum_probs=7.1
Q ss_pred cccCccCcccc
Q psy3195 77 FAECSMCRQTP 87 (119)
Q Consensus 77 l~~Cs~C~~~~ 87 (119)
..+|+.|...+
T Consensus 25 ~v~C~~C~~~~ 35 (38)
T TIGR02098 25 KVRCGKCGHVW 35 (38)
T ss_pred EEECCCCCCEE
Confidence 36777777654
No 29
>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional
Probab=25.65 E-value=47 Score=23.98 Aligned_cols=32 Identities=9% Similarity=0.185 Sum_probs=20.7
Q ss_pred cccccccccc------ccccCccCcccccCCHHHHHHh
Q psy3195 66 RTRCANCNRE------AFAECSMCRQTPYCSTFCQRKD 97 (119)
Q Consensus 66 ~~~C~~C~k~------~l~~Cs~C~~~~YCs~~CQ~~d 97 (119)
...|.+|+.. .++.=.-.+..+|||..|.+..
T Consensus 4 ~e~CsFcG~kIyPG~G~~fVR~DGkvf~FcssKC~k~f 41 (131)
T PRK14891 4 TRTCDYTGEEIEPGTGTMFVRKDGTVLHFVDSKCEKNY 41 (131)
T ss_pred eeeecCcCCcccCCCCcEEEecCCCEEEEecHHHHHHH
Confidence 3469999863 1232233667889999996543
No 30
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=25.38 E-value=39 Score=24.59 Aligned_cols=21 Identities=33% Similarity=0.950 Sum_probs=16.4
Q ss_pred cccccccc-------ccccCccCccccc
Q psy3195 68 RCANCNRE-------AFAECSMCRQTPY 88 (119)
Q Consensus 68 ~C~~C~k~-------~l~~Cs~C~~~~Y 88 (119)
.|.+|+.. .+.+|+.|....|
T Consensus 114 ~C~~Cg~~~~~~~~~~l~~Cp~C~~~~F 141 (146)
T PF07295_consen 114 VCENCGHEVELTHPERLPPCPKCGHTEF 141 (146)
T ss_pred ecccCCCEEEecCCCcCCCCCCCCCCee
Confidence 69999873 5899999986654
No 31
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.27 E-value=49 Score=22.82 Aligned_cols=24 Identities=21% Similarity=0.690 Sum_probs=16.9
Q ss_pred CCccccccccccc-----ccccCccCccc
Q psy3195 63 IDLRTRCANCNRE-----AFAECSMCRQT 86 (119)
Q Consensus 63 ~~~~~~C~~C~k~-----~l~~Cs~C~~~ 86 (119)
.+...+|..|+.. ....|+.|...
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (115)
T TIGR00100 67 EPVECECEDCSEEVSPEIDLYRCPKCHGI 95 (115)
T ss_pred eCcEEEcccCCCEEecCCcCccCcCCcCC
Confidence 3445689999874 36779998853
No 32
>PF08189 Meleagrin: Meleagrin/Cygnin family; InterPro: IPR012573 This family consists of meleagrin and cygnin basic peptides that are isolated from turkey and black swan respectively. Both peptides are low in molecular weight and contain three disulphide bonds with high concentrations of aromatic residues. These peptides show similarity to transferrins and probably play some vital role in avian eggs but the exact function is still unknown [].
Probab=25.24 E-value=17 Score=20.75 Aligned_cols=20 Identities=40% Similarity=1.064 Sum_probs=15.0
Q ss_pred CcccccCCHHHHHHh-HHHHH
Q psy3195 83 CRQTPYCSTFCQRKD-WTTHQ 102 (119)
Q Consensus 83 C~~~~YCs~~CQ~~d-W~~Hk 102 (119)
|-.+.|||..|.+.+ |..|.
