RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13427
(268 letters)
>gnl|CDD|100106 cd01425, RPS2, Ribosomal protein S2 (RPS2), involved in formation
of the translation initiation complex, where it might
contact the messenger RNA and several components of the
ribosome. It has been shown that in Escherichia coli
RPS2 is essential for the binding of ribosomal protein
S1 to the 30s ribosomal subunit. In humans, most likely
in all vertebrates, and perhaps in all metazoans, the
protein also functions as the 67 kDa laminin receptor
(LAMR1 or 67LR), which is formed from a 37 kDa
precursor, and is overexpressed in many tumors. 67LR is
a cell surface receptor which interacts with a variety
of ligands, laminin-1 and others. It is assumed that the
ligand interactions are mediated via the conserved
C-terminus, which becomes extracellular as the protein
undergoes conformational changes which are not well
understood. Specifically, a conserved palindromic motif,
LMWWML, may participate in the interactions. 67LR plays
essential roles in the adhesion of cells to the basement
membrane and subsequent signalling events, and has been
linked to several diseases. Some evidence also suggests
that the precursor of 67LR, 37LRP is also present in the
nucleus in animals, where it appears associated with
histones.
Length = 193
Score = 201 bits (514), Expect = 2e-65
Identities = 78/197 (39%), Positives = 107/197 (54%), Gaps = 25/197 (12%)
Query: 72 MFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVL 131
+ +A VHLGHK + +MKPYIYG R G I DL+++ E LR ALNF+A+IA + G +L
Sbjct: 1 LLEAGVHLGHKTRRWNPKMKPYIYGERNGIHIIDLEKTLEKLRLALNFIANIAAKGGKIL 60
Query: 132 FVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNS---------------EKLFRA--- 173
FVG Q ++K A+ F W G TN EKL +
Sbjct: 61 FVGTKPQAQRAVKKFAERTGSFYVNGRWLGGTLTNWKTIRKSIKRLKKLEKEKLEKNLGG 120
Query: 174 ---VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDT 230
+ RLPDLVI+ + E AI EA+K+ IP + IVD+NC+P+LI YP+P NDD+
Sbjct: 121 IKDMFRLPDLVIVLDPRK---EHQ-AIREASKLGIPVIAIVDTNCDPDLIDYPIPANDDS 176
Query: 231 PSAIQYYCQVFKTAILK 247
+I + AIL+
Sbjct: 177 IRSIALILWLLARAILE 193
>gnl|CDD|215856 pfam00318, Ribosomal_S2, Ribosomal protein S2.
Length = 205
Score = 196 bits (501), Expect = 4e-63
Identities = 75/209 (35%), Positives = 107/209 (51%), Gaps = 35/209 (16%)
Query: 72 MFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVL 131
+ +A VH GH+ + +MKPYIYG R G I DL+++ E LR A NF+ IA + G +L
Sbjct: 1 LLEAGVHFGHQTRRWNPKMKPYIYGERNGIHIIDLEKTLEKLRKAANFIKEIAAKGGKIL 60
Query: 132 FVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNS------------------------ 167
FVG Q ++K A+ +F W G TN
Sbjct: 61 FVGTKKQAQEAVKKFAKRTGQFYVNGRWLGGTLTNWKTIKKSIKRLEELSKKEALKLKRE 120
Query: 168 -EKL------FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLI 220
EKL + + +LPDLVI+ + E AI EA+K+ IP + IVD+NC+P+LI
Sbjct: 121 LEKLEKYLGGIKNMKKLPDLVIVVDPNK---EHI-AIKEASKLGIPVIAIVDTNCDPDLI 176
Query: 221 TYPVPGNDDTPSAIQYYCQVFKTAILKGK 249
YP+PGNDD+ +I + AIL+G+
Sbjct: 177 DYPIPGNDDSIRSIALILWLLARAILEGR 205
>gnl|CDD|223130 COG0052, RpsB, Ribosomal protein S2 [Translation, ribosomal
structure and biogenesis].
