RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16970
(257 letters)
>gnl|CDD|128929 smart00686, DM13, Domain present in fly proteins (CG14681, CG12492,
CG6217), worm H06A10.1 and Arabidopsis thaliana MBG8.9.
Length = 108
Score = 155 bits (394), Expect = 1e-48
Identities = 59/107 (55%), Positives = 72/107 (67%), Gaps = 1/107 (0%)
Query: 139 GVHGVSSDPIVIVDAQTLLVPNFSYDGEAPDAKFWVGTGPHPSPQ-GIRVPDENGKEEPL 197
HGVSSDP+ IVDA+TL +PNFSYDG PDA FWVG G P + G +VPDE G PL
Sbjct: 2 LQHGVSSDPVEIVDAKTLRIPNFSYDGSGPDAYFWVGAGSRPDNEGGKKVPDEYGYCNPL 61
Query: 198 RRYNRKTIVLTLPGELTVFEIGHFGVWCEAFTVDFGHIQIPANVNMP 244
RRY+ + IVL LP LT+ +I F VWC +FGH+ P N+N+P
Sbjct: 62 RRYHNEDIVLRLPESLTIDDIKWFSVWCLKTAHNFGHVLFPENLNIP 108
Score = 28.5 bits (64), Expect = 1.3
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 109 FSDEPRVNFGDVRIPKGFDFP 129
+ + NFG V P+ + P
Sbjct: 88 WCLKTAHNFGHVLFPENLNIP 108
>gnl|CDD|220794 pfam10517, DM13, Electron transfer DM13. The DM13 domain is a
component of a novel electron-transfer system
potentially involved in oxidative modification of animal
cell-surface proteins. It contains a nearly absolutely
conserved cysteine, which could be involved in a redox
reaction, either as a naked thiol group or through
binding a prosthetic group like heme.
Length = 107
Score = 102 bits (257), Expect = 6e-28
Identities = 35/109 (32%), Positives = 54/109 (49%), Gaps = 5/109 (4%)
Query: 132 QKIGQLAGVHGVSSDPIVIVDAQTLLVPNFSYDGE-APDAKFWVGTGPHPSPQG-IRVPD 189
+ G L+G H S + IVD +TLLV F + PD K ++G G P+ +G R D
Sbjct: 2 EFSGDLSGSHWTSGT-VTIVDGKTLLVLEFDFAPSGGPDYKVYLGPGFVPTEEGFKRPKD 60
Query: 190 ENGKEEPLRRYNRKTIVLTLPGELTVFEIGHFGVWCEAFTVDFGHIQIP 238
E + PL+ + + LP + + + VWCE F+V FG ++
Sbjct: 61 EYVELGPLKTFGD--QIYELPAGVDIDDYTSVSVWCEKFSVFFGSAKLR 107
>gnl|CDD|216533 pfam01498, HTH_Tnp_Tc3_2, Transposase. Transposase proteins are
necessary for efficient DNA transposition. This family
includes the amino-terminal region of Tc1, Tc1A, Tc1B
and Tc2B transposases of C.elegans. The region
encompasses the specific DNA binding and second DNA
recognition domains as well as an amino-terminal region
of the catalytic domain of Tc3 as described in. Tc3 is
a member of the Tc1/mariner family of transposable
elements.
Length = 72
Score = 34.9 bits (81), Expect = 0.003
Identities = 22/64 (34%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 11 DRFIVSQVLRNCFATALEVRQELQDVRKVHLNEGTVRIRLNENNLTAKRLHRAPELSIRN 70
DR I+ V N T ++ ELQ++ K ++ T+R RL++ L A++ + P LS +N
Sbjct: 1 DRRILRLVRENPRITLRDLANELQEIGKS-VSRSTIRRRLHKAGLKARKPRKKPLLSAKN 59
Query: 71 QRAR 74
++AR
Sbjct: 60 KKAR 63
>gnl|CDD|219979 pfam08704, GCD14, tRNA methyltransferase complex GCD14 subunit.
GCD14 is a subunit of the tRNA methyltransferase complex
and is required for 1-methyladenosine modification and
maturation of initiator methionyl-tRNA.
