RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16786
(211 letters)
>gnl|CDD|219951 pfam08644, SPT16, FACT complex subunit (SPT16/CDC68). Proteins in
this family are subunits the FACT complex. The FACT
complex plays a role in transcription initiation and
promotes binding of TATA-binding protein (TBP) to a TATA
box in chromatin.
Length = 152
Score = 112 bits (282), Expect = 9e-32
Identities = 46/96 (47%), Positives = 66/96 (68%), Gaps = 11/96 (11%)
Query: 64 LKDLTYRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEES 123
+K+LT+RS + + +L VF+ IKE+QK+ + RE E KEK D+V+Q+KL +
Sbjct: 67 IKELTFRSKDSK----------HLQDVFKAIKELQKRVKKRETERKEKADVVEQEKLILN 116
Query: 124 RSKGNPKLKDLYMRPNIV-MKRMTGSLEAHVNGFRY 158
R+K P+LKD+Y+RP I KR+ G+LEAH NGFRY
Sbjct: 117 RNKRPPRLKDVYIRPTITGRKRVPGTLEAHENGFRY 152
Score = 70.7 bits (174), Expect = 1e-15
Identities = 32/81 (39%), Positives = 49/81 (60%), Gaps = 13/81 (16%)
Query: 1 TYRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKG 60
T+RS + + +L VF+ IKE+QK+ + RE E KEK D+V+Q+KL +R+K
Sbjct: 71 TFRSKDSK----------HLQDVFKAIKELQKRVKKRETERKEKADVVEQEKLILNRNKR 120
Query: 61 NPKLKDLTYR---SSNQREPG 78
P+LKD+ R + +R PG
Sbjct: 121 PPRLKDVYIRPTITGRKRVPG 141
>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 1001
Score = 119 bits (300), Expect = 3e-31
Identities = 61/158 (38%), Positives = 90/158 (56%), Gaps = 12/158 (7%)
Query: 55 ESRSKGNPKLKDLTYRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDL 114
+G L+ +T RS ++ +F+ I +++K RE E KE D+
Sbjct: 588 PCEQRGEQFLRSITSRSIR----------GNRMSDLFKEINDLKKGATKRETERKEDADV 637
Query: 115 VKQDKLEESRSKGNPKLKDLYMRPNIVMKRMTGSLEAHVNGFRYTS-VRGD-KVDILYNN 172
++QDKL E + +RP KR G+LE H NG R+ S +R D +DIL++N
Sbjct: 638 LEQDKLIERKLSRTDVYMKTDVRPGSDGKRKPGNLEIHENGIRFQSPLRSDSHIDILFSN 697
Query: 173 IKHAFFQPCDGELVILLHFHLKNAIMFGKKKHVDVQFY 210
IKH FFQ C+GEL++++HFHLK+ I+ GK+K DVQFY
Sbjct: 698 IKHLFFQECNGELIVIIHFHLKSPILTGKRKVQDVQFY 735
Score = 31.5 bits (71), Expect = 0.30
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 14 STPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGNPKLKDLTYRSSN 73
S ++ +F+ I +++K RE E KE D+++QDKL E R + T
Sbjct: 604 SIRGNRMSDLFKEINDLKKGATKRETERKEDADVLEQDKLIE-RKLSRTDVYMKTDVRPG 662
Query: 74 QREPGQPST 82
+P
Sbjct: 663 SDGKRKPGN 671
>gnl|CDD|221489 pfam12252, SidE, Dot/Icm substrate protein. This family of proteins
is found in bacteria. Proteins in this family are
typically between 397 and 1543 amino acids in length.
This family is the SidE protein in the Dot/Icm pathway of
Legionella pneumophila bacteria. There is little
literature describing the family.