Length = 252
Score = 161 bits (409), Expect = 1e-48
Identities = 70/243 (28%), Positives = 110/243 (45%), Gaps = 47/243 (19%)
Query: 67 VKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYR 126
V +K + +A VH GH+ + +MKP+I+G R G I DL ++ E LR+A F+ IA
Sbjct: 4 VSMKQLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLERLREAYKFLRRIAAN 63
Query: 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTN-------------------- 166
G +LFVG Q +++ A+ + W GM TN
Sbjct: 64 GGKILFVGTKKQAQEPVKEFAERTGAYYVNGRWLGGMLTNFKTIRKSIKRLKELEKMEED 123
Query: 167 ----------------SEKLFRAV------TRLPDLVILTNTLTTVLEPNPAIGEAAKMC 204
EKL +++ LPD++ + + E A+ EA K+
Sbjct: 124 GFDGLTKKEALMLTRELEKLEKSLGGIKDMKGLPDVLFVID---PRKEKI-AVKEANKLG 179
Query: 205 IPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAKQD-TLKLLSEKQ 263
IP V +VD+NC+P+ + Y +PGNDD +I + AIL+G+ D + E +
Sbjct: 180 IPVVALVDTNCDPDGVDYVIPGNDDAIRSIALIYWLLARAILEGRGGALDEEEAAIEEDE 239
Query: 264 EVQ 266
EV+
Sbjct: 240 EVE 242
>gnl|CDD|130084 TIGR01011, rpsB_bact, ribosomal protein S2, bacterial type. This
model describes the bacterial, ribosomal, and
chloroplast forms of ribosomal protein S2. TIGR01012
describes the archaeal and cytosolic forms [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 225
Score = 154 bits (391), Expect = 2e-46
Identities = 75/228 (32%), Positives = 115/228 (50%), Gaps = 47/228 (20%)
Query: 66 LVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAY 125
+V +KD+ +A VH GH+ + +MKP+I+G R G I DL ++ +LL++A NFV +A
Sbjct: 1 VVSMKDLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLQLLKEAYNFVKDVAA 60
Query: 126 RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTN------------------- 166
G +LFVG Q +I++ A+ C F + W GM TN
Sbjct: 61 NGGKILFVGTKKQAKEIIKEEAERCGMFYVNQRWLGGMLTNFKTIRKSIKKLKKLEKMEE 120
Query: 167 ------------------SEKL------FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAK 202
EKL + + +LPDL+ + + V E A+ EA K
Sbjct: 121 DGTFDDLTKKEALMLSREKEKLEKSLGGIKDMKKLPDLLFVIDP---VKEKI-AVAEARK 176
Query: 203 MCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKK 250
+ IP V IVD+NC+P+L+ YP+PGNDD +I+ + A+L+GK+
Sbjct: 177 LGIPVVAIVDTNCDPDLVDYPIPGNDDAIRSIRLLTNLIADAVLEGKQ 224
>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional.
Length = 258
Score = 148 bits (377), Expect = 8e-44
Identities = 73/234 (31%), Positives = 106/234 (45%), Gaps = 53/234 (22%)
Query: 67 VKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYR 126
V +K + +A VH GH+ + +MKPYI+G R G I DL ++ +L +A NFV +A
Sbjct: 4 VSMKQLLEAGVHFGHQTRRWNPKMKPYIFGERNGIHIIDLQKTVPMLDEAYNFVRDVAAN 63
Query: 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNS------------------- 167
G +LFVG Q I + A+ C W GM TN
Sbjct: 64 GGKILFVGTKKQAQEAIAEEAERCGMPYVNHRWLGGMLTNFKTIRKSIKRLKELEKMEED 123
Query: 168 ------------------EKL------FRAVTRLPDLVILTNTLTTVLEPNP---AIGEA 200
EKL + + LPD + V++PN A+ EA
Sbjct: 124 GTFEKLTKKEALMLTRELEKLEKSLGGIKDMGGLPDALF-------VVDPNKEHIAVKEA 176
Query: 201 AKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAKQD 254
K+ IP V IVD+NC+P+ + YP+PGNDD +I+ Y AIL+G++ +
Sbjct: 177 RKLGIPVVAIVDTNCDPDGVDYPIPGNDDAIRSIKLYTSKIADAILEGRQGRLA 230
>gnl|CDD|177007 CHL00067, rps2, ribosomal protein S2.
Length = 230
Score = 137 bits (347), Expect = 1e-39
Identities = 64/229 (27%), Positives = 99/229 (43%), Gaps = 47/229 (20%)
Query: 65 NLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIA 124
+ +++M +A VH GH+ + +M PYIY R G I +L Q+A L +A + V A
Sbjct: 6 WNINLEEMLEAGVHFGHQTRKWNPKMAPYIYAERNGIHIINLVQTARFLSEACDLVFDAA 65
Query: 125 YRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNS----------------- 167
+ LFVG Q + L+ A + + W GM TN
Sbjct: 66 SKGKKFLFVGTKKQAADLVASAAIRARCHYVNKRWLGGMLTNWSTTKTRLQKLRDLRMEE 125
Query: 168 -----------------------EKLFRAV---TRLPDLVILTNTLTTVLEPNPAIGEAA 201
EK + T+LPD+VI+ + E A+ E
Sbjct: 126 KTGLFNRLPKKEAAILKRQLSRLEKYLGGIKYMTKLPDIVIIIDQ----QEEYTALRECR 181
Query: 202 KMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKK 250
K+ IPT+ I+D+NC+P+L P+P NDD ++I+ TAI +G+
Sbjct: 182 KLGIPTISILDTNCDPDLADIPIPANDDAIASIKLILNKLTTAICEGRS 230
>gnl|CDD|183428 PRK12311, rpsB, 30S ribosomal protein S2/unknown domain fusion
protein; Provisional.