Length = 309
Score = 31.7 bits (72), Expect = 0.35
Identities = 19/84 (22%), Positives = 28/84 (33%), Gaps = 12/84 (14%)
Query: 15 VSQVLRNCFATA---------LEVRQELQDVRKV---HLNEGTVRIRLNENNLTAKRLHR 62
+ QV R C A A +EV DVR V ++ G + NE R
Sbjct: 211 IEQVQRTCLALAALGFTEIETIEVLPRQYDVRTVSLPVIDLGRDTLEENERRRIEGPKER 270
Query: 63 APELSIRNQRARSRKVENVVLKPV 86
+++ LKP+
Sbjct: 271 KANNDAKSEDQSGNASTETALKPM 294
>gnl|CDD|177059 CHL00137, rps13, ribosomal protein S13; Validated.
Length = 122
Score = 28.1 bits (63), Expect = 2.5
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 49 RLNENNLTAKRLHRAPELSIRNQR----ARSRK 77
RL E N R HR L +R QR AR+R+
Sbjct: 80 RLMEINCYRGRRHRL-GLPVRGQRTRTNARTRR 111
>gnl|CDD|107371 cd06376, PBP1_mGluR_groupIII, Ligand-binding domain of the group
III metabotropic glutamate receptor. Ligand-binding
domain of the group III metabotropic glutamate receptor,
a family which contains mGlu4R, mGluR6R, mGluR7, and
mGluR8; all of which inhibit adenylyl cyclase. The
metabotropic glutamate receptor is a member of the
family C of G-protein-coupled receptors that transduce
extracellular signals into G-protein activation and
ultimately into intracellular responses. The mGluRs are
classified into three groups which comprise eight
subtypes.
Length = 463
Score = 28.7 bits (64), Expect = 3.3
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 8/56 (14%)
Query: 119 DVRIPKGFD--FPRPQKIGQLAGVHGVSSDPIVIVDAQTL---LVPNFSYDGEAPD 169
DVR G F +P+K+ GV G S+ + I+ A L +P SY AP+
Sbjct: 87 DVRCTNGEPPVFVKPEKV---VGVIGASASSVSIMVANILRLFQIPQISYASTAPE 139
>gnl|CDD|182322 PRK10234, PRK10234, DNA-binding transcriptional activator GutM;
Provisional.
Length = 118
Score = 26.9 bits (60), Expect = 5.1
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 109 FSDEPRVNFGDVRIPKGFD-FPRPQKIGQLAGVHGVSSDPIVI 150
++ RV D KG F RPQKI L G+H P VI
Sbjct: 59 LDEQQRVV--DTLFMKGLTVFARPQKIPALTGLHLGDLQPDVI 99
>gnl|CDD|191305 pfam05562, WCOR413, Cold acclimation protein WCOR413. This family
consists of several WCOR413-like plant cold acclimation
proteins.
Length = 186
Score = 27.7 bits (62), Expect = 5.2
Identities = 21/75 (28%), Positives = 28/75 (37%), Gaps = 15/75 (20%)
Query: 197 LRRYNRKT----------IVLTLPGELTVFEIGHFGVWCEAFTVD----FGHIQIPANVN 242
L R N KT I L+LP + + G G W AF F P +
Sbjct: 60 LDRTNWKTNILTSLLVPYIFLSLPSVIFSWIRGEVGKWI-AFIAVIVRLFFPRHFPGELE 118
Query: 243 MPPSLKMLGVSPQYL 257
+P +L +L V L
Sbjct: 119 LPGALILLVVVAPSL 133
>gnl|CDD|206103 pfam13932, GIDA_assoc_3, GidA associated domain 3. The GidA
associated domain 3 is a motif that has been identified
at the C-terminus of protein GidA. It consists of 4
helices, the last three being rather short and forming
small bundle at the top end of the first longer one. It
is here named helical domain 3 because in GidA it is
preceded by two other C-terminal helical domain (based
on crystal structures). GidA is an tRNA modification
enzyme found in bacteria and mitochondrial. Based on
mutational analysis this domain has been suggested to be
implicated in binding of the D-stem of tRNA and to be
responsible for the interaction with protein MnmE.
