RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026460
(238 letters)
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 142 bits (361), Expect = 9e-41
Identities = 77/239 (32%), Positives = 125/239 (52%), Gaps = 23/239 (9%)
Query: 6 NLWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
+ W+D ++ +V +L+ ++ L++LR + ++ + + +LAE E D A
Sbjct: 43 DFWNDQERAQKVTKELSSLKAKLDTLEELRQRLDDLEELLELAEEED-DEETLAEAEAEL 101
Query: 66 LDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRG 125
+ K L E+ +LL G D A +TI AG+ G + WA LL MY+RWA++ G++
Sbjct: 102 KALEKKLAALELERLLSGEYDANNAILTIHAGAGGTEAQDWASMLLRMYLRWAERHGFKV 161
Query: 126 RVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLIN---FPNG-----SFPHEATL 177
V+D + G+KSAT + + YA+GYL ETG H L+ F + SF
Sbjct: 162 EVLDYSEGEEAGIKSATFKIKGPYAYGYLKSETGVHRLVRISPFDSAGRRHTSF------ 215
Query: 178 ACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVR 231
A V+V P ++ + +++I+ +DL + S S G Q + K A I HIPTGI V+
Sbjct: 216 ASVEVYPE-VDDTIEIEINPKDLRIDTYRS-SGAGG-QHVNKTDSAVRITHIPTGIVVQ 271
>gnl|CDD|232785 TIGR00020, prfB, peptide chain release factor 2. In many but not
all taxa, there is a conserved real translational
frameshift at a TGA codon. RF-2 helps terminate
translation at TGA codons and can therefore regulate its
own production by readthrough when RF-2 is insufficient.
There is a PFAM model called "RF-1" for the superfamily
of RF-1, RF-2, mitochondrial, RF-H, etc [Protein
synthesis, Translation factors].
Length = 364
Score = 121 bits (304), Expect = 1e-32
Identities = 70/231 (30%), Positives = 113/231 (48%), Gaps = 9/231 (3%)
Query: 6 NLWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
N W+D ++ V+ + + V++ L++L+ E+ + +LA E D F
Sbjct: 43 NFWNDQERAQAVIKERSSLEAVLDTLEELKNSLEDLSELLELAV-EEDDEETFNELDAEL 101
Query: 66 LDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRG 125
+ K L + E+ +L G D A +TI+AG+ G + WA L MY+RWA++ G++
Sbjct: 102 KALEKKLAELELRTMLSGEYDANNAYLTIQAGAGGTEAQDWASMLYRMYLRWAERRGFKV 161
Query: 126 RVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLIN---FPNGSFPHEATLACVDV 182
++D + G+KS TI + YA+GYL E G H L+ F H + A V V
Sbjct: 162 EIIDYSEGEEAGIKSVTILIKGPYAYGYLKSEQGVHRLVRISPFDANGRRH-TSFASVFV 220
Query: 183 VPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAACIQHIPTGIAV 230
+P + D++I EDL + + G+ + A I HIPTGI V
Sbjct: 221 MPEVDDDI-DIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVV 270
>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 106 bits (266), Expect = 3e-27
Identities = 69/234 (29%), Positives = 120/234 (51%), Gaps = 14/234 (5%)
Query: 6 NLWDDPTKSNEVLVK---LADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAY 62
N W+D ++ E+ + L D L N L++ + E+ +++ ++ E D + K
Sbjct: 5 NFWNDIKEAQEITSEEKYLKDKLDKYNHLRN---RIEDIEVLCEMMSEE--DDEMKKEII 59
Query: 63 RASLDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEG 122
++ + +D++++ LL G D A +T+ +G G + W E LL MY RWA+K+G
Sbjct: 60 SEVKNIKEEIDRFKIETLLSGEYDRNNAILTLHSGVGGTDAQDWTEMLLRMYTRWAEKKG 119
Query: 123 YRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLINFP--NGSFPHEATLACV 180
