RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12546
(765 letters)
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. 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
(pfam00096) proteins and in proteins that contain the
pfam01344 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.
Length = 101
Score = 79.2 bits (196), Expect = 8e-18
Identities = 31/85 (36%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 49 NLYLNDEFSDTVLIVQNEKISVHKVILAARSEYFRALLYGGLCESNQNEIELHDTNIVAF 108
L N E D L+V +++ HK +LAA S YF+AL G EI L D + F
Sbjct: 3 ELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFTGNKEV----EITLEDVSPEDF 58
Query: 109 KCLLKYIYSGKLSFRNLKDDVILDI 133
+ LL++IY+GKL D +L +
Sbjct: 59 EALLEFIYTGKLEITEENVDDLLAL 83
Score = 44.5 bits (106), Expect = 9e-06
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 7/72 (9%)
Query: 148 FRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIYSGKLSFRNLKDDVILDILGLSHKYG 207
F+AL G EI L D + F+ LL++IY+GKL ++ + D+L L+ K
Sbjct: 36 FKALFTGNKEV----EITLEDVSPEDFEALLEFIYTGKLEI---TEENVDDLLALADKLQ 88
Query: 208 FQDLENSISDYL 219
L + ++L
Sbjct: 89 IPALIDKCEEFL 100
>gnl|CDD|149006 pfam07707, BACK, BTB And C-terminal Kelch. This domain is found
associated with pfam00651 and pfam01344. The BACK domain
is found juxtaposed to the BTB domain; they are
separated by as little as two residues. This family
appears to be closely related to the BTB domain (Finn
RD, personal observation).
Length = 101
Score = 77.2 bits (191), Expect = 3e-17
Identities = 31/109 (28%), Positives = 54/109 (49%), Gaps = 11/109 (10%)
Query: 228 ACSIFDCAYYYDLKQLNKIVLSFIDYNAKQIISENSFYNLSQNGLIQLIQRDSFYAP-EI 286
I+ A Y ++L ++ L FI N ++ F LS+ L++L+ D P E
Sbjct: 1 CLGIYRFADTYGCEELAEVALRFILKNFLEVSKSEEFLELSKEQLLELLSSDELNVPSEE 60
Query: 287 DIFRAVVDWIKANSPEVEEDGESSFRAPINMDEILTYVRLPLISLDELL 335
++F AV+ W+K + ++ + E+L+ VRLPL+S + LL
Sbjct: 61 EVFEAVIKWVKHDVENRKKH----------LPELLSAVRLPLLSPEYLL 99
>gnl|CDD|197585 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.
Length = 97
Score = 74.3 bits (183), Expect = 3e-16
Identities = 29/77 (37%), Positives = 47/77 (61%), Gaps = 3/77 (3%)
Query: 58 DTVLIVQNEKISVHKVILAARSEYFRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIYS 117
D L+V +K HK +LAA S YF+AL ES+++EI L D + F+ LL ++Y+
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYT 60
Query: 118 GKLSFRNLKDDVILDIL 134
GKL +L ++ + ++L
Sbjct: 61 GKL---DLPEENVEELL 74
Score = 47.7 bits (114), Expect = 7e-07
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 9/97 (9%)
Query: 128 DVILDILGKK--QNKGTTLTQN---FRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIY 182
DV L + GKK +K L + F+AL ES+++EI L D + F+ LL ++Y
Sbjct: 1 DVTLVVGGKKFHAHK-AVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLY 59
Query: 183 SGKLSFRNLKDDVILDILGLSHKYGFQDLENSISDYL 219
+GKL +L ++ + ++L L+ L ++L
Sbjct: 60 TGKL---DLPEENVEELLELADYLQIPGLVELCEEFL 93
>gnl|CDD|197943 smart00875, BACK, BTB And C-terminal Kelch. The BACK domain is
found juxtaposed to the BTB domain; they are separated
by as little as two residues.