Structures of GidA in complex with either tRNA or MnmE
are missing. Reported to bind to Pfam family MnmE,
pfam12631.
Length = 72
Score = 25.5 bits (57), Expect = 7.5
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 16/42 (38%)
Query: 119 DVRIPKGFDFP----------------RPQKIGQLAGVHGVS 144
+ RIP+ D+ RP+ IGQ + + GV+
Sbjct: 22 NKRIPEDIDYARISGLSNEAREKLAKIRPETIGQASRISGVT 63
>gnl|CDD|215486 PLN02898, PLN02898, HMP-P kinase/thiamin-monophosphate
pyrophosphorylase.
Length = 502
Score = 27.4 bits (61), Expect = 8.5
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 7/61 (11%)
Query: 138 AGVHGVSSDPIVIVDAQTLLVPNFSYDGEAPDAKFWVGTGPHPSPQGIRVPDENGKEEPL 197
GV GV + P+ V Q V D V TG PS + ++V + KE P+
Sbjct: 53 VGVQGVHAVPLDFVAEQLKSV----LSDMPVDV---VKTGMLPSAEIVKVLCQALKEFPV 105
Query: 198 R 198
+
Sbjct: 106 K 106
>gnl|CDD|221761 pfam12767, SAGA-Tad1, Transcriptional regulator of RNA polII, SAGA,
subunit. The yeast SAGA complex is a multifunctional
coactivator that regulates transcription by RNA
polymerase II. It is formed of five major modular
subunits and shows a high degree of structural
conservation to human TFTC and STAGA. The complex can
also be conceived of as consisting of two
histone-fold-containing core subunits, and this family
is one of these. As a family it is likely to carry
binding regions for interactions with a number of the
other components of the complex.
Length = 210
Score = 27.1 bits (60), Expect = 9.2
Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 2/46 (4%)
Query: 165 GEAPDAKFWVGTGPHPSPQGIRVPDENGKEEPLRRYNRKTIVLTLP 210
W T PS G +P ++R R+ ++ L
Sbjct: 82 SSQAKTGNWGTTSGSPSDNGGALPVSGRASRSVKRLKRE--LMGLS 125
>gnl|CDD|240094 cd04743, NPD_PKS, 2-Nitropropane dioxygenase (NPD)-like domain,
associated with polyketide synthases (PKS). NPD is part
of the nitroalkaneoxidizing enzyme family, that
catalyzes oxidative denitrification of nitroalkanes to
their corresponding carbonyl compounds and nitrites.
NDPs are members of the NAD(P)H-dependent flavin
oxidoreductase family that reduce a range of alternative
electron acceptors. Most use FAD/FMN as a cofactor and
NAD(P)H as electron donor. Some contain 4Fe-4S cluster
to transfer electron from FAD to FMN.
Length = 320
Score = 27.1 bits (60), Expect = 9.3
Identities = 17/78 (21%), Positives = 29/78 (37%), Gaps = 5/78 (6%)
Query: 1 MRIASGASMNDRFIVSQVLRNCFATALEVRQELQDVRKV-----HLNEGTVRIRLNENNL 55
+ +G R +VS + AT + +E ++ LN G +R+ +
Sbjct: 232 ALLETGPGHATRCVVSPFVDEFRATRRRMAREGVSGEEIKERLEALNVGRLRLASKGVSR 291
Query: 56 TAKRLHRAPELSIRNQRA 73
RA E+S QR
Sbjct: 292 NPDGSRRAVEVSEEEQRK 309
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
0.321 0.139 0.423
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,512,049
Number of extensions: 1313482
Number of successful extensions: 991
Number of sequences better than 10.0: 1
Number of HSP's gapped: 987
Number of HSP's successfully gapped: 22
Length of query: 257
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 162
Effective length of database: 6,723,972
Effective search space: 1089283464
Effective search space used: 1089283464
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 (21.9 bits)
S2: 58 (26.2 bits)