Y+ ++D G+KS T++ E+A+GYL E G H L+ N + + + A V
Sbjct: 120 YKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQTSFASV 179
Query: 181 DVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAACIQHIPTGIAVR 231
+V+P L D++I EDL + + G+ + + A I HIPTGI V+
Sbjct: 180 EVLPE-LTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQ 232
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 89.7 bits (222), Expect = 3e-21
Identities = 64/212 (30%), Positives = 105/212 (49%), Gaps = 11/212 (5%)
Query: 26 KVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKL-LDQYEMSKLLRGP 84
K V + D+ +A + LAE E + A A LD + +++ E ++ G
Sbjct: 4 KTVIGIADVLSGLADAGELLDLAESEQDEDTA--LAVIADLDKYQAHVEKLEFQRMFSGQ 61
Query: 85 NDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIE 144
D A V I+AG+ G + WAE LL MY+RWA+ G++ +++ + G+KSAT+
Sbjct: 62 MDGANAFVDIQAGAGGTEAQDWAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVR 121
Query: 145 FEFEYAFGYLSGETGAHCLIN---FPNGSFPHEATLACVDVVPLFLETSPDLQISDEDL- 200
E EYA+G+L E G H L+ F + + H + V V P ++ + ++ I+ DL
Sbjct: 122 IEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRH-TSFTSVFVSPE-VDDNIEIDINPADLR 179
Query: 201 --LFSSPSLPGERQSIAKPAACIQHIPTGIAV 230
++ S G+ + + A I HIPT V
Sbjct: 180 TDVYRSSGAGGQHVNKTESAVRITHIPTNTVV 211
>gnl|CDD|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional.
Length = 339
Score = 87.2 bits (216), Expect = 3e-20
Identities = 63/233 (27%), Positives = 115/233 (49%), Gaps = 13/233 (5%)
Query: 6 NLWDDPTKSNEVL---VKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAY 62
+LW+D ++ +++ +L DS +N + L + + + E E D + + A
Sbjct: 7 SLWNDAQEAQKLMRERQQLDDS---INGINHLEQTLNDNIELIAMGEEEG-DKSIVEDAE 62
Query: 63 RASLDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEG 122
+ D+ +D+ ++ LL G D + + AG+ G + WA LL MY RWA+++G
Sbjct: 63 KTIRDLKDEIDRRQIDALLSGEADANDTYLEVHAGAGGTESQDWASMLLRMYTRWAERQG 122
Query: 123 YRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLINF-PNGSFPHEAT-LACV 180
+ V++ + G+KSATI + A+G+L E+G H L+ P S T A +
Sbjct: 123 RKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHTSFASI 182
Query: 181 DVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAACIQHIPTGIAV 230
V P+ ++ + ++ +++ D+ + S G+ + A I HIPTGI V
Sbjct: 183 WVYPV-IDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVV 234
>gnl|CDD|224107 COG1186, PrfB, Protein chain release factor B [Translation,
ribosomal structure and biogenesis].
Length = 239
Score = 85.0 bits (211), Expect = 5e-20
Identities = 56/148 (37%), Positives = 81/148 (54%), Gaps = 8/148 (5%)
Query: 90 ASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIEFEFEY 149
A +TI AG+ G + WA LL MY RWA+++G++ V+D + G+KSAT++ + E
Sbjct: 1 AYLTIHAGAGGTEAQDWASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGEN 60
Query: 150 AFGYLSGETGAHCLI-NFPNGSFPHEAT-LACVDVVPLFLETSPDLQISDEDLLFSS--P 205
A+GYL ETG H L+ P S T A V+V P S +++I D+DL +
Sbjct: 61 AYGYLKTETGVHRLVRISPFDSNGRRHTSFASVEVFPELDI-SIEIEIPDDDLRIDTYRA 119
Query: 206 SLPGERQSIAK--PAACIQHIPTGIAVR 231
S G Q + K A + H+PTGI V
Sbjct: 120 SGAGG-QHVNKTDSAVRLTHLPTGIVVL 146
>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional.
