RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8508
(246 letters)
>gnl|CDD|222424 pfam13862, BCIP, p21-C-terminal region-binding protein. This
family of p21-binding proteins is important as a
modulator of p21 activity. The domain binds the
C-terminal region of p21 in a ternary complex with CDK2,
which results in inhibition of the kinase activity of
CDK2.
Length = 189
Score = 215 bits (551), Expect = 3e-71
Identities = 85/204 (41%), Positives = 130/204 (63%), Gaps = 16/204 (7%)
Query: 35 EEIQVTFEGRSAIDSDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVVKQSTADED 94
EE+ V FE D DFHG+K LL+QLFL A I+LSEL D+I+ Q+ IGSV+KQS
Sbjct: 1 EEVNVDFEFFDPNDIDFHGIKNLLRQLFLDAEIDLSELADLILEQNTIGSVIKQS----- 55
Query: 95 MDDDDDESDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEHADDRIKAFVNKILTD 154
D ++D DV+G +V+N+T K ++QLR L + A++ AD + A + K+L+D
Sbjct: 56 -DGEED-----DVYGFLSVLNLTQYKDSPAIKQLREYLLDKAKKSADKEVLAKLEKLLSD 109
Query: 155 DTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQAKDKKMPYDFQHYILISKLYKSDGSK 214
+ VGL+INERF+N+PP++ PL + L +EI+ A++ + PY F HY+++SK+YK +
Sbjct: 110 SDKKVGLLINERFINMPPELVPPLYKMLLEEIEWAQEDEKPYKFTHYLILSKVYKENDPN 169
Query: 215 KKKNKVTGQTDPDILFSNAEEEVF 238
KK K ++++ N E+E
Sbjct: 170 KKAKK-----KDELIYFNPEDEFL 188
>gnl|CDD|203244 pfam05400, FliT, Flagellar protein FliT. This family contains
several bacterial flagellar FliT proteins. The flagellar
proteins FlgN and FliT have been proposed to act as
substrate specific export chaperones, facilitating
incorporation of the enterobacterial hook-associated
axial proteins (HAPs) FlgK/FlgL and FliD into the
growing flagellum. In Salmonella typhimurium flgN and
fliT mutants, the export of target HAPs is reduced,
concomitant with loss of unincorporated flagellin into
the surrounding medium.
Length = 82
Score = 26.9 bits (60), Expect = 2.8
Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 13/71 (18%)
Query: 123 ECVQQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIINERFVNIPPQISVPLLQGL 182
E Q L L + + + +IL +D + L+ P L L
Sbjct: 19 EREQLLERLREAPLSPPESEEKRELLRRILANDAEIRALL-------------QPRLDEL 65
Query: 183 SKEIQQAKDKK 193
S+ + QA+ +K
Sbjct: 66 SQLLGQARRQK 76
>gnl|CDD|233869 TIGR02439, catechol_proteo, catechol 1,2-dioxygenase,
proteobacterial. Members of this family known so far
are catechol 1,2-dioxygenases of the Proteobacteria.
They are distinct from catechol 1,2-dioxygenases and
chlorocatechol 1,2-dioxygenases of the Actinobacteria,
which are quite similar to each other and resolved by
separate models. This enzyme catalyzes intradiol
cleavage in which catechol + O2 becomes
cis,cis-muconate. Catechol is an intermediate in the
catabolism of many different aromatic compounds, as is
the alternative intermediate protocatechuate. In
Acinetobacter lwoffii, two isozymes are present with
abilities, differing somewhat, to act on catechol
analogs 3-methylcatechol, 4-methylcatechol,
4-methoxycatechol, and 4-chlorocatechol [Energy
metabolism, Other].
Length = 285
Score = 28.5 bits (64), Expect = 3.2
Identities = 7/34 (20%), Positives = 20/34 (58%)
Query: 121 HIECVQQLRSLLSELAEEHADDRIKAFVNKILTD 154
+ + +Q ++ L ++ + RIK ++++L+D
Sbjct: 1 NTKEIQAFLKQVAGLDQKGGNARIKQIIHRVLSD 34
>gnl|CDD|170049 PRK09692, PRK09692, integrase; Provisional.