Length = 1443
Score = 34.9 bits (80), Expect = 0.025
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 4/120 (3%)
Query: 37 REAEEKEKEDLVKQDKLEESRSKGNPKLKDL---TYRSS-NQREPGQPSTPSTNLNTVFR 92
+ K+ DL DKL + N L + T RSS NQ +P + F
Sbjct: 1230 KHGSSKDPLDLSDLDKLSGNLQGVNQSLVSILITTIRSSLNQMKPKTFEMQEKEIQQNFE 1289
Query: 93 LIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGNPKLKDLYMRPNIVMKRMTGSLEAH 152
L+ +++K + EK +ED+ K L ++ K P++ L + ++ ++ +AH
Sbjct: 1290 LLAKLEKTLDKSDTAEKLREDIPKLKDLLIAKQKAYPEMVQLQYKSEALITQLRELCQAH 1349
Score = 32.2 bits (73), Expect = 0.22
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 1 TYRSS-NQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSK 59
T RSS NQ +P + F L+ +++K + EK +ED+ K L ++ K
Sbjct: 1264 TIRSSLNQMKPKTFEMQEKEIQQNFELLAKLEKTLDKSDTAEKLREDIPKLKDLLIAKQK 1323
Query: 60 GNPKLKDLTYRS 71
P++ L Y+S
Sbjct: 1324 AYPEMVQLQYKS 1335
>gnl|CDD|111553 pfam02667, SCFA_trans, Short chain fatty acid transporter. This
family consists of two sequences annotated as short
chain fatty acid transporters, however, there are no
references giving details of experimental
characterisation of this function.
Length = 453
Score = 31.3 bits (71), Expect = 0.38
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 27 IKEVQKKFRSREAEEKEKEDLVKQ----DKLEESR 57
+K + K +E EE++K K +KLE SR
Sbjct: 218 LKSIDPKLLKKEKEEEKKLKSKKDATIAEKLENSR 252
Score = 31.3 bits (71), Expect = 0.38
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 94 IKEVQKKFRSREAEEKEKEDLVKQ----DKLEESR 124
+K + K +E EE++K K +KLE SR
Sbjct: 218 LKSIDPKLLKKEKEEEKKLKSKKDATIAEKLENSR 252
>gnl|CDD|241142 cd12698, RRM3_PTBPH3, RNA recognition motif 3 in plant
polypyrimidine tract-binding protein homolog 3 (PTBPH3).
This subgroup corresponds to the RRM3 of PTBPH3.
Although its biological roles remain unclear, PTBPH3
shows significant sequence similarity to polypyrimidine
tract binding protein (PTB) that is an important
negative regulator of alternative splicing in mammalian
cells and also functions at several other aspects of
mRNA metabolism, including mRNA localization,
stabilization, polyadenylation, and translation. Like
PTB, PTBPH3 contains four RNA recognition motifs (RRM),
also known as RBD (RNA binding domain) or RNP
(ribonucleoprotein domain). .
Length = 76
Score = 29.1 bits (65), Expect = 0.42
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 165 KVDILYNNIKHAFFQPCDGELVILLHFHLKNAIMFGKKKHVD 206
++ +L+N HA Q DG L +LK A++FGK+ V+
Sbjct: 31 RIKLLHNKPDHALIQMGDGFQAELAVNYLKGAMLFGKRMEVN 72
>gnl|CDD|241140 cd12696, RRM3_PTBP2, RNA recognition motif 3 in vertebrate
polypyrimidine tract-binding protein 2 (PTBP2). This
subgroup corresponds to the RRM3 of PTBP2, also known as
neural polypyrimidine tract-binding protein or
neurally-enriched homolog of PTB (nPTB), highly
homologous to polypyrimidine tract binding protein (PTB)
and perhaps specific to the vertebrates. Unlike PTB,
PTBP2 is enriched in the brain and in some neural cell
lines. It binds more stably to the downstream control
sequence (DCS) RNA than PTB does but is a weaker
repressor of splicing in vitro. PTBP2 also greatly
enhances the binding of two other proteins,
heterogeneous nuclear ribonucleoprotein (hnRNP) H and
KH-type splicing-regulatory protein (KSRP), to the DCS
RNA. The binding properties of PTBP2 and its reduced
inhibitory activity on splicing imply roles in
controlling the assembly of other splicing-regulatory
proteins. PTBP2 contains four RNA recognition motifs
(RRMs), also known as RBD (RNA binding domain) or RNP
(ribonucleoprotein domain). .