Length = 326
Score = 85.6 bits (211), Expect = 1e-19
Identities = 68/239 (28%), Positives = 106/239 (44%), Gaps = 27/239 (11%)
Query: 7 LWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASL 66
WDD + V+ + NALKD+ K + + + E I + L K Y L
Sbjct: 6 FWDDQQGAQAVINE-------ANALKDMVGKFRQ---LDETFENLEITHELLKEEYDEDL 55
Query: 67 ------DVSKL---LDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRW 117
+V L +++YE+ LL P D A + + G+ G + W LL MY RW
Sbjct: 56 HEELESEVKGLIQEMNEYELQLLLSDPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRW 115
Query: 118 ADKEGYRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLIN---FPNGSFPHE 174
A+K G++ VD G+KS T+ + A+GYL E G H L+ F + H
Sbjct: 116 AEKRGFKVETVDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHT 175
Query: 175 ATLACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAACIQHIPTGIAV 230
+ ++C +VVP F ++++ EDL + + G+ + A I H PT V
Sbjct: 176 SFVSC-EVVPEF-NDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVV 232
>gnl|CDD|217573 pfam03462, PCRF, PCRF domain. This domain is found in peptide
chain release factors.
Length = 115
Score = 79.5 bits (197), Expect = 3e-19
Identities = 39/113 (34%), Positives = 62/113 (54%), Gaps = 4/113 (3%)
Query: 49 EMEAIDYGLFKRAYRASLDVSKLLDQYEM----SKLLRGPNDVEGASVTIKAGSNGICPE 104
E D L + A ++ K L++ E L P D + A + I+AG+ G +
Sbjct: 3 LEEEDDPELREEAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGAGGTEAQ 62
Query: 105 IWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSGE 157
++AE LL MY R+A+++G++ V+D + GG+K AT+E E E A+GYL E
Sbjct: 63 LFAEDLLRMYQRYAERKGWKVEVIDYSEGEEGGIKEATLEIEGEGAYGYLKFE 115
>gnl|CDD|214923 smart00937, PCRF, This domain is found in peptide chain release
factors.
Length = 116
Score = 77.5 bits (192), Expect = 2e-18
Identities = 37/122 (30%), Positives = 65/122 (53%), Gaps = 10/122 (8%)
Query: 37 KAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQYEMSKLLRG-PNDVEGASVTIK 95
+ EE + +LAE E ++ + L++ LL PND + A + I+
Sbjct: 4 EEEEDDEMRELAEEEL---------EELEAELEEELEELLKLLLLPKDPNDDKNAILEIR 54
Query: 96 AGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLS 155
AG+ G ++A LL MY+R+A+++G++ V+D+ + GG+K AT++ E A+G L
Sbjct: 55 AGAGGDEAALFAGDLLRMYLRYAERKGWKVEVLDESEGELGGIKEATLKISGEGAYGKLK 114
Query: 156 GE 157
E
Sbjct: 115 FE 116
>gnl|CDD|129130 TIGR00019, prfA, peptide chain release factor 1. This model
describes peptide chain release factor 1 (PrfA, RF-1),
and excludes the related peptide chain release factor 2
(PrfB, RF-2). RF-1 helps recognize and terminate
translation at UAA and UAG stop codons. The
mitochondrial release factors are prfA-like, although
not included above the trusted cutoff for this model.
RF-1 does not have a translational frameshift [Protein
synthesis, Translation factors].