Length = 413
Score = 28.1 bits (62), Expect = 4.2
Identities = 30/110 (27%), Positives = 49/110 (44%), Gaps = 14/110 (12%)
Query: 86 VKQSTADEDMDDDDDESDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEHADDRIK 145
VK+++ ED +D S DVF I++T+ K VQ ++ + + A E R+
Sbjct: 117 VKKASVTEDYAEDIWRSLERDVFPAIGDISVTDIKAHTLVQAVQPVQARGALETV-RRLC 175
Query: 146 AFVNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQAKDKKMP 195
+N+++ QN GLI VNI K ++ + K MP
Sbjct: 176 QRINEVMI-YAQNTGLIDAVPSVNI------------GKAFEKPQKKNMP 212
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 28.3 bits (63), Expect = 5.4
Identities = 30/169 (17%), Positives = 62/169 (36%), Gaps = 22/169 (13%)
Query: 2 SAPSKKAARLPAE-----NESSGSEYDSDAEEEGYTGGEEIQVTFEGRSAIDSDF-HGVK 55
SAP A R E + + + + + ++ T + I DF H +
Sbjct: 9 SAPRGFAPRTTVESSQKRIQQNNGDKEDSSTSTSSLSVSAVEKTSNAKEEIQVDFQHNSE 68
Query: 56 QLLKQLFLKAHINLSELTDVIISQSNIGSVVKQSTADEDMDDDDDESDVNDVFGITTVIN 115
++++ + I + + ++ S+I ST + +DDD +
Sbjct: 69 SAVEEVEAEDEIEVEQNQSDVLKSSSIVKEESISTDMDGIDDD----------------S 112
Query: 116 ITNKKHIECVQQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIIN 164
+ K +E + + ELAEE+ K FV + ++ + +N
Sbjct: 113 LDRKLKLERENLRKREIEELAEENFSRGNKLFVYPQVVKPDSDIEVYLN 161
>gnl|CDD|165556 PHA03299, PHA03299, envelope glycoprotein L; Provisional.
Length = 195
Score = 27.5 bits (61), Expect = 5.5
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 102 SDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEHADD 142
SD + +G V N+++ H++C+ + + AE +DD
Sbjct: 28 SDRDLTYGFVRVPNVSSIMHLDCIPNSKLSSARYAELSSDD 68
>gnl|CDD|192395 pfam09821, ABC_transp, ABC nitrate/sulfonate/bicarbonate family
transporter, ATPase subunit. Members of this family are
found in various prokaryotic ABC transporters,
predominantly involved in nitrate, sulfonate and
bicarbonate translocation.
Length = 120
Score = 26.4 bits (59), Expect = 7.0
Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 4/84 (4%)
Query: 32 TGGEEIQVTFEGRSAIDSDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVVKQSTA 91
G +I++T GR ++D K+L + L AH+ L+ ++ + ++
Sbjct: 29 LEGGDIELTPLGRRFAEADIDERKELFAEQ-LLAHVPLAAHIRRVLDERPSHRAPEERFL 87
Query: 92 DEDMDDDDDESDVNDVFGITTVIN 115
DE ++D + T I+
Sbjct: 88 DE-LEDYLSPEEAERTL--RTAID 108
>gnl|CDD|218670 pfam05639, Pup, Pup-like protein. This family consists of several
short bacterial proteins formely known as (DUF797). It
was recently shown that Mycobacterium tuberculosis
contains a small protein, Pup (Rv2111c), that is
covalently conjugated to the e-NH2 groups of lysines on
several target proteins (pupylation) such as the malonyl
CoA acyl carrier protein (FabD). Pupylation of FabD was
shown to result in its recruitment to the mycobacterial
proteasome and subsequent degradation analogous to
eukaryotic ubiquitin-conjugated proteins. Searches
recovered Pup orthologs in all major actinobacteria
lineages including the basal bifidobacteria and also
sporadically in certain other bacterial lineages. The
Pup proteins were all between 50-90 residues in length
and a multiple alignment shows that they all contain a
conserved motif with a G [EQ] signature at the
C-terminus. Thus, all of them are suitable for
conjugation via the terminal glutamate or the deamidated
glutamine (as shown in the case of the Mycobacterium
Pup). The conserved globular core of Pup is predicted to
form a bihelical unit with the extreme C-terminal 6-7
residues forming a tail in the extended conformation.