Length = 101
Score = 70.1 bits (172), Expect = 1e-14
Identities = 32/111 (28%), Positives = 52/111 (46%), Gaps = 11/111 (9%)
Query: 228 ACSIFDCAYYYDLKQLNKIVLSFIDYNAKQIISENSFYNLSQNGLIQLIQRDSFYAP-EI 286
I A + L++L + L FI N ++ S F L L++L+ D E
Sbjct: 1 CLGIRRFADAHGLEELAEKALRFILQNFSEVSSSEEFLELPLEQLLELLSSDDLNVSSEE 60
Query: 287 DIFRAVVDWIKANSPEVEEDGESSFRAPINMDEILTYVRLPLISLDELLTT 337
++F AV+ W+K + + E ++ E+L +VRLPL+S D LL
Sbjct: 61 EVFEAVLRWVKHDPEKRRE----------HLPELLEHVRLPLLSPDYLLEV 101
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 49.8 bits (119), Expect = 4e-06
Identities = 38/160 (23%), Positives = 82/160 (51%), Gaps = 8/160 (5%)
Query: 142 TTLTQNFRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIYSGKLSFRNLKDDVILDILG 201
++ ++ F+ + E NEI L+ + +F ++KYIY+GK++ + ++V DIL
Sbjct: 31 SSSSEYFKKMFKNNFKE---NEINLNI-DYDSFNEVIKYIYTGKINITS--NNVK-DILS 83
Query: 202 LSHKYGFQDLENSISDYLRVILTVHNACSIFDCAYYYDLKQLNKIVLSFIDYNAKQIISE 261
+++ L N +Y+ I+ +N I+ +++Y K+L ++I N + I ++
Sbjct: 84 IANYLIIDFLINLCINYIIKIIDDNNCIDIYRFSFFYGCKKLYSAAYNYIRNNIELIYND 143
Query: 262 NSFYNLSQNGLIQLIQRDSFY-APEIDIFRAVVDWIKANS 300
F LS+N LI+++ D + E + ++ W+ +
Sbjct: 144 PDFIYLSKNELIKILSDDKLNVSSEDVVLEIIIKWLTSKK 183
Score = 43.6 bits (103), Expect = 4e-04
Identities = 24/68 (35%), Positives = 42/68 (61%), Gaps = 5/68 (7%)
Query: 58 DTVLIVQN-EKISVHKVILAARSEYFRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIY 116
++++IV I VHK+IL++ SEYF+ + E NEI L+ + +F ++KYIY
Sbjct: 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKE---NEINLNI-DYDSFNEVIKYIY 67
Query: 117 SGKLSFRN 124
+GK++ +
Sbjct: 68 TGKINITS 75
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 37.7 bits (87), Expect = 0.026
Identities = 28/94 (29%), Positives = 50/94 (53%), Gaps = 2/94 (2%)
Query: 36 EIEHVQFLSEMIGNLYLNDEFSDTVLIVQN-EKISVHKVILAARSEYFRALLYGGLCESN 94
+I+H + + I NL +D D ++ + + E+I HK ILAA S+YFR L + +
Sbjct: 5 DIKHNRRVVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRD 64
Query: 95 Q-NEIELHDTNIVAFKCLLKYIYSGKLSFRNLKD 127
+ L + A K +++Y+Y+ +S N+ D
Sbjct: 65 LVTRVNLQMFDKDAVKNIVQYLYNRHISSMNVID 98
>gnl|CDD|216100 pfam00754, F5_F8_type_C, F5/8 type C domain. This domain is also
known as the discoidin (DS) domain family.
Length = 128
Score = 33.6 bits (77), Expect = 0.10
Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 7/77 (9%)
Query: 490 ILIKLGTQAIVNHIKLLLWDKDLRSY---SYFIEVSIDQKKWTRVID--YTRFYCRSWQF 544
+ + LG + + +D + SY IE S D + WT V D Y
Sbjct: 39 LQVDLGKPKKITGVVTQ-GRQDGGNGYVKSYKIEYSNDGENWTEVKDGFYGNTDNSGPVK 97
Query: 545 LYF-PTQVVQYIRVVGT 560
F P +Y+R+V T
Sbjct: 98 NLFDPPIKARYVRIVPT 114
>gnl|CDD|163175 TIGR03178, allantoinase, allantoinase. This enzyme carries out the
first step in the degradation of allantoin, a
ring-opening hydrolysis. The seed members of this model
are all in the vicinity of other genes involved in the
processes of xanthine/urate/allantoin catabolism.