Length = 360
Score = 61.6 bits (150), Expect = 3e-11
Identities = 58/243 (23%), Positives = 101/243 (41%), Gaps = 31/243 (12%)
Query: 6 NLWDDPTKSNEVLVKLADSLKVV---NALKDLRYKAEEAKLIAQ--------LAEMEAID 54
+ D K ++ + + ++V + + +EAK I + +A+ E
Sbjct: 27 EVISDQDKLRKLSKEYSQLEEIVDCYREYQQAQEDIKEAKEILEESDPEMREMAKEELE- 85
Query: 55 YGLFKRAYRASLDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMY 114
+ +L +Q ++ L + PND + + I+AG+ G I+A L MY
Sbjct: 86 --------ELEEKIEELEEQLKVLLLPKDPNDEKNVILEIRAGTGGDEAAIFAGDLFRMY 137
Query: 115 VRWADKEGYRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLINFP----NGS 170
R+A+ +G++ ++ + GG K E + + + L E+G H + P G
Sbjct: 138 SRYAESKGWKVEILSANETELGGYKEVIAEIKGDGVYSRLKFESGVHRVQRVPVTESQGR 197
Query: 171 FPHEATLACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAACIQHIPTG 227
H + A V V+P E D I+ DL F S G+ + A I H+PTG
Sbjct: 198 I-HTSA-ATVAVMPELEEVEVD--INPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTG 253
Query: 228 IAV 230
I V
Sbjct: 254 IVV 256
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 48.4 bits (116), Expect = 9e-07
Identities = 45/156 (28%), Positives = 73/156 (46%), Gaps = 14/156 (8%)
Query: 84 PNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATI 143
PND + + I+AG+ G ++A L MY R+A+ +G++ ++ + GG K
Sbjct: 108 PNDDKNIILEIRAGTGGDEAALFAGDLFRMYSRYAESKGWKVEILSASESELGGYKEIIA 167
Query: 144 EFEFEYAFGYLSGETGAHCLINFP----NGSFPHEATLACVDVVPLFLETSPDLQISDED 199
+ + L E+G H + P G H + A V V+P +E +++I+ +D
Sbjct: 168 SISGKGVYSRLKFESGVHRVQRVPATESQGRI-HTSA-ATVAVLPE-VEEVEEIEINPKD 224
Query: 200 L---LFSSPSLPGERQSIAK--PAACIQHIPTGIAV 230
L F S S G Q + A I H+PTGI V
Sbjct: 225 LRIDTFRS-SGAGG-QHVNTTDSAVRITHLPTGIVV 258
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 40.4 bits (96), Expect = 4e-04
Identities = 40/163 (24%), Positives = 71/163 (43%), Gaps = 40/163 (24%)
Query: 16 EVLVKLADSLKVVNALKDLRYKAEEAKLIAQ---------LAEMEAIDYGLFKRAYRASL 66
E +V+ K A +DL EEAK + + +A+ E + L
Sbjct: 45 EPIVEAYREYK--QAQEDL----EEAKEMLEEESDPEMREMAKEEL-------KELEERL 91
Query: 67 DVSKLLDQYEMSKLL--RGPNDVEGASVTIKAGSNGICPE--IWAEQLLNMYVRWADKEG 122
+ L++ E+ LL + PND + + I+AG+ G E ++A L MY R+A+++G
Sbjct: 92 EE---LEE-ELKILLLPKDPNDDKNVILEIRAGTGG--DEAALFAGDLFRMYSRYAERQG 145
Query: 123 YRGRVVDKCCCKN----GGVKSATIEFEFEYAFGYLSGETGAH 161
++ ++ + GG K E + + L E+G H
Sbjct: 146 WKVEILS----ASEGELGGYKEVIAEISGDGVYSKLKFESGVH 184
>gnl|CDD|180905 PRK07246, PRK07246, bifunctional ATP-dependent DNA helicase/DNA
polymerase III subunit epsilon; Validated.
Length = 820
Score = 33.1 bits (76), Expect = 0.13
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 13 KSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLL 72
K + LV + + +V D Y E AK + +L +++ LF + + L VS LL
Sbjct: 609 KKQDQLVVVDQDMPLVTETSDEVYAEEIAKRLEELKQLQQPILVLFN-SKKHLLAVSDLL 667
Query: 73 DQYEMSKLLRGPN 85
DQ+++S L + N
Sbjct: 668 DQWQVSHLAQEKN 680
>gnl|CDD|238414 cd00799, INT_Cre, Cre recombinase, C-terminal catalytic domain.