Length = 326
Score = 117 bits (294), Expect = 5e-31
Identities = 75/226 (33%), Positives = 101/226 (44%), Gaps = 53/226 (23%)
Query: 69 VKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDG 128
++ + +A VH GH+ + +M PYI+G R I DL Q+ LL AL V+ + G
Sbjct: 1 MRQLLEAGVHFGHQSHRWNPKMAPYIFGTRNNIHIIDLAQTVPLLHRALQAVSDTVAKGG 60
Query: 129 IVLFVGQSAQNSLLIEKTAQDC-QEFAHTRFWRQGMFTN--------------------- 166
VLFVG Q + A+ Q F ++R W G TN
Sbjct: 61 RVLFVGTKRQAQDAVADAAKRSAQYFVNSR-WLGGTLTNWKTISGSIQRLRKLDEVLSSG 119
Query: 167 ----------------SEKLFRAVTR------LPDL--VILTNTLTTVLEPNPAIGEAAK 202
+KL RA+ LPDL VI TN + + AI EA +
Sbjct: 120 EANGYTKKERLTLQRERDKLDRALGGIKDMGGLPDLLFVIDTN------KEDIAIQEAQR 173
Query: 203 MCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKG 248
+ IP IVD+NC+P+ ITYPVPGNDD AI YC + A + G
Sbjct: 174 LGIPVAAIVDTNCDPDGITYPVPGNDDAGRAIALYCDLIARAAIDG 219
>gnl|CDD|188101 TIGR01012, Sa_S2_E_A, ribosomal protein Sa(cytosolic)/S2(archaeal).
This model describes the ribosomal protein of the
cytosol and of Archaea, homologous to S2 of bacteria. It
is designated typically as Sa in eukaryotes and Sa or S2
in the archaea. TIGR01011 describes the related protein
of organelles and bacteria [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 196
Score = 58.6 bits (142), Expect = 2e-10
Identities = 47/165 (28%), Positives = 77/165 (46%), Gaps = 14/165 (8%)
Query: 66 LVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQ-GQIIFDLDQSAELLRDALNFVAHIA 124
LV V A VH+G + M+ +IY VR G + DL ++ E LR A F+ I
Sbjct: 3 LVPVDMYLAAGVHIGTQN--KTFDMEKFIYKVRSDGLYVLDLRKTDERLRVAAKFLVRIE 60
Query: 125 YRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTN-SEKLFRAVTRLPDLVIL 183
+D +V+ Q +L + A RF G FTN +K FR P++V++
Sbjct: 61 PQDILVVSARIYGQKPVLKFAKYTGARAIA-GRF-TPGTFTNPMQKSFRE----PEVVVV 114
Query: 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGND 228
T+ + A+ EA+++ IP V + D++ + +P N+
Sbjct: 115 TDPRAD----HQAVKEASEVGIPIVALCDTDNPLRYVDLVIPTNN 155
>gnl|CDD|235201 PRK04020, rps2P, 30S ribosomal protein S2; Provisional.
Length = 204
Score = 50.7 bits (122), Expect = 1e-07
Identities = 44/172 (25%), Positives = 77/172 (44%), Gaps = 30/172 (17%)
Query: 66 LVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQ-GQIIFDLDQSAELLRDALNFVAHIA 124
LV +++ A VH+G + + D M+ +IY VR G + D+ ++ E +R A F++
Sbjct: 9 LVPLEEYLAAGVHIGTQQKTKD--MERFIYRVRPDGLYVLDVRKTDERIRIAAKFLSRYE 66
Query: 125 YRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHT--------RFWRQGMFTN-SEKLFRAVT 175
+V+ Q Q + Q+FA RF G TN S K +
Sbjct: 67 PEKILVVSSRQYGQKPV---------QKFAEVVGAKAITGRFI-PGTLTNPSLKGYIE-- 114
Query: 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGN 227
PD+V++T+ A+ EA ++ IP V + D++ + + +P N
Sbjct: 115 --PDVVVVTDPRGDA----QAVKEAIEVGIPVVALCDTDNLTSNVDLVIPTN 160
>gnl|CDD|240331 PTZ00254, PTZ00254, 40S ribosomal protein SA; Provisional.
