RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14335
(273 letters)
>gnl|CDD|215149 PLN02265, PLN02265, probable phenylalanyl-tRNA synthetase beta
chain.
Length = 597
Score = 256 bits (656), Expect = 1e-81
Identities = 100/191 (52%), Positives = 120/191 (62%), Gaps = 33/191 (17%)
Query: 30 TDEEFASLCFAFGLELDEVTSEKQIISKEQGADNSKG----ASEDVIYRIDVPANRYDLL 85
T EEF LCF FG+ELD+VT+EK II KE+ D + E+VIY+IDVPANRYDLL
Sbjct: 20 TQEEFDELCFEFGIELDDVTTEKAIIRKEKHLDEEEDGGADDDEEVIYKIDVPANRYDLL 79
Query: 86 CLEGL------YNGLM-----------------------TSQIRPHAVAAVLRNITLNEE 116
CLEGL + G TS IRP V AVLR +T +E
Sbjct: 80 CLEGLARALRVFLGTEPIPTYRLAEISKGSILKMHVKPETSLIRPFVVCAVLRGVTFDEA 139
Query: 117 RYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKPPSEIRFQPLNQTKEYSG 176
RY SFI+LQDKLHQNICR+RTLVAIGTHDLDT++GPF Y+A PP +I F PL QTK +
Sbjct: 140 RYNSFIDLQDKLHQNICRRRTLVAIGTHDLDTLQGPFTYEALPPEDINFVPLKQTKSFRA 199
Query: 177 TEIMDLYATSQ 187
E+M+ Y +
Sbjct: 200 DELMEFYKSDM 210
Score = 167 bits (424), Expect = 9e-48
Identities = 58/88 (65%), Positives = 69/88 (78%)
Query: 185 TSQIRPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIY 244
TS IRP V AVLR +T +E RY SFI+LQDKLHQNICR+RTLVAIGTHDLDT++GPF Y
Sbjct: 119 TSLIRPFVVCAVLRGVTFDEARYNSFIDLQDKLHQNICRRRTLVAIGTHDLDTLQGPFTY 178
Query: 245 DAKPPSEIRFQPLNQTKEYTGTEIMDLY 272
+A PP +I F PL QTK + E+M+ Y
Sbjct: 179 EALPPEDINFVPLKQTKSFRADELMEFY 206
>gnl|CDD|232989 TIGR00471, pheT_arch, phenylalanyl-tRNA synthetase, beta subunit.
Every known example of the phenylalanyl-tRNA synthetase,
except the monomeric form of mitochondrial, is an alpha
2 beta 2 heterotetramer. The beta subunits break into
two subfamilies that are considerably different in
sequence, length, and pattern of gaps. This model
represents the subfamily that includes the beta subunit
from eukaryotic cytosol, the Archaea, and spirochetes
[Protein synthesis, tRNA aminoacylation].
Length = 551
Score = 131 bits (331), Expect = 5e-35
Identities = 56/179 (31%), Positives = 78/179 (43%), Gaps = 41/179 (22%)
Query: 29 GTDEEFASLCFAFGLELDEVTSEKQIISKEQGADNSKGASEDVIYRIDVPANRYDLLCLE 88
+ + + DE+ +G D E +++ NR DLL +E
Sbjct: 15 LIGTDRDEILEELPMMGDEI----------EGFDE-----ESPEIKVEFNPNRPDLLSVE 59
Query: 89 GLYNGL--------------------------MTSQIRPHAVAAVLRNITLNEERYASFI 122
GL L QIRP AV++ I LN++ S I
Sbjct: 60 GLARSLRGYLGIEKGLKSYDSKKGDVKLTVDESVLQIRPFITGAVVKGIILNDKVLESLI 119
Query: 123 ELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKPPSEIRFQPLNQTKEYSGTEIMD 181
ELQ+KLH NI R R VAIG HDLD ++ PF Y A P+ I+F PLN +E + EI++
Sbjct: 120 ELQEKLHWNIGRNRRKVAIGIHDLDKVEFPFHYKAVSPNGIKFVPLNSDQEMTPDEILE 178
>gnl|CDD|236592 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 552
Score = 100 bits (252), Expect = 4e-24
Identities = 60/200 (30%), Positives = 83/200 (41%), Gaps = 55/200 (27%)
Query: 9 DLRLSDLLRTLVLPSTVAGHG-TDEEFASLCFAFGLELDEVTSEKQIISKEQGADNSKGA 67
+ DL R + G D+E L E++E+
Sbjct: 5 RVNKDDLER-------LIGIDLEDDELEDLLPMLKCEVEEI------------------- 38
Query: 68 SEDVIYRIDVPANRYDLLCLEGLYNGL--------------------------MTSQIRP 101
ED +I+ +R DLL +EGL L +IRP
Sbjct: 39 -EDDEIKIEFNPDRPDLLSVEGLARALRGFLGIETGLPKYEVKDSDVKVEVDEEVPEIRP 97
Query: 102 HAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKPPS 161
+ AV+R + L++E S I+LQ+KLH I RKR VAIG HDLD IK P Y A P
Sbjct: 98 YIAGAVVRGVKLDDEALKSLIQLQEKLHWTIGRKRKKVAIGIHDLDKIKPPIYYKAVDPD 157