Although not included in the seed, many eukaryotic
homologs of this family are included above the trusted
cutoff. Below the noise cutoff are related
hydantoinases.
Length = 443
Score = 34.7 bits (80), Expect = 0.18
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 152 LYGGLCESNQNEI-ELHDTNIVAFKCLLKYIYSGKLSFRNLKDDVILDILGLSHKYG 207
+GGL N +++ EL + +V FK L SG F ++ D + + + G
Sbjct: 120 FWGGLVPYNLDDLRELDEAGVVGFKAFL--SPSGDDEFPHVDDWQLYKGMRELARLG 174
Score = 34.7 bits (80), Expect = 0.20
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 86 LYGGLCESNQNEI-ELHDTNIVAFKCLLKYIYSGKLSFRNLKDDVIL 131
+GGL N +++ EL + +V FK L SG F ++ D +
Sbjct: 120 FWGGLVPYNLDDLRELDEAGVVGFKAFL--SPSGDDEFPHVDDWQLY 164
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase
chain; Provisional.
Length = 1033
Score = 33.2 bits (76), Expect = 0.68
Identities = 32/124 (25%), Positives = 64/124 (51%), Gaps = 17/124 (13%)
Query: 510 KDLRSYSYFIEVSIDQKKWTRVIDYTRFYCRSWQFLYFPTQVVQYIRVVGTNNTVNK--V 567
K+++ + + E +I++K VI+ R+++ L V+Q R+ TVNK +
Sbjct: 588 KEVQVFRFCTEYTIEEK----VIE------RAYKKLALDALVIQQGRL-AEQKTVNKDEL 636
Query: 568 FHIVSF--EIMYTAQTVQLSEEGI--IIPKHNVATRELSAKVVEGVSRSLSSLIDGNTVK 623
+V + E++++++ +++E I II K AT EL AK+ + ++ +D
Sbjct: 637 LQMVRYGAEMVFSSKDSTITDEDIDRIIAKGEEATAELDAKMKKFTEDAIKFKMDDTAEL 696
Query: 624 YDWD 627
YD+D
Sbjct: 697 YDFD 700
>gnl|CDD|163411 TIGR03699, mena_SCO4550, menaquinone biosynthesis protein, SCO4550
family. members of this protein family are involved in
menaquinone biosynthesis by an alternate pathway via
futalosine [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 340
Score = 32.6 bits (75), Expect = 0.82
Identities = 21/113 (18%), Positives = 43/113 (38%), Gaps = 27/113 (23%)
Query: 235 AYYYDLKQLNKIVLSFIDYNAKQIISENSFYNLSQNGLIQLIQRDSFYAPEIDI--FRAV 292
Y ++++ + + + Y QI L Q G+ P++ + + +
Sbjct: 69 GYVLSVEEILQKIEELVAYGGTQI--------LLQGGV----------NPDLGLDYYEDL 110
Query: 293 VDWIKANSPEVEEDGESSFRAPINMDEILTYVRLPLISLDELLTTVRSSGIIS 345
IKA P + S EI+ + +SL E+L ++ +G+ S
Sbjct: 111 FRAIKARFPHIHIHSFS-------PVEIVYIAKKEGLSLREVLERLKEAGLDS 156
>gnl|CDD|202490 pfam02971, FTCD, Formiminotransferase domain.
Length = 145
Score = 30.7 bits (69), Expect = 1.5
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 646 QPYMLDSMRLLLWDCDDRSYSYLVDVSINLWDWEIVADHT--RDLCRSWQSISFSRRPVV 703
QP L ++ + W ++++ L VS NL D+E+ HT ++CR + + PVV
Sbjct: 32 QPGRLKKVQGIGWYLEEKN---LAQVSTNLLDFEVTPLHTVYEEICREAEELGL---PVV 85
Query: 704 FVRIIG 709
+++G
Sbjct: 86 GSQLVG 91
>gnl|CDD|178273 PLN02668, PLN02668, indole-3-acetate carboxyl methyltransferase.
