RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7321
(408 letters)
>gnl|CDD|216479 pfam01399, PCI, PCI domain. This domain has also been called the
PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15).
Length = 100
Score = 76.9 bits (190), Expect = 2e-17
Identities = 32/100 (32%), Positives = 50/100 (50%), Gaps = 4/100 (4%)
Query: 268 KMYLDRIIRKSELQDFAALLKPHQ----KAITVDGSSILERAVTEHNLLSASKLYNNISF 323
L R +L DF +L ++ + L R + E NL +K Y++IS
Sbjct: 1 YRDLLRAFYSGDLSDFEEILADNEDELLDDGLAELLEDLRRKIRELNLRRLAKPYSSISL 60
Query: 324 PELGALLQISAAKAEKIASHMICEGRMNGYVDQIDSIVHF 363
+L LL +S + EKI S +I +GR+ G +DQ++ IV F
Sbjct: 61 SDLAKLLGLSVDEVEKILSKLIRDGRIRGKIDQVNGIVVF 100
>gnl|CDD|227403 COG5071, RPN5, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 439
Score = 67.3 bits (164), Expect = 4e-12
Identities = 67/318 (21%), Positives = 139/318 (43%), Gaps = 23/318 (7%)
Query: 90 TLDKVQPRVISFEEQVASIRQHLALIYEREENWRDAANVLVGIPLET-GQKQYSVDYKLQ 148
TL V I E + A + Q L+ I E + + + A ++L P+ET G S K+
Sbjct: 115 TLRTVTEGKIFVEVERARLTQLLSQIKEEQGDIKSAQDILCNEPVETYGSFDLSE--KVA 172
Query: 149 TYMKIARLYLEDEDPVQAEAFINRASLLQAETKD-ETLQVHYKVCYARVLDYRRKFIEAA 207
++ RL+L D A + + + E +D ++L++ Y R+ + R +++
Sbjct: 173 FILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHDRAYLDVC 232
Query: 208 QRYSELSYKPII--DEAERITALKSALICTILASAGQQRSRMLATLFKDERCQHLPAYSI 265
+ Y + ++ D A+ L + + +L +++ +L + D + LP
Sbjct: 233 KYYRAVYDTAVVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQ 292
Query: 266 LEKMYL-DRIIRKSELQD-FAALLKPHQKAITVDGSSI----LERAVTEHNLLSASKLYN 319
L K ++ + ++R ++ + + + L+ + A + L + V EHN+ + Y+
Sbjct: 293 LVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYS 352
Query: 320 NISFPELGALLQISAAKAEKIASHMICEGRMNGYVDQIDSIVHFETR----EILPSWDKQ 375
I LG LL +S ++ E+ S ++ +G +++ I+ FE E L W
Sbjct: 353 RIHCSRLGVLLDMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSN 412
Query: 376 IESLCYRIDHIMEQIETV 393
+ L + ++E V
Sbjct: 413 VTEL-------LGKLEKV 423
>gnl|CDD|214803 smart00753, PAM, PCI/PINT associated module.
Length = 88
Score = 57.6 bits (140), Expect = 9e-11
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 5/86 (5%)
Query: 299 SSILERAVTEHNLLSASKLYNNISFPELGALLQISAAKAEKIASHMICEGRMNGYVDQID 358
L+R + NLL S+ Y++IS +L LL +S + EK+ S I +G ++ +DQ++
Sbjct: 3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVN 62
Query: 359 SIVHFE-----TREILPSWDKQIESL 379
IV FE E L + + ++ L
Sbjct: 63 GIVEFEEVDPRRSEPLAQFAETLKKL 88
>gnl|CDD|214509 smart00088, PINT, motif in proteasome subunits, Int-6, Nip-1 and
TRIP-15. Also called the PCI (Proteasome, COP9,
Initiation factor 3) domain. Unknown function.
Length = 88
Score = 57.6 bits (140), Expect = 9e-11
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 5/86 (5%)
Query: 299 SSILERAVTEHNLLSASKLYNNISFPELGALLQISAAKAEKIASHMICEGRMNGYVDQID 358
L+R + NLL S+ Y++IS +L LL +S + EK+ S I +G ++ +DQ++
Sbjct: 3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVN 62
Query: 359 SIVHFE-----TREILPSWDKQIESL 379
IV FE E L + + ++ L
Sbjct: 63 GIVEFEEVDPRRSEPLAQFAETLKKL 88
>gnl|CDD|226977 COG4630, XdhA, Xanthine dehydrogenase, iron-sulfur cluster and
FAD-binding subunit A [Nucleotide transport and
metabolism].