Cre-like recombinases belong to the superfamily of DNA
breaking-rejoining enzymes, which share the same fold in
their catalytic domain and the overall reaction
mechanism. The bacteriophage P1 Cre recombinase
maintains the circular phage replicon in a monomeric
state by catalyzing a site-specific recombination
between two loxP sites. The catalytic core domain of
Cre recombinase is linked to a more divergent helical
N-terminal domain, which interacts primarily with the
DNA major groove proximal to the crossover region.
Length = 287
Score = 30.8 bits (70), Expect = 0.46
Identities = 27/119 (22%), Positives = 39/119 (32%), Gaps = 18/119 (15%)
Query: 16 EVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKL-LDQ 74
E L KL L + L+DLR A + L GL +R+ L L
Sbjct: 98 EDLDKLRSLLDESDTLRDLRDLA-----LLLLGF-----AGLLRRSELVRLRWEDLTFTD 147
Query: 75 YEMSKLL--RGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWAD-KEGYRGRVVDK 130
+ R D G V CP + L ++ A +G R +D+
Sbjct: 148 GGGLLVTLRRSKTDQSGLGVLKLIPPLTTCP----VRALERWLEAARIPKGPLFRRIDR 202
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 30.5 bits (70), Expect = 0.77
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 18/68 (26%)
Query: 42 KLIAQLAEMEA-IDY-----------GLFKRAYRASLDVSKLLDQYEMSKLLRGPNDVEG 89
+L+ LA +EA ID+ + ++ ++ LL ++LR EG
Sbjct: 161 ELLELLALVEAAIDFPEEDIEFLSDEKILEKLEELIAELEALLASARQGEILR-----EG 215
Query: 90 ASVTIKAG 97
V I AG
Sbjct: 216 LKVVI-AG 222
>gnl|CDD|234570 PRK00009, PRK00009, phosphoenolpyruvate carboxylase; Reviewed.
Length = 911
Score = 29.3 bits (67), Expect = 1.8
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 8/39 (20%)
Query: 180 VDVVPLFLETSPDLQISD---EDLLFSSPSLPGERQSIA 215
+ VVPLF ET DL+ + LL SLP R IA
Sbjct: 523 LPVVPLF-ETIEDLRNAADVMRQLL----SLPWYRGLIA 556
>gnl|CDD|226908 COG4531, ZnuA, ABC-type Zn2+ transport system, periplasmic
component/surface adhesin [Inorganic ion transport and
metabolism].
Length = 318
Score = 28.9 bits (65), Expect = 2.0
Identities = 12/49 (24%), Positives = 21/49 (42%)
Query: 4 NYNLWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEA 52
+ +LW P + V +A L ++ +Y A AQLA ++
Sbjct: 150 DMHLWLSPAIAKAVAAAIAKKLAELDPQNAAKYDANLKDFEAQLAALDK 198
>gnl|CDD|173712 cd05622, STKc_ROCK1, Catalytic domain of the Protein
Serine/Threonine Kinase, Rho-associated coiled-coil
containing protein kinase 1. Serine/Threonine Kinases
(STKs), ROCK subfamily, ROCK1 (or ROK-beta) isoform,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The ROCK subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. ROCK contains an N-terminal
extension, a catalytic kinase domain, and a C-terminal
extension, which contains a coiled-coil region
encompassing a Rho-binding domain (RBD) and a
pleckstrin homology (PH) domain. ROCK is auto-inhibited
by the RBD and PH domain interacting with the catalytic
domain, and is activated via interaction with Rho
GTPases. ROCK1 is preferentially expressed in the
liver, lung, spleen, testes, and kidney. It mediates
signaling from Rho to the actin cytoskeleton. It is
implicated in the development of cardiac fibrosis,
cardiomyocyte apoptosis, and hyperglycemia. Mice
deficient with ROCK1 display eyelids open at birth
(EOB) and omphalocele phenotypes due to the
disorganization of actin filaments in the eyelids and
the umbilical ring.