Length = 386
Score = 31.0 bits (70), Expect = 2.2
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 4/38 (10%)
Query: 261 ENSFYNLSQNGLIQLIQRDSF----YAPEIDIFRAVVD 294
++++ +L Q GL+ +RDSF YAP + F+ VV+
Sbjct: 260 QDAWDDLVQEGLVTSEKRDSFNIPVYAPSLQDFKEVVE 297
>gnl|CDD|214718 smart00552, ADEAMc, tRNA-specific and double-stranded RNA adenosine
deaminase (RNA-specific editase).
Length = 374
Score = 30.0 bits (68), Expect = 4.8
Identities = 24/110 (21%), Positives = 38/110 (34%), Gaps = 14/110 (12%)
Query: 87 YGGLCESNQNEIELHDTN--IVAFKCLLKYIYSGKLSFRNLKDDVILDILGKKQNKGTTL 144
G S + L+D + I+A + L+++YS F + +D I K+ L
Sbjct: 56 ISGEKLSPNGLV-LNDCHAEILARRGFLRFLYSELQLFNSSSEDSIF--EKNKEGGKYKL 112
Query: 145 TQNFRALLY------GGLCESNQNEIELHDTNIVAFKCLLKYIYSGKLSF 188
N LY G + E N + + K I KL
Sbjct: 113 KSNVLFHLYISTLPCGDASIFSPLEP---LKNDDSKHPVRKNIKRSKLRT 159
>gnl|CDD|238640 cd01315, L-HYD_ALN, L-Hydantoinases (L-HYDs) and Allantoinase
(ALN); L-Hydantoinases are a member of the
dihydropyrimidinase family, which catalyzes the
reversible hydrolytic ring opening of dihydropyrimidines
and hydantoins (five-membered cyclic diamides used in
biotechnology). But L-HYDs differ by having an L-enantio
specificity and by lacking activity on possible natural
substrates such as dihydropyrimidines. Allantoinase
catalyzes the hydrolytic cleavage of the five-member
ring of allantoin (5-ureidohydantoin) to form allantoic
acid.
Length = 447
Score = 29.6 bits (67), Expect = 6.4
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 86 LYGGLCESNQNEI-ELHDTNIVAFKCLLKYIYSGKLSFRNLKDDVILDILGKKQNKGTTL 144
+GGL N +++ L + +V FKC L SG F + D+ + + + + G+ L
Sbjct: 121 FWGGLVPGNLDQLRPLDEAGVVGFKCFL--CPSGVDEFPAVDDEQLEEAMKELAKTGSVL 178
Score = 29.2 bits (66), Expect = 8.5
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 16/80 (20%)
Query: 142 TTLTQNFRALL-------------YGGLCESNQNEI-ELHDTNIVAFKCLLKYIYSGKLS 187
TT +N A L +GGL N +++ L + +V FKC L SG
Sbjct: 98 TTTVENLEAKLEAAQGKLHVDVGFWGGLVPGNLDQLRPLDEAGVVGFKCFL--CPSGVDE 155
Query: 188 FRNLKDDVILDILGLSHKYG 207
F + D+ + + + K G
Sbjct: 156 FPAVDDEQLEEAMKELAKTG 175
>gnl|CDD|238512 cd01061, RNase_T2_euk, Ribonuclease T2 (RNase T2) is a widespread
family of secreted RNases found in every organism
examined thus far. This family includes RNase Rh, RNase
MC1, RNase LE, and self-incompatibility RNases
(S-RNases). Plant T2 RNases are expressed during leaf
senescence in order to scavenge phosphate from
ribonucleotides. They are also expressed in response to
wounding or pathogen invasion. S-RNases are thought to
prevent self-fertilization by acting as selective
cytotoxins of "self" pollen. Generally, RNases have two
distinct binding sites: the primary site (B1 site) and
the subsite (B2 site), for nucleotides located at the
5'- and 3'- terminal ends of the sessil bond,
respectively. This CD includes the eukaryotic RNase T2
family members.