T Consensus 6 cpkiGYCS~~CsKt~vWa~s~ 26 (39)
T PF08189_consen 6 CPKIGYCSSKCSKTDVWAFSQ 26 (39)
T ss_pred CcccceecccccccceeeecC
Confidence 556889999998866 66543
No 33
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.87 E-value=28 Score=21.90 Aligned_cols=33 Identities=21% Similarity=0.680 Sum_probs=22.6
Q ss_pred cCCeeEeecCCccccccc--ccccccccCccCccc
Q psy3195 54 QGPLTIVENIDLRTRCAN--CNREAFAECSMCRQT 86 (119)
Q Consensus 54 ~~p~~~v~~~~~~~~C~~--C~k~~l~~Cs~C~~~ 86 (119)
+.|..+.........|.. |...+..+|+.|+..
T Consensus 15 ~tP~~~cF~~~~~~~C~~~gC~~~s~I~C~~Ckk~ 49 (63)
T PF04236_consen 15 ETPVDFCFPKNVAGDCDITGCNNTSFIRCAYCKKS 49 (63)
T ss_pred CCHHHHhCCCCCcCcCCCCCCCCcCEEEccccCCc
Confidence 344444443345567887 999999999999854
No 34
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=24.67 E-value=41 Score=18.56 Aligned_cols=12 Identities=17% Similarity=0.418 Sum_probs=8.2
Q ss_pred ccccCccCcccc
Q psy3195 76 AFAECSMCRQTP 87 (119)
Q Consensus 76 ~l~~Cs~C~~~~ 87 (119)
...+|++|+..+
T Consensus 24 ~~vrC~~C~~~f 35 (37)
T PF13719_consen 24 RKVRCPKCGHVF 35 (37)
T ss_pred cEEECCCCCcEe
Confidence 367788887654
No 35
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=24.48 E-value=35 Score=17.06 Aligned_cols=16 Identities=38% Similarity=0.912 Sum_probs=8.3
Q ss_pred ccccccc---ccccCccCc
Q psy3195 69 CANCNRE---AFAECSMCR 84 (119)
Q Consensus 69 C~~C~k~---~l~~Cs~C~ 84 (119)
|.+|+++ ...-|+.|.
T Consensus 2 Cp~CG~~~~~~~~fC~~CG 20 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCG 20 (23)
T ss_pred CcccCCCCCCcCcchhhhC
Confidence 5666653 344455553
No 36
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=23.36 E-value=51 Score=23.26 Aligned_cols=23 Identities=17% Similarity=0.335 Sum_probs=14.7
Q ss_pred CcccccccccccccccCccCccc
Q psy3195 64 DLRTRCANCNREAFAECSMCRQT 86 (119)
Q Consensus 64 ~~~~~C~~C~k~~l~~Cs~C~~~ 86 (119)
.....|..|......|+..|+.-
T Consensus 46 ~~~~~C~~C~~~kp~Rs~HC~~C 68 (174)
T PF01529_consen 46 GELKYCSTCKIIKPPRSHHCRVC 68 (174)
T ss_pred CCCEECcccCCcCCCcceecccc
Confidence 35567888877665566555543
No 37
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.34 E-value=61 Score=22.28 Aligned_cols=24 Identities=21% Similarity=0.542 Sum_probs=16.7
Q ss_pred CCccccccccccc-----ccccCccCccc
Q psy3195 63 IDLRTRCANCNRE-----AFAECSMCRQT 86 (119)
Q Consensus 63 ~~~~~~C~~C~k~-----~l~~Cs~C~~~ 86 (119)
.+..-+|..|+.. ..+.|+.|...
