RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 039298
(197 letters)
>gnl|CDD|185465 PTZ00129, PTZ00129, 40S ribosomal protein S14; Provisional.
Length = 149
Score = 264 bits (676), Expect = 1e-91
Identities = 122/162 (75%), Positives = 131/162 (80%), Gaps = 14/162 (8%)
Query: 34 MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
+ K+E TLGP V GE VFGVAHIFASFNDTFIHVTDLSGRETLVR+TGGMK
Sbjct: 2 KKKATKMSKKQEVATLGPNVAKGELVFGVAHIFASFNDTFIHVTDLSGRETLVRVTGGMK 61
Query: 94 VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
VKADRDESSPYAAM+AAQDV+ RCKELGI ALHIKLRATGG +TKTPGPGAQ+ALRALAR
Sbjct: 62 VKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTKTPGPGAQAALRALAR 121
Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGR 195
+G+KIGRI EDVTPIPTDSTRRKGGRRGR
Sbjct: 122 AGLKIGRI--------------EDVTPIPTDSTRRKGGRRGR 149
>gnl|CDD|236588 PRK09607, rps11p, 30S ribosomal protein S11P; Reviewed.
Length = 132
Score = 207 bits (529), Expect = 2e-69
Identities = 83/137 (60%), Positives = 102/137 (74%), Gaps = 14/137 (10%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
G+AHI+ASFN+T I +TDL+G ET+ + +GGM VKADRDESSPYAAM AA+ + KE
Sbjct: 10 GIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEK 69
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
GIT +HIK+RA GGN K+PGPGAQ+A+RALAR+G++IGRI EDVTP
Sbjct: 70 GITGVHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRI--------------EDVTP 115
Query: 181 IPTDSTRRKGGRRGRRL 197
IP D TR GGRRGRR+
Sbjct: 116 IPHDGTRPPGGRRGRRV 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 = 171 bits (434), Expect = 2e-55
Identities = 75/126 (59%), Positives = 93/126 (73%), Gaps = 14/126 (11%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
G+AHI++SFN+T I +TD++G ET+ R +GGM VKADRDESSPYAAM AA + + KE
Sbjct: 3 GIAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKER 62
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
GIT LHIK+RA GGN K+PGPGAQ+A+RALAR+G++IGRI EDVTP
Sbjct: 63 GITGLHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRI--------------EDVTP 108
Query: 181 IPTDST 186
IP D T
Sbjct: 109 IPHDGT 114
>gnl|CDD|223178 COG0100, RpsK, Ribosomal protein S11 [Translation, ribosomal
structure and biogenesis].
Length = 129
Score = 144 bits (365), Expect = 1e-44
Identities = 57/134 (42%), Positives = 79/134 (58%), Gaps = 23/134 (17%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
GVAHI ASFN+T + +TDL+G + +GGM K R +S+PYAA LAA+D + + KE
Sbjct: 19 GVAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSR-KSTPYAAQLAAEDAAKKAKEH 77
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
GI ++ +K++ PGPG ++A+RALA +G+KI RI EDVTP
Sbjct: 78 GIKSVEVKVKG--------PGPGREAAIRALAAAGLKITRI--------------EDVTP 115
Query: 181 IPTDSTRRKGGRRG 194
IP + R RR
Sbjct: 116 IPHNGCRPPKRRRV 129
>gnl|CDD|189537 pfam00411, Ribosomal_S11, Ribosomal protein S11.
Length = 109
Score = 143 bits (363), Expect = 1e-44
Identities = 58/132 (43%), Positives = 74/132 (56%), Gaps = 23/132 (17%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
G+AHI ASFN+T I +TD+ GR L GG K R +S+PYAA AA++ + KE
Sbjct: 1 GIAHIQASFNNTIITITDVIGRVVLWSSAGGCGFKGSR-KSTPYAAQTAAENAAKIAKEQ 59
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
GI AL +K++ PGPG +SALRALARSG++I RI DVTP
Sbjct: 60 GIKALEVKIKG--------PGPGRESALRALARSGLRITRI--------------RDVTP 97
Query: 181 IPTDSTRRKGGR 192
IP + R R
Sbjct: 98 IPHNGCRPPKKR 109
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 81.7 bits (203), Expect = 3e-20
Identities = 47/134 (35%), Positives = 72/134 (53%), Gaps = 25/134 (18%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRIT-GGMKVKADRDESSPYAAMLAAQDVSTRCKE 119
GVAHI A+FN+T + +TD G + + GG+ K R +S+PYAA +AA+D + + KE
Sbjct: 18 GVAHIHATFNNTIVTITDRQG-NVISWASAGGLGFKGSR-KSTPYAAQVAAEDAAKKAKE 75
Query: 120 LGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVT 179
G+ + + + K PG G +SA+RAL +G+++ I +DVT
Sbjct: 76 HGMKTVEVFV--------KGPGSGRESAIRALQAAGLEVTSI--------------KDVT 113
Query: 180 PIPTDSTRRKGGRR 193
PIP + R RR
Sbjct: 114 PIPHNGCRPPKRRR 127
>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 = 81.1 bits (201), Expect = 3e-20
Identities = 44/127 (34%), Positives = 67/127 (52%), Gaps = 23/127 (18%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
GVAHI A+FN+T + +TD G G + K + +S+PYAA LAA+D + + KE
Sbjct: 1 GVAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSK-KSTPYAAQLAAEDAAKKAKEF 59
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
G+ + + + K PG G +SA+RAL +G+++ I +DVTP
Sbjct: 60 GMKTVDVYV--------KGPGAGRESAIRALQAAGLEVTSI--------------KDVTP 97
Query: 181 IPTDSTR 187
IP + R
Sbjct: 98 IPHNGCR 104
>gnl|CDD|176982 CHL00041, rps11, ribosomal protein S11.