Length = 107
Score = 29.2 bits (65), Expect = 0.61
Identities = 23/62 (37%), Positives = 25/62 (40%), Gaps = 8/62 (12%)
Query: 156 FRYTSVRGD--KVDILYNNIKHAFFQPCDGELVILLHFHLKNAIMFGK------KKHVDV 207
F V GD +V ILYN A Q DG L HL M+GK KH V
Sbjct: 32 FTLFGVYGDVQRVKILYNKKDSALIQMADGNQSQLAMSHLNGQKMYGKIIRVTLSKHQTV 91
Query: 208 QF 209
Q
Sbjct: 92 QL 93
>gnl|CDD|232942 TIGR00366, TIGR00366, TIGR00366 family protein. [Hypothetical
proteins, Conserved].
Length = 438
Score = 29.4 bits (66), Expect = 1.4
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 27 IKEVQKKFRSREAEEKEK----EDLVKQDKLEESR 57
+K + K +E EE++K ED +KLE SR
Sbjct: 215 LKSIDPKLLKKEKEEEKKLKKKEDATIAEKLENSR 249
Score = 29.4 bits (66), Expect = 1.4
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 94 IKEVQKKFRSREAEEKEK----EDLVKQDKLEESR 124
+K + K +E EE++K ED +KLE SR
Sbjct: 215 LKSIDPKLLKKEKEEEKKLKKKEDATIAEKLENSR 249
>gnl|CDD|99968 cd03794, GT1_wbuB_like, This family is most closely related to the
GT1 family of glycosyltransferases. wbuB in E. coli is
involved in the biosynthesis of the O26 O-antigen. It
has been proposed to function as an
N-acetyl-L-fucosamine (L-FucNAc) transferase.
Length = 394
Score = 29.1 bits (66), Expect = 1.5
Identities = 6/51 (11%), Positives = 16/51 (31%)
Query: 150 EAHVNGFRYTSVRGDKVDILYNNIKHAFFQPCDGELVILLHFHLKNAIMFG 200
V +K+ ++ N + F+P + + L + +
Sbjct: 174 PGMREYLVRRGVPPEKISVIPNGVDLELFKPPPADESLRKELGLDDKFVVL 224
>gnl|CDD|225871 COG3334, COG3334, Uncharacterized conserved protein [Function
unknown].
Length = 192
Score = 28.6 bits (64), Expect = 1.7
Identities = 12/58 (20%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 92 RLIKEVQKKFRSREAEEKEKEDLVK-QDKLEESRSKGNPKLKDLY--MRPNIVMKRMT 146
+ + EV ++ ++ E ++ E +DL + ++ + S+ + KL +Y M+P+ +
Sbjct: 84 KDLAEVNERLKALEKKKAELKDLEEEREGILRSKQAEDGKLVKIYSKMKPDAAAAILE 141
>gnl|CDD|220821 pfam10602, RPN7, 26S proteasome subunit RPN7. RPN7 (known as the
non ATPase regulatory subunit 6 in higher eukaryotes) is
one of the lid subunits of the 26S proteasome and has
been shown in Saccharomyces cerevisiae to be required
for structural integrity. The 26S proteasome is is
involved in the ATP-dependent degradation of
ubiquitinated proteins.
Length = 174
Score = 27.9 bits (63), Expect = 2.8
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 10/88 (11%)
Query: 92 RLIKEVQKKFRSREAEEKE-KEDLVKQDKLEESRSKGNPKLKDLYMRPNIVMKRMTGSLE 150
L K+ +++ +AE K+ KE+L K E + L + Y + I +L+
Sbjct: 7 ELRKKNEEELEELDAELKDAKENLGK-----EEIRRALLDLAEHYAK--IGDLEN--ALK 57
Query: 151 AHVNGFRYTSVRGDKVDILYNNIKHAFF 178
A+ Y + G K+D+ N I+ F
Sbjct: 58 AYSRAREYCTSLGHKIDMCLNLIRVGIF 85
>gnl|CDD|227415 COG5083, SMP2, Uncharacterized protein involved in plasmid
maintenance [General function prediction only].