Query: 162 EIRFQPLNQTKEYSGTEIMD 181
E +F PL +E + EI++
Sbjct: 158 E-KFVPLGFDEEMTLREILE 176
Score = 94.9 bits (237), Expect = 4e-22
Identities = 41/85 (48%), Positives = 53/85 (62%), Gaps = 1/85 (1%)
Query: 186 SQIRPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYD 245
+IRP+ AV+R + L++E S I+LQ+KLH I RKR VAIG HDLD IK P Y
Sbjct: 93 PEIRPYIAGAVVRGVKLDDEALKSLIQLQEKLHWTIGRKRKKVAIGIHDLDKIKPPIYYK 152
Query: 246 AKPPSEIRFQPLNQTKEYTGTEIMD 270
A P E +F PL +E T EI++
Sbjct: 153 AVDPDE-KFVPLGFDEEMTLREILE 176
>gnl|CDD|214876 smart00873, B3_4, B3/4 domain. This domain is found in tRNA
synthetase beta subunits as well as in some non tRNA
synthetase proteins.
Length = 174
Score = 60.0 bits (146), Expect = 5e-11
Identities = 17/84 (20%), Positives = 33/84 (39%), Gaps = 6/84 (7%)
Query: 189 RPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKP 248
P + V+R + S LQ++LH+ R + + +++ A
Sbjct: 1 CPRYLGRVIRGVKNT---RPSPEWLQERLHRAGIRP-INNVVDITNYVSLETGQPLHAFD 56
Query: 249 PSEIRFQ--PLNQTKEYTGTEIMD 270
+I+ + PL + KE E +D
Sbjct: 57 LDKIKGKDIPLRRAKEGEKFETLD 80
Score = 59.6 bits (145), Expect = 5e-11
Identities = 17/88 (19%), Positives = 33/88 (37%), Gaps = 8/88 (9%)
Query: 100 RPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKP 159
P + V+R + S LQ++LH+ R + + +++ A
Sbjct: 1 CPRYLGRVIRGVKNT---RPSPEWLQERLHRAGIRP-INNVVDITNYVSLETGQPLHAFD 56
Query: 160 PSEIRFQ--PLNQTKEYSGTEIMDLYAT 185
+I+ + PL + KE G + L
Sbjct: 57 LDKIKGKDIPLRRAKE--GEKFETLDGK 82
>gnl|CDD|223150 COG0072, PheT, Phenylalanyl-tRNA synthetase beta subunit
[Translation, ribosomal structure and biogenesis].
Length = 650
Score = 50.3 bits (121), Expect = 5e-07
Identities = 20/150 (13%), Positives = 48/150 (32%), Gaps = 7/150 (4%)
Query: 31 DEEFASLCFAFGLELDEVTSEKQIISKEQGADNSKGASEDVIYRIDVPANRYDLLCLEG- 89
A G+ + + + D +++ A +Y G
Sbjct: 21 TPNRADCLSMLGIARELAAEYDLKLEFPKIRDLESAEGLARKIFLEIEAGKYACPRYAGR 80
Query: 90 LYNGLMTSQIRPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIGTHDLDTI 149
+ G+ + P + A LR + + + +++ + +H + + R IG D
Sbjct: 81 VIKGVKVNAPSPLWLQARLRGVGIR--PINNLVDITNYVHLELGQPRHAFDIGKIDG--- 135
Query: 150 KGPFIYDAKPPSEIRFQPLNQTKEYSGTEI 179
+ AK + F + + +G +
Sbjct: 136 -KIPVRYAKEGETLVFLDGKERELLTGDLV 164
Score = 50.3 bits (121), Expect = 5e-07
Identities = 17/97 (17%), Positives = 36/97 (37%), Gaps = 7/97 (7%)
Query: 172 KEYSGTEIMDLYATSQIRPHAVAAVLRNITLNEERYASFIELQDKLHQNICRKRTLVAIG 231
Y+G I + + P + A LR + + + +++ + +H + + R IG
Sbjct: 75 PRYAGRVIKGVK-VNAPSPLWLQARLRGVGIR--PINNLVDITNYVHLELGQPRHAFDIG 131
Query: 232 THDLDTIKGPFIYDAKPPSEIRFQPLNQTKEYTGTEI 268
D + AK + F + + TG +
Sbjct: 132 KIDG----KIPVRYAKEGETLVFLDGKERELLTGDLV 164
>gnl|CDD|173643 cd05077, PTK_Jak1_rpt1, Pseudokinase (repeat 1) domain of the
Protein Tyrosine Kinase, Janus kinase 1. Protein
Tyrosine Kinase (PTK) family; Janus kinase 1 (Jak1);
pseudokinase domain (repeat 1). The PTKc (catalytic
domain) family to which this subfamily belongs, is part
of a larger superfamily that includes the catalytic
domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Jak1 is a
member of the Janus kinase (Jak) subfamily of proteins,
which are cytoplasmic (or nonreceptor) tyr kinases
containing an N-terminal FERM domain, followed by a Src
homology 2 (SH2) domain, a pseudokinase domain, and a
C-terminal tyr kinase domain. The pseudokinase domain