Length = 493
Score = 39.0 bits (91), Expect = 0.004
Identities = 31/95 (32%), Positives = 39/95 (41%), Gaps = 8/95 (8%)
Query: 215 YKPIIDEAERITALKSALICTILASAGQQRSRMLATLFKDERCQHLPAYSILEKMYLDRI 274
Y+PII AE I AL A LA+ + L L E + DR
Sbjct: 155 YRPIIRAAEAIAALGPAAGFDPLAARRTAITARLRALRDTETVEVGSGD--------DRF 206
Query: 275 IRKSELQDFAALLKPHQKAITVDGSSILERAVTEH 309
I + L DFA LL H A V GS+ + VT+
Sbjct: 207 IVPATLADFADLLAAHPGATIVAGSTDVGLWVTKQ 241
>gnl|CDD|220016 pfam08786, DUF1795, Domain of unknown function (DUF1795). This
is a bacterial domain of unknown function. It forms an
antiparallel beta sheet structure and contains some
alpha helical regions.
Length = 130
Score = 31.4 bits (72), Expect = 0.32
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 9/63 (14%)
Query: 38 QDTTTCTECLNLFV-EAIVNENVSLVISRQILTD---VSTHLVSQPDEVAKPVSHFTLDK 93
QD T +N+ V +SLVISR L + T+L Q + K + FTL +
Sbjct: 11 QDRT-----VNVLVLPDPGPAGLSLVISRDPLEPGETLETYLERQLALLKKQLPGFTLLE 65
Query: 94 VQP 96
QP
Sbjct: 66 RQP 68
>gnl|CDD|216222 pfam00972, Flavi_NS5, Flavivirus RNA-directed RNA polymerase.
Flaviviruses produce a polyprotein from the ssRNA
genome. This protein is also known as NS5. This
RNA-directed RNA polymerase possesses a number of short
regions and motifs homologous to other RNA-directed RNA
polymerases.
Length = 649
Score = 32.5 bits (74), Expect = 0.50
Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 93 KVQPRVISFEEQVASIRQHLAL--IYEREENWRDAA 126
K +PR+ + EE +A +R + AL + + W A
Sbjct: 138 KKRPRLCTKEEFIAKVRSNAALGAWFTEQNQWSSAR 173
>gnl|CDD|234072 TIGR02963, xanthine_xdhA, xanthine dehydrogenase, small subunit.
Members of this protein family are the small subunit
(or, in eukaryotes, the N-terminal domain) of xanthine
dehydrogenase, an enzyme of purine catabolism via urate.
The small subunit contains both an FAD and a 2Fe-2S
cofactor. Aldehyde oxidase (retinal oxidase) appears to
have arisen as a neofunctionalization among xanthine
dehydrogenases in eukaryotes and [Purines, pyrimidines,
nucleosides, and nucleotides, Other].
Length = 467
Score = 31.1 bits (71), Expect = 1.2
Identities = 27/118 (22%), Positives = 46/118 (38%), Gaps = 18/118 (15%)
Query: 215 YKPIIDEAERITALKSALICTILASAGQQRSRMLATLFKDERCQHLPAYSILEKMYL-DR 273
Y+PI+D AE + R+ ++ L + L A +E + +R
Sbjct: 147 YRPILDAAEAAFDYPCS------DPLDADRAPIIERL------RALRAGETVELNFGGER 194
Query: 274 IIRKSELQDFAALLKPHQKAITVDGSSILERAVTEHNLLSASKLYNNISFPELGALLQ 331
I + L D AAL H A V GS+ + VT+ + ++ + A L+
Sbjct: 195 FIAPTTLDDLAALKAAHPDARIVAGSTDVGLWVTKQM-----RDLPDVIYVGQVAELK 247
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 30.8 bits (70), Expect = 1.5
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 10/76 (13%)
Query: 109 RQHLALIYEREENWRDAANVLVGIPLETGQKQYSVDYKL---QTYMKIARLYLEDEDPVQ 165
Q L IY+ W A + V L Q Y++ Q Y ++A+ L D +
Sbjct: 144 LQQLLNIYQATREWEKAID--VAERLVKLGGQ---TYRVEIAQFYCELAQQALASSDVDR 198
Query: 166 AEAFINRASLLQAETK 181
A + +A LQA+ K
Sbjct: 199 ARELLKKA--LQADKK 212
>gnl|CDD|173893 cd00395, Tyr_Trp_RS_core, catalytic core domain of tyrosinyl-tRNA
and tryptophanyl-tRNA synthetase. Tyrosinyl-tRNA
synthetase (TyrRS)/Tryptophanyl-tRNA synthetase (TrpRS)
catalytic core domain. These enzymes attach Tyr or Trp,
respectively, to the appropriate tRNA. These class I
enzymes are homodimers, which aminoacylate the 2'-OH of
the nucleotide at the 3' of the appropriate tRNA. The
core domain is based on the Rossman fold and is
responsible for the ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. It contains the class
I characteristic HIGH and KMSKS motifs, which are
involved in ATP binding.