Length = 580
Score = 27.5 bits (61), Expect = 5.3
Identities = 15/102 (14%), Positives = 27/102 (26%), Gaps = 18/102 (17%)
Query: 13 PSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKL-------EESRSKGNPKLK 65
P LN + Q+ S K D+V ++ + SR+K
Sbjct: 109 DQDPELILN------EREQESLGSGSDLSKLNFDIVLKEPKNLDIGFRKYSRNKRTENTG 162
Query: 66 DLTYRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAE 107
Y S+++ + S V +
Sbjct: 163 KRMYGQSSRQRGHKDSYHLFEKRFV-----KFGSLLNKTLHF 199
>gnl|CDD|191511 pfam06409, NPIP, Nuclear pore complex interacting protein (NPIP).
This family consists of a series of primate specific
nuclear pore complex interacting protein (NPIP)
sequences. The function of this family is unknown but is
well conserved from African apes to humans.
Length = 350
Score = 27.5 bits (60), Expect = 6.3
Identities = 26/116 (22%), Positives = 45/116 (38%), Gaps = 5/116 (4%)
Query: 2 YRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGN 61
RS+ R+ G L +F L + V+ K R++ + K + DK+ R
Sbjct: 89 RRSNRCRQEGI----KIGLEDIFTLWRHVETKVRAKICKMKVTTKINHHDKINGKRKTAK 144
Query: 62 PKLKDLTYRSSNQREPG-QPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVK 116
L+ L+ + E Q S N + I ++ F+ +A + ED K
Sbjct: 145 EHLRKLSMKECEHAEKERQVSEAEENGKLDMKEIHTYKEMFQRAQALRRRAEDYHK 200
Score = 27.1 bits (59), Expect = 6.7
Identities = 22/96 (22%), Positives = 39/96 (40%), Gaps = 4/96 (4%)
Query: 60 GNPKLKDLTYRSSNQREPGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDK 119
G+ ++ RS+ R+ G L +F L + V+ K R++ + K + DK
Sbjct: 80 GSTDVQQRARRSNRCRQEGI----KIGLEDIFTLWRHVETKVRAKICKMKVTTKINHHDK 135
Query: 120 LEESRSKGNPKLKDLYMRPNIVMKRMTGSLEAHVNG 155
+ R L+ L M+ ++ EA NG
Sbjct: 136 INGKRKTAKEHLRKLSMKECEHAEKERQVSEAEENG 171
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 27.4 bits (61), Expect = 6.8
Identities = 30/121 (24%), Positives = 57/121 (47%), Gaps = 12/121 (9%)
Query: 17 STNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDK-LEESRSKGNPKLKDLTYRSSNQR 75
L + R I+E++++ A +E E+L+++ K LEE K KL+ L
Sbjct: 290 IERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELA 349
Query: 76 EPGQPSTPSTNLNTVFRLIKEVQKKFRSR--EAEEKEKEDLVKQDKLEESRSKGNPKLKD 133
E N + +L++E K+ R E E++ ++ L + +LEE+ + +L +
Sbjct: 350 E---------EKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAE 400
Query: 134 L 134
L
Sbjct: 401 L 401
>gnl|CDD|233508 TIGR01649, hnRNP-L_PTB, hnRNP-L/PTB/hephaestus splicing factor
family. Included in this family of heterogeneous
ribonucleoproteins are PTB (polypyrimidine tract binding
protein ) and hnRNP-L. These proteins contain four RNA
recognition motifs (rrm: pfam00067).