shows similarity to tyr kinases but lacks crucial
residues for catalytic activity and ATP binding. It
modulates the kinase activity of the C-terminal
catalytic domain. Jaks are crucial for cytokine receptor
signaling. They are activated by autophosphorylation
upon cytokine-induced receptor aggregation, and
subsequently trigger downstream signaling events such as
the phosphorylation of signal transducers and activators
of transcription (STATs). Jak1 is widely expressed in
many tissues. Many cytokines are dependent on Jak1 for
signaling, including those that use the shared receptor
subunits common gamma chain (IL-2, IL-4, IL-7, IL-9,
IL-15, IL-21) and gp130 (IL-6, IL-11, oncostatin M,
G-CSF, and IFNs, among others). The many varied
interactions of Jak1 and its ubiquitous expression
suggest many biological roles. Jak1 is important in
neurological development, as well as in lymphoid
development and function. It also plays a role in the
pathophysiology of cardiac hypertrophy and heart
failure. A mutation in the ATP-binding site of Jak1 was
identified in a human uterine leiomyosarcoma cell line,
resulting in defective cytokine induction and antigen
presentation, thus allowing the tumor to evade the
immune system.
Length = 262
Score = 31.1 bits (70), Expect = 0.51
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 120 SFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKP 159
S++E +D +H N+C K L+A +D GPFI + P
Sbjct: 119 SYLEDKDLVHGNVCTKNILLA--REGIDGECGPFIKLSDP 156
Score = 31.1 bits (70), Expect = 0.51
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 209 SFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKP 248
S++E +D +H N+C K L+A +D GPFI + P
Sbjct: 119 SYLEDKDLVHGNVCTKNILLA--REGIDGECGPFIKLSDP 156
>gnl|CDD|202662 pfam03483, B3_4, B3/4 domain. This domain is found in tRNA
synthetase beta subunits as well as in some non tRNA
synthetase proteins.
Length = 159
Score = 29.4 bits (67), Expect = 1.1
Identities = 10/58 (17%), Positives = 22/58 (37%), Gaps = 7/58 (12%)
Query: 207 YASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKPPSEIRFQPLNQTKEYT 264
+ +++ + + + + + DLD I G + E +F L+ KE
Sbjct: 20 INNVVDITNYVMLELGQ-----PLHAFDLDKIAGDIVVRLAKGGE-KFTTLDG-KERE 70
Score = 29.4 bits (67), Expect = 1.3
Identities = 8/55 (14%), Positives = 21/55 (38%), Gaps = 6/55 (10%)
Query: 118 YASFIELQDKLHQNICRKRTLVAIGTHDLDTIKGPFIYDAKPPSEIRFQPLNQTK 172
+ +++ + + + + + DLD I G + E +F L+ +
Sbjct: 20 INNVVDITNYVMLELGQ-----PLHAFDLDKIAGDIVVRLAKGGE-KFTTLDGKE 68
>gnl|CDD|202094 pfam02025, IL5, Interleukin 5.
Length = 112
Score = 27.9 bits (62), Expect = 2.4
Identities = 16/57 (28%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 74 RIDVPANRYDLLCLEGLYNGLMT---SQIRPHAVAAVLRNITLNEERYASFIELQDK 127
RI VP ++ LC+E ++ G+ T ++ AV + +N++L ++ +I+ Q K
Sbjct: 30 RIPVPTHKNHQLCIEEIFQGIDTLKNQTVQGGAVEKLFQNLSLIKK----YIDRQKK 82
>gnl|CDD|179235 PRK01153, PRK01153, nicotinamide-nucleotide adenylyltransferase;
Provisional.
Length = 174
Score = 28.3 bits (64), Expect = 2.8
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 162 EIRFQPLNQTKEYSGTEIMDLYAT----SQIRPHAVAAVLRNI 200
E+R P+ +EYSGTEI ++ P +VA V++ I
Sbjct: 115 EVRQPPMFNREEYSGTEIRRRMIEGDPWEELVPKSVAEVIKEI 157
>gnl|CDD|237739 PRK14510, PRK14510, putative bifunctional
4-alpha-glucanotransferase/glycogen debranching enzyme;
Provisional.