Length = 249
Score = 44.3 bits (105), Expect = 2e-05
Identities = 45/169 (26%), Positives = 75/169 (44%), Gaps = 15/169 (8%)
Query: 69 VKDMFDAKVHLGHKIGSLDERMKPYIYGVRQ-GQIIFDLDQSAELLRDALNFVAHIAYRD 127
+K M K H+G K +L+ MK Y+Y + G I +L ++ E L+ A +A I
Sbjct: 15 IKKMLACKCHIGTK--NLENAMKKYVYKRTKEGVHIINLAKTWEKLKLAARVIAAIENPA 72
Query: 128 GIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTN--SEKLFRAVTRLPDLVILTN 185
+V+ V + K AQ A + G FTN +K P L+I+T+
Sbjct: 73 DVVV-VSSRPYGQRAVLKFAQYTGASAIAGRFTPGTFTNQIQKKFME-----PRLLIVTD 126
Query: 186 TLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAI 234
T + AI EA+ + IP + + D++ + +P N+ +I
Sbjct: 127 PRTD----HQAIREASYVNIPVIALCDTDSPLEYVDIAIPCNNRGKESI 171
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 29.9 bits (68), Expect = 1.3
Identities = 10/27 (37%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 94 IYGVRQGQIIFDLDQSAELLRDALNFV 120
I G++ G+I+FD ++EL +AL+ +
Sbjct: 218 IIGLKAGRIVFDG-PASELTDEALDEI 243
>gnl|CDD|153290 cd07606, BAR_SFC_plant, The Bin/Amphiphysin/Rvs (BAR) domain of the
plant protein SCARFACE (SFC). BAR domains are
dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions including organelle biogenesis, membrane
trafficking or remodeling, and cell division and
migration. The plant protein SCARFACE (SFC), also called
VAscular Network 3 (VAN3), is a plant ACAP (ArfGAP with
Coiled-coil, ANK repeat and PH domain containing
protein), an Arf GTPase Activating Protein (GAP) that
plays a role in the trafficking of auxin efflux
regulators from the plasma membrane to the endosome. It
is required for the normal vein patterning in leaves.
SCF contains an N-terminal BAR domain, followed by a
Pleckstrin Homology (PH) domain, an Arf GAP domain, and
C-terminal ankyrin (ANK) repeats. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions.
Length = 202
Score = 28.6 bits (64), Expect = 2.3
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 103 IFDLDQSAELLRD-ALNFVAHI-AYRDGIV-LFVGQSA-QNSL 141
+ +L+ SA+ LRD +L YRD + + G SA SL
Sbjct: 3 LQELEGSADELRDRSLKLYKGCRKYRDALGEAYDGDSAFAESL 45
>gnl|CDD|180570 PRK06457, PRK06457, pyruvate dehydrogenase; Provisional.
Length = 549
Score = 28.3 bits (63), Expect = 5.7
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 50 EVPNPLRYHDYFQVRNLVKVKD 71
+V + + HDYFQ NL K+ D
Sbjct: 99 QVESDMIGHDYFQEVNLTKLFD 120
>gnl|CDD|184958 PRK14996, PRK14996, TetR family transcriptional regulator;
Provisional.
Length = 192
Score = 27.4 bits (61), Expect = 6.4
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 83 IGSLDERMKPYIYGVRQGQIIFDLD 107
+GS D R +PYI R+ QI+ D D
Sbjct: 87 LGSEDGRFEPYIRLWREAQILADRD 111
>gnl|CDD|178351 PLN02750, PLN02750, oxidoreductase, 2OG-Fe(II) oxygenase family
protein.
Length = 345
Score = 27.6 bits (61), Expect = 8.0
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 40 TESKDTSQEPEVPNPLRYHDYFQVRNLVKVKDMFD 74
TE K + EV NP+ YHD +N+ K++FD
Sbjct: 84 TEEKRKVKRDEV-NPMGYHDSEHTKNIRDWKEVFD 117
>gnl|CDD|219867 pfam08495, FIST, FIST N domain. The FIST N domain is a novel
sensory domain, which is present in signal transduction
proteins from Bacteria, Archaea and Eukarya. Chromosomal
proximity of FIST-encoding genes to those coding for
proteins involved in amino acid metabolism and transport
suggest that FIST domains bind small ligands, such as
amino acids.
Length = 196
Score = 26.9 bits (60), Expect = 9.6
Identities = 12/41 (29%), Positives = 18/41 (43%)
Query: 104 FDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIE 144
DL+ AE R+ + + R +VL G S L+E
Sbjct: 75 DDLEDGAEAGRELVEALPSDGNRFALVLSDGLSGNEEELLE 115
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
0.319 0.135 0.396
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,139,405
Number of extensions: 1220795
Number of successful extensions: 995
Number of sequences better than 10.0: 1
Number of HSP's gapped: 988
Number of HSP's successfully gapped: 32
Length of query: 268
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 173
Effective length of database: 6,723,972
Effective search space: 1163247156
Effective search space used: 1163247156
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: 58 (26.1 bits)