Length = 371
Score = 28.8 bits (64), Expect = 2.6
Identities = 14/52 (26%), Positives = 27/52 (51%)
Query: 28 VNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQYEMSK 79
+N ++DLR KAE+ +++ + + L + + KLL ++EM K
Sbjct: 32 INKIRDLRMKAEDYEVVKVIGRGAFGEVQLVRHKSTRKVYAMKLLSKFEMIK 83
>gnl|CDD|132757 cd07072, NR_LBD_DHR38_like, Ligand binding domain of DHR38_like
proteins, members of the nuclear receptor superfamily.
The ligand binding domain of nuclear receptor DHR38_like
proteins: DHR38 is a member of the steroid receptor
superfamily in Drosophila. DHR38 interacts with the USP
component of the ecdysone receptor complex, suggesting
that DHR38 might modulate ecdysone-triggered signals in
the fly, in addition to the ECR/USP pathway. At least
four differentially expressed mRNA isoforms have been
detected during development. Like other members of the
nuclear receptor (NR) superfamily of ligand-activated
transcription factors, DHR38 has a central well
conserved DNA binding domain (DBD), a variable
N-terminal domain, a flexible hinge and a C-terminal
ligand binding domain (LBD).
Length = 239
Score = 28.6 bits (64), Expect = 2.6
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 180 VDVVPLFLETSP---DLQISDEDLLFSSPSL 207
+DV+ F E P DL D++LLF S SL
Sbjct: 55 IDVIKTFAEKIPGFPDLCKEDQELLFQSASL 85
>gnl|CDD|176714 cd09012, Glo_EDI_BRP_like_24, This conserved domain belongs to a
superfamily including the bleomycin resistance protein,
glyoxalase I, and type I ring-cleaving dioxygenases.
This protein family belongs to a conserved domain
superfamily that is found in a variety of structurally
related metalloproteins, including the bleomycin
resistance protein, glyoxalase I, and type I
ring-cleaving dioxygenases. A bound metal ion is
required for protein activities for the members of this
superfamily. A variety of metal ions have been found in
the catalytic centers of these proteins including
Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein
superfamily contains members with or without domain
swapping.
Length = 124
Score = 27.9 bits (63), Expect = 2.7
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 10 DPTKSNEVLVKL-ADSLKVVNALKDLRYKAEEA 41
D KS EVL+ L ADS + V+ L + KA A
Sbjct: 63 DTKKSTEVLISLSADSREEVDELVE---KALAA 92
>gnl|CDD|224958 COG2047, COG2047, Uncharacterized protein (ATP-grasp superfamily)
[General function prediction only].
Length = 258
Score = 28.5 bits (64), Expect = 2.8
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 10 DPTKSNEVLVKLADSLKVVNALKDLRYKAEE-AKLIAQLAEMEA 52
DP + VL L L + ++ L +A+E ++I +L EME
Sbjct: 197 DPKAAKAVLEVLCKMLGIEIDMEALEERAKEMEEIIEKLKEMEE 240
>gnl|CDD|219855 pfam08463, EcoEI_R_C, EcoEI R protein C-terminal. The restriction
enzyme EcoEI recognises 5'-GAGN(7)ATGC-3' and is
composed of the three proteins R, M, and S. The domain
described here is found at the C-terminus of the R
protein (HsdR) which is required for both nuclease and
ATPase activity.
Length = 162
Score = 28.0 bits (63), Expect = 2.9
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 7 LWDDPTKSNEVLVKLADSLKVVNALKDLR-----YKAEEAKLIAQLAEMEAIDYGLFKRA 61
LW++P + E L +L + L L Y+ A L + + +D L R
Sbjct: 27 LWNNPPLTREDLKELEEKLIDDEELFSEERLQEAYEDIAADLFDLIRHLVGLDAPLLTRE 86
Query: 62 YRASLDVSKLLDQY 75
R SK L ++
Sbjct: 87 ERVEAAFSKFLAEH 100
>gnl|CDD|132356 TIGR03313, Se_sel_red_Mo, probable selenate reductase,
molybdenum-binding subunit. Our comparative genomics
suggests this protein family to be a subunit of a
selenium-dependent molybdenum hydroxylase, although the
substrate is not specified. This protein is suggested by
Bebien, et al., to be the molybdenum-binding subunit of
a molydbopterin-containing selenate reductase. Xi, et
al, however, show that mutation of this gene in E. coli
conferred sensitivity to adenine, suggesting a defect in
purine interconversion. This finding, plus homology of
nearby genes in a 23-gene purine catabolism region in E.
coli to xanthine dehydrogase subunits suggests xanthine
dehydrogenase activity.