Length = 1221
Score = 29.1 bits (65), Expect = 2.8
Identities = 27/122 (22%), Positives = 46/122 (37%), Gaps = 25/122 (20%)
Query: 43 LELDEVTSEKQIISKEQGADNSKGA-----SEDVIYRIDVPANRYDLLCL-EGLYNGLMT 96
L +D V +++ QGA +GA E++ ++ + + R + E L G +
Sbjct: 1024 LRIDHVRGLERLFEVPQGASAKEGAYLKGPGEELFGQVALESQRAQCPVIGEDL--GTIP 1081
Query: 97 SQIRPHAVAAVLRNITLNEERYASFIELQ-------DKLHQNICRKRTLVAIGTHDLDTI 149
S +R L S+ LQ + L + +GTHDL T+
Sbjct: 1082 SGVREL----------LAILGILSYRVLQFERLGEGNFLPPPLYNALAAAYVGTHDLPTL 1131
Query: 150 KG 151
G
Sbjct: 1132 AG 1133
Score = 28.3 bits (63), Expect = 6.1
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 224 KRTLVAIGTHDLDTIKG 240
+GTHDL T+ G
Sbjct: 1117 ALAAAYVGTHDLPTLAG 1133
>gnl|CDD|217039 pfam02446, Glyco_hydro_77, 4-alpha-glucanotransferase. These
enzymes EC:2.4.1.25 transfer a segment of a
(1,4)-alpha-D-glucan to a new 4-position in an acceptor,
which may be glucose or (1,4)-alpha-D-glucan.
Length = 493
Score = 28.1 bits (63), Expect = 5.3
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 134 RKRTLVAIGTHDLDTIKG 151
+ ++V GTHD DT++G
Sbjct: 374 PENSVVYTGTHDNDTLRG 391
Score = 28.1 bits (63), Expect = 5.3
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 223 RKRTLVAIGTHDLDTIKG 240
+ ++V GTHD DT++G
Sbjct: 374 PENSVVYTGTHDNDTLRG 391
>gnl|CDD|188593 TIGR04078, rSAM_yydG, peptide modification radical SAM enzyme, YydG
family. Members of this radical SAM protein family for
peptide modification occur only in the context of
members of family TIGR04077, which average about 50
amino acids in length. In Bacillus subtilis, this
protein (YydG) appears to act on its cognate target
peptide (YydF) prior to its export, and result in the
creation of a signaling molecule that induces the LiaRS
two-component system [Regulatory functions, Protein
interactions].
Length = 309
Score = 27.9 bits (62), Expect = 6.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 110 NITLNEERYASFIELQDKLHQNI 132
N+ L E F E +DK + N+
Sbjct: 227 NLRLGSEGDQDFSETEDKFNSNL 249
Score = 27.9 bits (62), Expect = 6.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 199 NITLNEERYASFIELQDKLHQNI 221
N+ L E F E +DK + N+
Sbjct: 227 NLRLGSEGDQDFSETEDKFNSNL 249
>gnl|CDD|179883 PRK04833, PRK04833, argininosuccinate lyase; Provisional.
Length = 455
Score = 28.0 bits (63), Expect = 6.7
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 8/49 (16%)
Query: 88 EGLYNGLMTSQIRPHAVAAVLRNITLNEER--------YASFIELQDKL 128
EGL++ L T H A VL I + R YA+ EL D L
Sbjct: 326 EGLFDALDTWLDCLHMAALVLDGIQVKRPRCQEAAQQGYANATELADYL 374
>gnl|CDD|225835 COG3298, COG3298, Predicted 3'-5' exonuclease related to the
exonuclease domain of PolB [DNA replication,
recombination, and repair].
Length = 122
Score = 26.4 bits (58), Expect = 10.0
Identities = 17/72 (23%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 145 DLDTIKGPFIYDAKPPSEIRFQPLNQTKEYSGTEIMDLYATSQIRPHAVAAVLRNITLNE 204
D+ I+ F + EI + KE SG+E + LY + +++AV + +
Sbjct: 14 DVQLIRTLFDLEGSLDLEIVLFAQQKQKEKSGSEFLPLYLHQIV---SISAVWGDDYGHF 70
Query: 205 ERYASFIELQDK 216
+ +F EL +
Sbjct: 71 IKVGNFFELIEN 82
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 0.136 0.387
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,888,436
Number of extensions: 1320793
Number of successful extensions: 1020
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1010
Number of HSP's successfully gapped: 34
Length of query: 273
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 178
Effective length of database: 6,723,972
Effective search space: 1196867016
Effective search space used: 1196867016
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: 58 (26.1 bits)