Length = 195
Score = 28.8 bits (65), Expect = 7.2
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 20/95 (21%)
Query: 176 CLLKYIYSGKLSFR---NLKDDV-ILDILGLSH-------KYGFQDLENSISDYLRVILT 224
C +Y+ F LKD + +L IL Y D++N+I V T
Sbjct: 93 CSSTLLYNQYDYFDTALKLKDKLDLLKILA-KAGIVPSTQTYTLSDIQNAIKAATGV--T 149
Query: 225 VHNACSIFDCAYYYDLKQLNKIVLSFIDYNAKQII 259
C+ +LN+I + F D + I
Sbjct: 150 PV-----IKCSKDPGKGELNEIWICF-DKKGGEFI 178
>gnl|CDD|235832 PRK06567, PRK06567, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase; Validated.
Length = 1028
Score = 29.9 bits (67), Expect = 7.4
Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 7/87 (8%)
Query: 43 LSEMIGNLYLNDEFSDTVLIVQNEKIS-VHKVILAARSEYFRALLYGGLCESNQNEI--- 98
L+++IG + + EF+ ++I Q + S ++ +AAR +R L + Q++I
Sbjct: 125 LTDLIGTNFTSREFAKQIIIWQQAEESFAEELDIAARYAAYRVYLCESIKSHPQDDILFN 184
Query: 99 ---ELHDTNIVAFKCLLKYIYSGKLSF 122
+L N++ K +LKY + ++ F
Sbjct: 185 LPQKLDKENLIDDKKILKYQKNERVDF 211
>gnl|CDD|200298 TIGR03603, cyclo_dehy_ocin, thiazole/oxazole-forming peptide
maturase, SagC family component. Members of this
protein family include enzymes related to SagC, a
protein involved in thiazole/oxazole cyclodehydration
modifications during biosynthesis of streptolysin S in
Streptococcus pyogenes from the protoxin polypeptide
(product of the sagA gene). Recent evidence suggests
that the YcaO/SagD-like component, not this component,
performs an ATP-dependent cyclodehydration. This protein
family serves as a marker for widely distributed
prokaryotic systems for making a general class of
heterocycle-containing bacteriocins. Note that this
model does not find all possible examples of bacteriocin
biosynthesis cyclodehydratases, an in particular misses
the E. coli plasmid protein McbB of microcin B17
biosynthesis [Cellular processes, Pathogenesis].
Length = 319
Score = 29.1 bits (65), Expect = 9.9
Identities = 25/130 (19%), Positives = 46/130 (35%), Gaps = 2/130 (1%)
Query: 124 NLKDDVILDILGKKQNKGTTLTQNFRALLYGGLCESNQNEIELHDTNIVAFKCLLKYIYS 183
N +I++ K K L + L SN + L D + + +YS
Sbjct: 60 NSGPMLIVEDYQKHLKKSKVLLGKLGLNVCQALSNSNAQNLFLSD-DTYLRETAESDLYS 118
Query: 184 GKLSFRNLKDDVILDILGLSHKYGFQDLENSISDYLRVIL-TVHNACSIFDCAYYYDLKQ 242
+ ++ L K D ++++ DY +I+ H S+ L+
Sbjct: 119 KDDIQLKRDRLLTSNLDILESKSLVDDKKDTLKDYEMIIVCAEHGNISLLRELNRLSLEF 178
Query: 243 LNKIVLSFID 252
V++FID
Sbjct: 179 KKPFVIAFID 188
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.135 0.394
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 38,308,278
Number of extensions: 3797836
Number of successful extensions: 2871
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2859
Number of HSP's successfully gapped: 30
Length of query: 765
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 661
Effective length of database: 6,324,786
Effective search space: 4180683546
Effective search space used: 4180683546
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (28.1 bits)