RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3230
(151 letters)
>gnl|CDD|185465 PTZ00129, PTZ00129, 40S ribosomal protein S14; Provisional.
Length = 149
Score = 252 bits (646), Expect = 6e-88
Identities = 115/149 (77%), Positives = 132/149 (88%)
Query: 1 MAPRKGKVQKEEVLVSLGPQVKEGEDVFGVAHIFASFNDTFVHVTDLSGRETIARITGGM 60
+ K+ K++ + +LGP V +GE VFGVAHIFASFNDTF+HVTDLSGRET+ R+TGGM
Sbjct: 1 SKKKATKMSKKQEVATLGPNVAKGELVFGVAHIFASFNDTFIHVTDLSGRETLVRVTGGM 60
Query: 61 KVKADRDEASPYAAMLAAQDVAEKCKTLGITALHIKLRATGGNRTKTPGPGAQSALRALA 120
KVKADRDE+SPYAAM+AAQDVA +CK LGI ALHIKLRATGG RTKTPGPGAQ+ALRALA
Sbjct: 61 KVKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTKTPGPGAQAALRALA 120
Query: 121 RSNMKIGRIEDVTPIPSDSTRRKGGRRGR 149
R+ +KIGRIEDVTPIP+DSTRRKGGRRGR
Sbjct: 121 RAGLKIGRIEDVTPIPTDSTRRKGGRRGR 149
>gnl|CDD|236588 PRK09607, rps11p, 30S ribosomal protein S11P; Reviewed.
Length = 132
Score = 204 bits (522), Expect = 3e-69
Identities = 83/130 (63%), Positives = 105/130 (80%)
Query: 22 KEGEDVFGVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDV 81
++ +G+AHI+ASFN+T + +TDL+G ETIA+ +GGM VKADRDE+SPYAAM AA+
Sbjct: 3 SMRKEKWGIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKA 62
Query: 82 AEKCKTLGITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPSDSTR 141
AE K GIT +HIK+RA GGN K+PGPGAQ+A+RALAR+ ++IGRIEDVTPIP D TR
Sbjct: 63 AEDAKEKGITGVHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRIEDVTPIPHDGTR 122
Query: 142 RKGGRRGRRL 151
GGRRGRR+
Sbjct: 123 PPGGRRGRRV 132
>gnl|CDD|132667 TIGR03628, arch_S11P, archaeal ribosomal protein S11P. This model
describes exclusively the archaeal ribosomal protein
S11P. It excludes homologous ribosomal proteins S14 from
eukaryotes and S11 from bacteria [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 114
Score = 170 bits (433), Expect = 5e-56
Identities = 76/112 (67%), Positives = 93/112 (83%)
Query: 29 GVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDVAEKCKTL 88
G+AHI++SFN+T + +TD++G ETIAR +GGM VKADRDE+SPYAAM AA AEK K
Sbjct: 3 GIAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKER 62
Query: 89 GITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPSDST 140
GIT LHIK+RA GGN K+PGPGAQ+A+RALAR+ ++IGRIEDVTPIP D T
Sbjct: 63 GITGLHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRIEDVTPIPHDGT 114
>gnl|CDD|223178 COG0100, RpsK, Ribosomal protein S11 [Translation, ribosomal
structure and biogenesis].
Length = 129
Score = 145 bits (369), Expect = 6e-46
Identities = 58/131 (44%), Positives = 80/131 (61%), Gaps = 9/131 (6%)
Query: 18 GPQVKEGEDVFGVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLA 77
+ + GVAHI ASFN+T V +TDL+G I +GGM K R +++PYAA LA
Sbjct: 8 KKKKVKKNIADGVAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSR-KSTPYAAQLA 66
Query: 78 AQDVAEKCKTLGITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPS 137
A+D A+K K GI ++ +K++ PGPG ++A+RALA + +KI RIEDVTPIP
Sbjct: 67 AEDAAKKAKEHGIKSVEVKVKG--------PGPGREAAIRALAAAGLKITRIEDVTPIPH 118
Query: 138 DSTRRKGGRRG 148
+ R RR
Sbjct: 119 NGCRPPKRRRV 129
>gnl|CDD|189537 pfam00411, Ribosomal_S11, Ribosomal protein S11.
Length = 109
Score = 143 bits (363), Expect = 2e-45
Identities = 54/118 (45%), Positives = 73/118 (61%), Gaps = 9/118 (7%)
Query: 29 GVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDVAEKCKTL 88
G+AHI ASFN+T + +TD+ GR + GG K R +++PYAA AA++ A+ K
Sbjct: 1 GIAHIQASFNNTIITITDVIGRVVLWSSAGGCGFKGSR-KSTPYAAQTAAENAAKIAKEQ 59
Query: 89 GITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPSDSTRRKGGR 146
GI AL +K++ PGPG +SALRALARS ++I RI DVTPIP + R R
Sbjct: 60 GIKALEVKIKG--------PGPGRESALRALARSGLRITRIRDVTPIPHNGCRPPKKR 109
>gnl|CDD|188357 TIGR03632, bact_S11, 30S ribosomal protein S11. This model
describes the bacterial 30S ribosomal protein S11.