Length = 273
Score = 30.3 bits (68), Expect = 1.5
Identities = 24/105 (22%), Positives = 32/105 (30%), Gaps = 7/105 (6%)
Query: 152 KIARLYL---EDEDPVQAEAFINRASLLQAE--TKDETLQVHYKVCYARVLDYRRKFIEA 206
+IA YL EDP QA F N L H V Y + E
Sbjct: 69 RIAAQYLAVGIFEDPTQATLFNNSDWPGPLAHIQFLRDLGKHVYVNYMERKTSFQSRSEE 128
Query: 207 AQRYSELSYKPIIDEAERITALKSALICTILASAGQQRSRMLATL 251
+E +Y P+ +A L + C I Q +
Sbjct: 129 GISATEFTYPPL--QAADFLLLNTTEGCDIQPGGSDQWGNITLGR 171
>gnl|CDD|236983 PRK11788, PRK11788, tetratricopeptide repeat protein; Provisional.
Length = 389
Score = 30.5 bits (70), Expect = 1.7
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 12/81 (14%)
Query: 109 RQHLALIYEREENWRDAANVLVGIPLETGQKQYSVDYKLQTYMKIARLYLEDEDPVQAEA 168
Q L IY++E++W+ A +V + + G V+ Y ++A+ L D A A
Sbjct: 144 LQQLLEIYQQEKDWQKAIDVAERLE-KLGGDSLRVEIA-HFYCELAQQALARGDLDAARA 201
Query: 169 FIN----------RASLLQAE 179
+ RAS+L +
Sbjct: 202 LLKKALAADPQCVRASILLGD 222
>gnl|CDD|172748 PRK14260, PRK14260, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 259
Score = 28.4 bits (63), Expect = 5.9
Identities = 37/171 (21%), Positives = 75/171 (43%), Gaps = 19/171 (11%)
Query: 79 PDEVAKPVSHFTLDKVQPRVISFEEQVASIRQHLALIYEREENWRDA--ANVLVGIPLET 136
P +V V F + PR+ + +R+ + ++++R + + NV G+ +
Sbjct: 62 PVKVEGVVDFFGQNIYDPRI-----NINRLRRQIGMVFQRPNPFPMSIYENVAYGVRISA 116
Query: 137 GQKQYSVDYKLQTYMKIARLYLEDEDPVQAEAFINRASLLQAETKDETLQVHYKVCYARV 196
Q +D +++ +K A L+ E +D +N+++L + + + L C AR
Sbjct: 117 KLPQADLDEIVESALKGAALWQEVKDK------LNKSALGLSGGQQQRL------CIARA 164
Query: 197 LDYRRKFIEAAQRYSELSYKPIIDEAERITALKSALICTILASAGQQRSRM 247
L + K + + S L + E I +L+S L I+ QQ +R+
Sbjct: 165 LAIKPKVLLMDEPCSALDPIATMKVEELIHSLRSELTIAIVTHNMQQATRV 215
>gnl|CDD|109884 pfam00846, Hanta_nucleocap, Hantavirus nucleocapsid protein.