Length = 116
Score = 64.1 bits (157), Expect = 1e-13
Identities = 41/122 (33%), Positives = 58/122 (47%), Gaps = 23/122 (18%)
Query: 61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
GV HI ASFN+T + VTD+ GR G K R + +P+AA AA++ +
Sbjct: 14 GVIHIQASFNNTIVTVTDVRGRVISWSSAGACGFKGAR-KGTPFAAQTAAENAIRTVIDQ 72
Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
G+ + + K PG G +ALRA+ RSG+K+ I DVTP
Sbjct: 73 GMKRAEVMI--------KGPGLGRDTALRAIRRSGLKL-------SSIR-------DVTP 110
Query: 181 IP 182
+P
Sbjct: 111 MP 112
>gnl|CDD|181146 PRK07851, PRK07851, acetyl-CoA acetyltransferase; Provisional.
Length = 406
Score = 33.4 bits (77), Expect = 0.066
Identities = 22/52 (42%), Positives = 31/52 (59%), Gaps = 4/52 (7%)
Query: 115 TRCKELGITALHIKLRATG--GNKTKTPGPGAQSALR-ALARSGMKIGRIDL 163
T+ +ELG+T L ++ +TG G + G G A + ALAR+GM I IDL
Sbjct: 275 TKARELGLTPL-ARIVSTGVSGLSPEIMGLGPVEASKQALARAGMSIDDIDL 325
>gnl|CDD|180595 PRK06504, PRK06504, acetyl-CoA acetyltransferase; Provisional.
Length = 390
Score = 30.9 bits (70), Expect = 0.40
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 118 KELGITALH--IKLRATGGNKT---KTPGPGAQSALRALARSGMKIGRIDLEGLLILGLY 172
K LG+ L + GG+ + P P + RAL ++GMKI ID LY
Sbjct: 263 KALGVKPLARIHHMTVIGGDPVIMLEAPLPATE---RALKKAGMKIDDID--------LY 311
Query: 173 YISEDVTPIPT 183
++E +P
Sbjct: 312 EVNEAFASVPL 322
>gnl|CDD|181145 PRK07850, PRK07850, acetyl-CoA acetyltransferase; Provisional.
Length = 387
Score = 29.3 bits (66), Expect = 1.2
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 141 GPGAQSALRALARSGMKIGRIDL 163
GP Q+ + L ++GMKIG IDL
Sbjct: 286 GP-VQATAKVLEKAGMKIGDIDL 307
>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 = 28.5 bits (64), Expect = 1.5
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 7/51 (13%)
Query: 86 VRITGGMKVKADRDESSPYAAM---LAAQDVST--RCKE--LGITALHIKL 129
VR G M+VK+DR Y AM LAA+ + R E L +T+ ++L
Sbjct: 15 VRFLGSMEVKSDRTSEVIYEAMRQILAARAIHNIFRMTESHLLVTSDCLRL 65
>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 = 26.8 bits (60), Expect = 7.4
Identities = 23/86 (26%), Positives = 32/86 (37%), Gaps = 15/86 (17%)
Query: 73 FIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHI----K 128
I V DL +V GG + R +S + DV+ KELG L+I
Sbjct: 2 IIPVIDLKDGV-VVHGVGGDR-DNYRPITSNLCSTSDPLDVARAYKELGFRGLYIADLDA 59
Query: 129 LRATGGNKTKTPGPGAQSALRALARS 154
+ G N A+R LA +
Sbjct: 60 IMGRGDND---------EAIRELAAA 76
>gnl|CDD|164583 MTH00005, ATP6, ATP synthase F0 subunit 6; Provisional.
Length = 231
Score = 26.6 bits (59), Expect = 7.7
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 3 ECISLLFRVFTFSFRLGTNPS 23
E IS+L R T SFRL N S
Sbjct: 150 ETISILVRPITLSFRLAANMS 170
>gnl|CDD|238426 cd00830, KAS_III, Ketoacyl-acyl carrier protein synthase III
(KASIII) initiates the elongation in type II fatty acid
synthase systems. It is found in bacteria and plants.
Elongation of fatty acids in the type II systems occurs
by Claisen condensation of malonyl-acyl carrier protein
(ACP) with acyl-ACP. KASIII initiates this process by
specifically using acetyl-CoA over acyl-CoA.
Length = 320
Score = 26.7 bits (60), Expect = 8.3
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 117 CKELGITALHIKLRATG-------GNKTKTPGPGAQSALRALARSGMKIGRIDL 163
K L + I+ R TG T ++A +AL +G+ IDL
Sbjct: 22 EKRLDTSDEWIRTR-TGIRERRIADPGETTSDLAVEAAKKALEDAGIDADDIDL 74
>gnl|CDD|236197 PRK08242, PRK08242, acetyl-CoA acetyltransferase; Validated.
Length = 402
Score = 26.8 bits (60), Expect = 9.9
Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 3/24 (12%)
Query: 140 PGPGAQSALRALARSGMKIGRIDL 163
P P + +ALA++G+ + IDL
Sbjct: 302 PVPATR---KALAKAGLTVDDIDL 322
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
0.320 0.137 0.394
Gapped
Lambda K H
0.267 0.0708 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,243,921
Number of extensions: 958033
Number of successful extensions: 912
Number of sequences better than 10.0: 1
Number of HSP's gapped: 894
Number of HSP's successfully gapped: 39
Length of query: 197
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 105
Effective length of database: 6,857,034
Effective search space: 719988570
Effective search space used: 719988570
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: 56 (25.4 bits)