Cutoffs are set such that the model excludes archaeal
and eukaryotic ribosomal proteins, but many chloroplast
and mitochondrial equivalents of S11 are detected
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 108
Score = 86.1 bits (214), Expect = 8e-23
Identities = 44/113 (38%), Positives = 66/113 (58%), Gaps = 9/113 (7%)
Query: 29 GVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDVAEKCKTL 88
GVAHI A+FN+T V +TD G G + K + +++PYAA LAA+D A+K K
Sbjct: 1 GVAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSK-KSTPYAAQLAAEDAAKKAKEF 59
Query: 89 GITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPSDSTR 141
G+ + + + K PG G +SA+RAL + +++ I+DVTPIP + R
Sbjct: 60 GMKTVDVYV--------KGPGAGRESAIRALQAAGLEVTSIKDVTPIPHNGCR 104
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 85.6 bits (213), Expect = 2e-22
Identities = 48/120 (40%), Positives = 72/120 (60%), Gaps = 11/120 (9%)
Query: 29 GVAHIFASFNDTFVHVTDLSGRETIARIT-GGMKVKADRDEASPYAAMLAAQDVAEKCKT 87
GVAHI A+FN+T V +TD G I+ + GG+ K R +++PYAA +AA+D A+K K
Sbjct: 18 GVAHIHATFNNTIVTITDRQG-NVISWASAGGLGFKGSR-KSTPYAAQVAAEDAAKKAKE 75
Query: 88 LGITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIPSDSTRRKGGRR 147
G+ + + + K PG G +SA+RAL + +++ I+DVTPIP + R RR
Sbjct: 76 HGMKTVEVFV--------KGPGSGRESAIRALQAAGLEVTSIKDVTPIPHNGCRPPKRRR 127
>gnl|CDD|176982 CHL00041, rps11, ribosomal protein S11.
Length = 116
Score = 70.7 bits (174), Expect = 1e-16
Identities = 40/108 (37%), Positives = 57/108 (52%), Gaps = 9/108 (8%)
Query: 29 GVAHIFASFNDTFVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDVAEKCKTL 88
GV HI ASFN+T V VTD+ GR I+ + G + +P+AA AA++
Sbjct: 14 GVIHIQASFNNTIVTVTDVRGR-VISWSSAGACGFKGARKGTPFAAQTAAENAIRTVIDQ 72
Query: 89 GITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIGRIEDVTPIP 136
G+ + + K PG G +ALRA+ RS +K+ I DVTP+P
Sbjct: 73 GMKRAEVMI--------KGPGLGRDTALRAIRRSGLKLSSIRDVTPMP 112
>gnl|CDD|240074 cd04723, HisA_HisF, Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase (HisA) and
the cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). The ProFAR isomerase catalyzes the
fourth step in histidine biosynthesis, an isomerisation
of the aminoaldose moiety of ProFAR to the aminoketose
of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene. The Imidazole glycerol phosphate synthase (IGPS)
catalyzes the fifth step of histidine biosynthesis, the
formation of the imidazole ring. IGPS converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 233
Score = 27.6 bits (62), Expect = 2.4
Identities = 21/86 (24%), Positives = 29/86 (33%), Gaps = 15/86 (17%)
Query: 41 FVHVTDLSGRETIARITGGMKVKADRDEASPYAAMLAAQDVAEKCKTLGITALHI----K 96
+ V DL + GG + R S + DVA K LG L+I
Sbjct: 2 IIPVIDLKDGV-VVHGVGGDR-DNYRPITSNLCSTSDPLDVARAYKELGFRGLYIADLDA 59
Query: 97 LRATGGNRTKTPGPGAQSALRALARS 122
+ G N A+R LA +
Sbjct: 60 IMGRGDND---------EAIRELAAA 76
>gnl|CDD|151801 pfam11360, DUF3110, Protein of unknown function (DUF3110). This
family of proteins has no known function.
Length = 86
Score = 26.5 bits (59), Expect = 2.5
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 65 DRDEASPYAAMLAAQD 80
+ D+A YA +L AQD
Sbjct: 31 EEDDAERYAGLLEAQD 46
>gnl|CDD|173384 PTZ00090, PTZ00090, 40S ribosomal protein S11; Provisional.
Length = 233
Score = 27.6 bits (61), Expect = 2.5
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 79 QDVAEKCKTLGITALHIKLR 98
+++A+KC+ LGI A+ IK R
Sbjct: 170 ENIAKKCRRLGIFAVDIKFR 189
>gnl|CDD|241312 cd13158, PTB_APPL, Adaptor protein containing PH domain, PTB
domain, and Leucine zipper motif (APPL; also called
DCC-interacting protein (DIP)-13alpha)
Phosphotyrosine-binding (PTB) domain. APPL interacts
with oncoprotein serine/threonine kinase AKT2, tumor
suppressor protein DCC (deleted in colorectal cancer),
Rab5, GIPC (GAIP-interacting protein, C terminus),
human follicle-stimulating hormone receptor (FSHR), and
the adiponectin receptors AdipoR1 and AdipoR2. There
are two isoforms of human APPL: APPL1 and APPL2, which
share about 50% sequence identity. APPL has a BAR and
a PH domain near its N terminus, and the two domains
are thought to function as a unit (BAR-PH domain).
