RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17466
(226 letters)
>gnl|CDD|218839 pfam05983, Med7, MED7 protein. This family consists of several
eukaryotic proteins which are homologues of the yeast
MED7 protein. Activation of gene transcription in
metazoans is a multi-step process that is triggered by
factors that recognise transcriptional enhancer sites in
DNA. These factors work with co-activators such as MED7
to direct transcriptional initiation by the RNA
polymerase II apparatus.
Length = 161
Score = 177 bits (452), Expect = 5e-57
Identities = 73/164 (44%), Positives = 104/164 (63%), Gaps = 7/164 (4%)
Query: 7 QVSSLPLPPVQYINNYTDELIRRGRAPKPPLPIHDSYSMFGNQFNADDTIIRPLESQGIK 66
Q+SSL PP Y +TDE + P PP P SY +FG ++ +D + LESQGI+
Sbjct: 1 QISSLYPPPPPYYKLFTDENLELRFLPPPPPPTEGSYRVFGETYSLED-KLPSLESQGIE 59
Query: 67 RLYPQ----HFDRRRELRKLNHSLLVNFLDLIDLLVQCPDSPRRTEKVEDISLLFIHIHH 122
+LYP DR+ EL+KLN SLL+NFL+L+ +LV P+ + K+ED+ LLFI+ HH
Sbjct: 60 QLYPTSCDASEDRKEELKKLNKSLLLNFLELLGILVINPEQYEK--KIEDLRLLFINAHH 117
Query: 123 LLNEFRPHQARETLRVMMELQRRQRNETSQRFHVHLDRVNQILN 166
LLNE+RPHQARE+L ++ME Q ++ E + L+ V ++L
Sbjct: 118 LLNEYRPHQARESLIMLMEEQLDEKREEIEAIRKVLEEVREVLE 161
>gnl|CDD|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.
Length = 681
Score = 33.2 bits (77), Expect = 0.093
Identities = 22/105 (20%), Positives = 38/105 (36%), Gaps = 14/105 (13%)
Query: 77 RELRKLNHSLLVNFLDLIDLLVQCPDSPRRTEKVEDISLLFIHIHHLLNEFRPHQARETL 136
+ LRKL L L +LL P+ + ++ IH ++ H AR L
Sbjct: 161 KTLRKLIKQALELLDALPELL---PEELLEKYGLLSLAEALRAIHFPPSDEDLHPARRRL 217
Query: 137 RVMMEL--------QRRQRNETSQRFHVHLDRVNQILNQAIENLP 173
EL R + + + D ++L + + +LP
Sbjct: 218 -KFEELFALQLSLLLLRAGRRSKKAGPLPYD--GELLKKFLASLP 259
>gnl|CDD|184344 PRK13816, PRK13816, ribosome-binding factor A; Provisional.
Length = 131
Score = 28.3 bits (63), Expect = 1.8
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 15/66 (22%)
Query: 130 HQARETLRVM--------MELQRRQRNETSQRFHVHLDRVNQ-------ILNQAIENLPD 174
RETL V+ EL RR + + R H D+ N ++ +A+++LP
Sbjct: 65 VAHRETLDVLNKASGFLRTELSRRIKTRITPRLRFHYDKTNAYGNYMFGLIEKAVQDLPK 124
Query: 175 TDLDSK 180
+ D +
Sbjct: 125 RESDDE 130
>gnl|CDD|239856 cd04391, RhoGAP_ARHGAP18, RhoGAP_ARHGAP18: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP18-like proteins. The function of ArhGAP18 is
unknown. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 216
Score = 27.3 bits (61), Expect = 5.3
Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 11/80 (13%)
Query: 79 LRKLNHSLLVNFLDLIDLLVQCPDSPRRTEKVEDISLLFIHIHHLLNEFRPHQARETLRV 138
+R+L LL + + P + ++++ ++LL LL P R+TL+
Sbjct: 87 IRELPQPLLTV--EYLPAFYSVQGLPSKKDQLQALNLLV----LLL----PEANRDTLKA 136
Query: 139 MME-LQRRQRNETSQRFHVH 157
++E LQ+ +E + ++
Sbjct: 137 LLEFLQKVVDHEEKNKMNLW 156
>gnl|CDD|232981 TIGR00456, argS, arginyl-tRNA synthetase. This model recognizes
arginyl-tRNA synthetase in every completed genome to
date. An interesting feature of the alignment of all
arginyl-tRNA synthetases is a fairly deep split between
two families. One family includes archaeal, eukaryotic
and organellar, spirochete, E. coli, and Synechocystis
sp. The second, sharing a deletion of about 25 residues
in the central region relative to the first, includes
Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and
Mycobacteria, and the Gram-negative bacterium
Helicobacter pylori [Protein synthesis, tRNA
aminoacylation].
Length = 566
Score = 27.7 bits (62), Expect = 5.7
Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 11/81 (13%)
Query: 126 EFRPHQARETLRVMMELQRRQRNETSQRFHVHLDR--------VNQILNQAIENLPDTDL 177
E +A + + ++E ET R ++H D N ++ + +E+L + L
Sbjct: 220 ESGDEEAIKLWKRLVEYSLEGIKETLARLNIHFDSFVWEGESVKNGMVPKVLEDLKEKGL 279
Query: 178 ---DSKLLINTDDFNSNDSNR 195
D L ++ F D +R
Sbjct: 280 VVEDGALWLDLTLFGDKDKDR 300
>gnl|CDD|164775 PHA00009, F, capsid protein.
Length = 427
Score = 27.5 bits (61), Expect = 7.1
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 151 SQRFHVHLDRVNQILNQA-----IENLPDTDLDSKLLINTDDFN 189
Q + DRV N LP TDL ++L+ TD+++
Sbjct: 349 GQWYRTQPDRVAFPYNALDGFPFYSALPSTDLQERVLVRTDNYD 392
>gnl|CDD|178024 PLN02402, PLN02402, cytidine deaminase.
Length = 303
Score = 27.1 bits (60), Expect = 7.6
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 167 QAIENLPDTDLDSKLLINTDDFNSNDSNRKDDASVDGVNPYDRLM 211
Q I + PD K+LI T D NSNDS + A P L+
Sbjct: 112 QEIRDAPDI----KILI-TGDSNSNDSYKNSLADSQQFEPLSCLL 151
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 0.138 0.405
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,857,049
Number of extensions: 1131838
Number of successful extensions: 1131
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1126
Number of HSP's successfully gapped: 29
Length of query: 226
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 133
Effective length of database: 6,812,680
Effective search space: 906086440
Effective search space used: 906086440
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: 57 (25.7 bits)