T Consensus 67 vp~~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 67 KPAQAWCWDCSQVVEIHQHDAQCPHCHGE 95 (113)
T ss_pred eCcEEEcccCCCEEecCCcCccCcCCCCC
Confidence 3455689999873 35669999853
No 38
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.39 E-value=63 Score=22.35 Aligned_cols=24 Identities=17% Similarity=0.689 Sum_probs=15.6
Q ss_pred CCccccccccccc------ccccCccCccc
Q psy3195 63 IDLRTRCANCNRE------AFAECSMCRQT 86 (119)
Q Consensus 63 ~~~~~~C~~C~k~------~l~~Cs~C~~~ 86 (119)
.+...+|..|+.. ...+|++|...
T Consensus 68 vp~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~ 97 (117)
T PRK00564 68 EKVELECKDCSHVFKPNALDYGVCEKCHSK 97 (117)
T ss_pred cCCEEEhhhCCCccccCCccCCcCcCCCCC
Confidence 3445579999863 23359888753
No 39
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.86 E-value=30 Score=20.23 Aligned_cols=29 Identities=31% Similarity=0.737 Sum_probs=19.3
Q ss_pred cccccccccc--cccCccCc-ccccCCHHHHH
Q psy3195 67 TRCANCNREA--FAECSMCR-QTPYCSTFCQR 95 (119)
Q Consensus 67 ~~C~~C~k~~--l~~Cs~C~-~~~YCs~~CQ~ 95 (119)
..|..|+++- .+.-.+|. .+.|||..|..
T Consensus 9 K~C~~C~rpf~WRKKW~~~Wd~VkYCS~rCR~ 40 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWARCWDEVKYCSDRCRR 40 (42)
T ss_pred CcCcccCCcchHHHHHHHhchhhccHHHHhcc
Confidence 4688888751 23333454 58899999964
No 40
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=20.85 E-value=50 Score=22.61 Aligned_cols=23 Identities=26% Similarity=0.631 Sum_probs=16.6
Q ss_pred ccccccccccc-------ccccCccCcccc
Q psy3195 65 LRTRCANCNRE-------AFAECSMCRQTP 87 (119)
Q Consensus 65 ~~~~C~~C~k~-------~l~~Cs~C~~~~ 87 (119)
...+|..||=+ ...+|..|+.-|
T Consensus 57 ~Pa~CkkCGfef~~~~ik~pSRCP~CKSE~ 86 (97)
T COG3357 57 RPARCKKCGFEFRDDKIKKPSRCPKCKSEW 86 (97)
T ss_pred cChhhcccCccccccccCCcccCCcchhhc
Confidence 34578888742 478999999764
No 41
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=20.74 E-value=46 Score=22.80 Aligned_cols=23 Identities=30% Similarity=0.716 Sum_probs=14.2
Q ss_pred Cccccccccccc-----ccccCccCccc
Q psy3195 64 DLRTRCANCNRE-----AFAECSMCRQT 86 (119)
Q Consensus 64 ~~~~~C~~C~k~-----~l~~Cs~C~~~ 86 (119)
+...+|..|+.. ....|+.|...
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDEFDFSCPRCGSP 95 (113)
T ss_dssp --EEEETTTS-EEECHHCCHH-SSSSSS
T ss_pred CCcEECCCCCCEEecCCCCCCCcCCcCC
Confidence 344589999974 35789999864
No 42
>KOG0402|consensus
Probab=20.20 E-value=41 Score=22.68 Aligned_cols=22 Identities=18% Similarity=0.758 Sum_probs=16.3
Q ss_pred ccccccccccc-------ccccCccCccc
Q psy3195 65 LRTRCANCNRE-------AFAECSMCRQT 86 (119)
Q Consensus 65 ~~~~C~~C~k~-------~l~~Cs~C~~~ 86 (119)
....|.+|++. ....|..|+.+
T Consensus 35 aky~CsfCGK~~vKR~AvGiW~C~~C~kv 63 (92)
T KOG0402|consen 35 AKYTCSFCGKKTVKRKAVGIWKCGSCKKV 63 (92)
T ss_pred hhhhhhhcchhhhhhhceeEEecCCccce
Confidence 44579999984 46778888754
Done!