Length = 428
Score = 28.7 bits (64), Expect = 6.6
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 52 EAIVNENVSLVISRQILTDVSTHLVSQPDEVAKPVSHFTLDKVQPRVISFEEQVASIRQH 111
E I LVI+RQ L D + PD+V K TL + V + E ++A +++
Sbjct: 9 EEITAHEQQLVIARQKLKDAEKAVEVDPDDVNKS----TLQSRRAAVSALEAKLAELKRQ 64
Query: 112 LALIYEREEN 121
LA ++
Sbjct: 65 LADRIATQKL 74
>gnl|CDD|223963 COG1032, COG1032, Fe-S oxidoreductase [Energy production and
conversion].
Length = 490
Score = 28.4 bits (63), Expect = 7.2
Identities = 14/78 (17%), Positives = 29/78 (37%), Gaps = 8/78 (10%)
Query: 91 LDKVQPRVISFEEQVASIRQHLALIYEREENWRDAANVLVGIPLETG--------QKQYS 142
+++ + S+R E + R+A V I +E+G K +
Sbjct: 275 IERGLRKGCRVHISAPSLRADTVTDEELLKLLREAGLRRVYIGIESGSEELLKKINKGIT 334
Query: 143 VDYKLQTYMKIARLYLED 160
+ L+ +KIA+ +
Sbjct: 335 TEEVLEEAVKIAKEHGLR 352
>gnl|CDD|214934 smart00954, RelA_SpoT, Region found in RelA / SpoT proteins. The
functions of Escherichia coli RelA and SpoT differ
somewhat. RelA produces pppGpp (or ppGpp) from ATP and
GTP (or GDP). SpoT degrades ppGpp, but may also act as a
secondary ppGpp synthetase. The two proteins are
strongly similar. In many species, a single homolog to
SpoT and RelA appears reponsible for both ppGpp
synthesis and ppGpp degradation. (p)ppGpp is a
regulatory metabolite of the stringent response, but
appears also to be involved in antibiotic biosynthesis
in some species.
Length = 111
Score = 27.1 bits (61), Expect = 7.3
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 262 AYSILEKMYLDRIIRKSELQDFAAL 286
YSI +KM I E+ D A +
Sbjct: 6 LYSIYKKMRRKGEISFDEITDLAGV 30
>gnl|CDD|240107 cd04760, BAH_Dnmt1_I, BAH, or Bromo Adjacent Homology domain, first
copy present in DNA (Cytosine-5)-methyltransferases from
Bilateria, Dnmt1 and similar proteins. DNA methylation,
or the covalent addition of a methyl group to cytosine
within the context of the CpG dinucleotide, has profound
effects on the genome. These effects include
transcriptional repression via inhibition of
transcription factor binding, the recruitment of
methyl-binding proteins and their associated chromatin
remodeling factors, X chromosome inactivation,
imprinting, and the suppression of parasitic DNA
sequences. DNA methylation is also essential for proper
embryonic development and is an important player in both
DNA repair and genome stability. BAH domains are found
in a variety of proteins playing roles in
transcriptional silencing and the remodeling of
chromatin. It is assumed that in most or all of these
instances the BAH domain mediates protein-protein
interactions.
Length = 124
Score = 27.4 bits (61), Expect = 7.8
Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 10/68 (14%)
Query: 235 TILASAGQQRSRMLATLFKDERCQHLPAYSILEKMYLDRIIRKSELQDFAALL--KPHQK 292
T+L LF + C+ + SI K +I K+ ++++ +
Sbjct: 50 TVLGETSDPLE-----LFLVDECEDMALSSIHGK---VNVIYKAPSENWSMEGGMDEEDE 101
Query: 293 AITVDGSS 300
DG +
Sbjct: 102 IFEDDGKT 109
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 26.2 bits (58), Expect = 9.9
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 5/69 (7%)
Query: 147 LQTYMKIARLYLEDEDPVQAEAFINRASLLQAETKD---ETLQVHYKVCYARVLDYRRKF 203
+A + D +A + +A L E + ET + AR+ +
Sbjct: 5 AAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALN--NLARLYLALGDY 62
Query: 204 IEAAQRYSE 212
EA + +
Sbjct: 63 DEALEYLEK 71
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
0.318 0.132 0.367
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,365,277
Number of extensions: 1979790
Number of successful extensions: 1884
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1875
Number of HSP's successfully gapped: 40
Length of query: 408
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 309
Effective length of database: 6,546,556
Effective search space: 2022885804
Effective search space used: 2022885804
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: 60 (26.8 bits)