Length = 951
Score = 28.8 bits (64), Expect = 3.3
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 155 SGETGAHCLINFPNGSFPHEATLACV 180
+ G H +INFP GS P + A V
Sbjct: 332 ADPRGEHMIINFPIGSRPRKNIAASV 357
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 28.2 bits (63), Expect = 4.3
Identities = 17/38 (44%), Positives = 19/38 (50%), Gaps = 9/38 (23%)
Query: 168 NGSFPHEATLACVDVVPLFLETSPDLQISDE--DLLFS 203
NG + C DV TSPDL ISD DL+FS
Sbjct: 79 NGHY-KNVKFMCADV------TSPDLNISDGSVDLIFS 109
>gnl|CDD|185285 PRK15387, PRK15387, E3 ubiquitin-protein ligase SspH2; Provisional.
Length = 788
Score = 28.2 bits (62), Expect = 4.9
Identities = 15/37 (40%), Positives = 22/37 (59%)
Query: 29 NALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
N +KD +KA+ + +AQLAE EA+ F A A+
Sbjct: 541 NFIKDAGFKAQISSWLAQLAEDEALRANTFAMATEAT 577
>gnl|CDD|181449 PRK08491, PRK08491, NADH dehydrogenase subunit C; Provisional.
Length = 263
Score = 27.3 bits (61), Expect = 6.1
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 8/39 (20%)
Query: 17 VLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDY 55
+ +K D+ KV+ LK L Y+ L+EM AID+
Sbjct: 61 IWIKKDDNFKVLKILKHLGYE--------CLSEMSAIDF 91
>gnl|CDD|173698 cd05607, STKc_GRK7, Catalytic domain of the Protein
Serine/Threonine Kinase, G protein-coupled Receptor
Kinase 7. Serine/Threonine Kinases (STKs), G
protein-coupled Receptor Kinase (GRK) subfamily, GRK7
isoform, catalytic (c) domain. STKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. The GRK
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. GRKs phosphorylate and regulate G
protein-coupled receptors (GPCRs), the largest
superfamily of cell surface receptors, which regulate
some part of nearly all physiological functions.
Phosphorylated GPCRs bind to arrestins, which prevents
further G protein signaling despite the presence of
activating ligand. There are seven types of GRKs, named
GRK1 to GRK7. GRK7, also called iodopsin kinase, belongs
to the visual group of GRKs. It is primarily found in
the retina and plays a role in the regulation of opsin
light receptors. GRK7 is located in retinal cone outer
segments and plays an important role in regulating
photoresponse of the cones.
Length = 277
Score = 27.2 bits (60), Expect = 6.9
Identities = 12/31 (38%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 88 EGASVTIKAGSNG-ICPEIWAEQLLNMYVRW 117
+G ++T +AG+NG + PEI E+ + V W
Sbjct: 147 DGKTITQRAGTNGYMAPEILKEEPYSYPVDW 177
>gnl|CDD|237019 PRK11907, PRK11907, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 814
Score = 27.5 bits (61), Expect = 7.7
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 86 DVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVV 128
D EG VT+ G GI P Q+LN W DK G+V+
Sbjct: 257 DTEGKKVTLNIGITGIVP----PQILN----W-DKANLEGKVI 290
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 0.135 0.405
Gapped
Lambda K H
0.267 0.0857 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,017,787
Number of extensions: 1123601
Number of successful extensions: 945
Number of sequences better than 10.0: 1
Number of HSP's gapped: 927
Number of HSP's successfully gapped: 37
Length of query: 238
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 144
Effective length of database: 6,768,326
Effective search space: 974638944
Effective search space used: 974638944
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 (21.7 bits)
S2: 57 (25.5 bits)