C-terminal to this is a PTB domain. Lipid binding
assays show that the BAR, PH, and PTB domains can bind
phospholipids. PTB domains have a common PH-like fold
and are found in various eukaryotic signaling
molecules. This domain was initially shown to binds
peptides with a NPXY motif with differing requirements
for phosphorylation of the tyrosine, although more
recent studies have found that some types of PTB
domains can bind to peptides lack tyrosine residues
altogether. In contrast to SH2 domains, which recognize
phosphotyrosine and adjacent carboxy-terminal residues,
PTB-domain binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains.
Length = 135
Score = 26.5 bits (59), Expect = 3.8
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 53 IARITGGMKVKADRDEASPYAAM---LAA 78
I R G M+VK+DR Y AM LAA
Sbjct: 14 IVRFLGSMEVKSDRTSEVIYEAMRQILAA 42
>gnl|CDD|183270 PRK11670, PRK11670, antiporter inner membrane protein; Provisional.
Length = 369
Score = 26.9 bits (60), Expect = 4.1
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 78 AQDVAEK--CKTLGITALHIKLR 98
A+ +AEK + LG LHI LR
Sbjct: 298 AEKLAEKYHTQLLGQMPLHISLR 320
>gnl|CDD|238947 cd01989, STK_N, The N-terminal domain of Eukaryotic Serine
Threonine kinases. The Serine Threonine kinases are
enzymes that belong to a very extensive family of
proteins which share a conserved catalytic core common
with both serine/threonine and tyrosine protein kinases.
The N-terminal domain is homologous to the USP family
which has a ATP binding fold. The N-terminal domain is
predicted to be involved in ATP binding.
Length = 146
Score = 26.5 bits (59), Expect = 5.1
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 65 DRDEASPYAAMLAAQDVAEKCKTLGITALHIKLRATGGN 103
D+D+ S A A ++A K +T I +H+ T
Sbjct: 7 DKDKKSKNALKWALDNLATKGQT--IVLVHVHPPITSIP 43
>gnl|CDD|232807 TIGR00068, glyox_I, lactoylglutathione lyase. Lactoylglutathione
lyase is also known as aldoketomutase and glyoxalase I.
Glyoxylase I is a homodimer in many species. In some
eukaryotes, including yeasts and plants, the orthologous
protein carries a tandem duplication, is twice as long,
and hits This model twice [Central intermediary
metabolism, Amino sugars, Energy metabolism, Other].
Length = 150
Score = 26.3 bits (58), Expect = 5.2
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 9/35 (25%)
Query: 76 LAAQDVAEKCKTLGITALHIKLRATGGNRTKTPGP 110
+ DV + C+ ++RA GGN + PGP
Sbjct: 92 IGVDDVYKACE---------RVRALGGNVVREPGP 117
>gnl|CDD|213499 TIGR00060, L18_bact, ribosomal protein L18, bacterial type. The
archaeal and eukaryotic type rpL18 is not detectable
under this model [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 114
Score = 25.6 bits (56), Expect = 8.4
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 33 IFASFNDTFVHVTDLSGRETIARITG---GMKVKADRDEASPYAAMLAAQDVAEKCKTLG 89
+F S + V D S E +A + +K ++D AA + VAE+ K G
Sbjct: 29 VFRSNRHIYAQVIDDSKSEVLASASTLEKKLKYTGNKD-----AAKKVGKLVAERLKEKG 83
Query: 90 ITAL 93
I +
Sbjct: 84 IKDV 87
>gnl|CDD|239060 cd02146, NfsA_FRP, This family contains NADPH-dependent flavin
reductase and oxygen-insensitive nitroreductase. These
enzymes are homodimeric flavoproteins that contain one
FMN per monomer as a cofactor. Flavin reductase
catalyzes the reduction of flavin by using NADPH as an
electron donor. Oxygen-insensitive nitroreductase, such
as NfsA protein in Escherichia coli, catalyzes
reduction of nitrocompounds using NADPH as electron
donor.
Length = 229
Score = 26.0 bits (58), Expect = 8.9
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 40 TFVHVTDLSGRETIARITGGMK 61
+ + VTD + +A + GG
Sbjct: 44 SVIVVTDPELKAKLAELAGGQP 65
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
0.316 0.133 0.373
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,775,013
Number of extensions: 703876
Number of successful extensions: 736
Number of sequences better than 10.0: 1
Number of HSP's gapped: 726
Number of HSP's successfully gapped: 35
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.5 bits)