Thus, Pup is structurally unrelated to the ubiquitin
fold and has convergently evolved the function of
protein modifier.
Length = 66
Score = 25.4 bits (56), Expect = 7.3
Identities = 15/63 (23%), Positives = 29/63 (46%)
Query: 88 QSTADEDMDDDDDESDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEHADDRIKAF 147
+ T DD E +V + T +K E V L + ++ EE+A++ ++++
Sbjct: 1 KDTGGGQQDDTRREEEVEETAEATADGAERREKLTEDVDDLLDEIDDVLEENAEEFVRSY 60
Query: 148 VNK 150
V K
Sbjct: 61 VQK 63
>gnl|CDD|237347 PRK13318, PRK13318, pantothenate kinase; Reviewed.
Length = 258
Score = 27.0 bits (61), Expect = 8.6
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 7/38 (18%)
Query: 49 SDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVV 86
+D +GV LKQL + ++ ++T +IIS SVV
Sbjct: 36 ADEYGV--WLKQLLGLSGLDPEDITGIIIS-----SVV 66
>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation
factor RRN3. This family consists of several eukaryotic
proteins which are homologous to the yeast RRN3 protein.
RRN3 is one of the RRN genes specifically required for
the transcription of rDNA by RNA polymerase I (Pol I) in
Saccharomyces cerevisiae.
Length = 554
Score = 27.3 bits (61), Expect = 8.9
Identities = 12/76 (15%), Positives = 21/76 (27%), Gaps = 12/76 (15%)
Query: 89 STADEDMDDDDDESDVNDVFGITTVINITNK------------KHIECVQQLRSLLSELA 136
++DM D DD+ + + I H++ L
Sbjct: 239 DDDEDDMFDMDDDDEEESDPEVERTSTIKEVSEKLDAIMDLLFTHLDSCFTDGELDEGKG 298
Query: 137 EEHADDRIKAFVNKIL 152
+ + F N IL
Sbjct: 299 VNLFNTLLSLFDNHIL 314
>gnl|CDD|225148 COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain)
[Inorganic ion transport and metabolism].
Length = 451
Score = 27.2 bits (61), Expect = 8.9
Identities = 29/174 (16%), Positives = 61/174 (35%), Gaps = 43/174 (24%)
Query: 85 VVKQSTADEDMD-----DDDDESDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEH 139
V + ++ + DD+ ++ + + + I+ ++L +E
Sbjct: 51 VWRLLPKEDAAEVLGELDDEVREEIIEALSDEELAAAIEELDID-------DAADLLDEL 103
Query: 140 ADDRIKAF-----------VNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQ 188
D+ V ++L+ G I+ FV +P ++V +
Sbjct: 104 PDEVRDELLSLLDPEERARVRQLLSYPEDTAGRIMTTEFVTLPEDVTV----------DE 153
Query: 189 AKD--KKMPYDFQHYILISKLYKSDGSKKKKNKVTGQTDP-DILFSNAEEEVFD 239
A D ++ D + I LY D +K K+ G D+L + +E + D
Sbjct: 154 ALDRIRERAEDAET---IYYLYVVD----EKGKLLGVVSLRDLLTAEPDELLKD 200
>gnl|CDD|235298 PRK04439, PRK04439, S-adenosylmethionine synthetase; Provisional.
Length = 399
Score = 27.1 bits (61), Expect = 9.8
Identities = 5/28 (17%), Positives = 17/28 (60%)
Query: 122 IECVQQLRSLLSELAEEHADDRIKAFVN 149
E ++++ + +LA+++ D ++ +N
Sbjct: 227 FEVKEEVKEKVEDLAQKYTDRDVEVHIN 254
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
0.310 0.130 0.349
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,544,632
Number of extensions: 1199244
Number of successful extensions: 1313
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1300
Number of HSP's successfully gapped: 44
Length of query: 246
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 152
Effective length of database: 6,768,326
Effective search space: 1028785552
Effective search space used: 1028785552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 58 (26.0 bits)