Length = 481
Score = 27.5 bits (61), Expect = 6.8
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 165 KVDILYNNIKHAFFQPCDGELVILLHFHLKNAIMFGKK------KHVDVQ 208
+V + N + A + D L HL +FGK K +VQ
Sbjct: 305 RVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQ 354
>gnl|CDD|235046 PRK02507, PRK02507, proton extrusion protein PcxA; Provisional.
Length = 422
Score = 27.2 bits (61), Expect = 6.9
Identities = 19/117 (16%), Positives = 35/117 (29%), Gaps = 24/117 (20%)
Query: 5 SNQREPGQPSTPSTNLNTVFR---LIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGN 61
N E + + I V ++RS+ +E Q + S +
Sbjct: 85 LNLSELAKAGEEQITETIILEKLQFIDSVISRYRSKSDQESPPLAASSQIETSTSSPSTS 144
Query: 62 PKLKDLTYRSSNQREPGQPSTPSTN------LNTVFRLIKE--------VQKKFRSR 104
+ D + +S + + T L T R+ +E V + FR
Sbjct: 145 NPVNDPSSKS-------ESISQKTGVLPRSILRTFDRIRRELDPEAEEEVVQGFRRS 194
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 27.3 bits (60), Expect = 7.3
Identities = 24/105 (22%), Positives = 42/105 (40%)
Query: 26 LIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGNPKLKDLTYRSSNQREPGQPSTPST 85
+++ KK + +E +EKEKE + K E L D +++ E + S +T
Sbjct: 194 AVEKKSKKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALDDSPASAASVAEADEASLANT 253
Query: 86 NLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGNPK 130
T + K + E ++ K KQ K +E + K
Sbjct: 254 VSGTAPDSEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKKKKH 298
>gnl|CDD|241139 cd12695, RRM3_PTBP1, RNA recognition motif 3 in vertebrate
polypyrimidine tract-binding protein 1 (PTB). This
subgroup corresponds to the RRM3 of PTB, also known as
58 kDa RNA-binding protein PPTB-1 or heterogeneous
nuclear ribonucleoprotein I (hnRNP I), an important
negative regulator of alternative splicing in mammalian
cells. PTB also functions at several other aspects of
mRNA metabolism, including mRNA localization,
stabilization, polyadenylation, and translation. PTB
contains four RNA recognition motifs (RRM), also known
as RBD (RNA binding domain) or RNP (ribonucleoprotein
domain). RRM1 and RRM2 are independent from each other
and separated by flexible linkers. By contrast, there is
an unusual and conserved interdomain interaction between
RRM3 and RRM4. It is widely held that only RRMs 3 and 4
are involved in RNA binding and RRM2 mediates PTB
homodimer formation. However, new evidence show that the
RRMs 1 and 2 also contribute substantially to RNA
binding. Moreover, PTB may not always dimerize to
repress splicing. It is a monomer in solution. .
Length = 93
Score = 25.7 bits (56), Expect = 7.9
Identities = 20/57 (35%), Positives = 25/57 (43%), Gaps = 8/57 (14%)
Query: 161 VRGD--KVDILYNNIKHAFFQPCDGELVILLHFHLKNAIMFGK------KKHVDVQF 209
V GD +V IL+N ++A Q DG L HL + GK KH VQ
Sbjct: 23 VYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGQKLHGKPLRITLSKHQTVQL 79
>gnl|CDD|202558 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus. This family
aligns residues towards the N-terminus of several
proteins with multiple functions. The members of this
family all appear to possess 5'-3' exonuclease activity
EC:3.1.11.-. Thus, the aligned region may be necessary
for 5' to 3' exonuclease function. The family also
contains several Xrn1 and Xrn2 proteins. The 5'-3'
exoribonucleases Xrn1p and Xrn2p/Rat1p function in the
degradation and processing of several classes of RNA in
Saccharomyces cerevisiae. Xrn1p is the main enzyme
catalyzing cytoplasmic mRNA degradation in multiple
decay pathways, whereas Xrn2p/Rat1p functions in the
processing of rRNAs and small nucleolar RNAs (snoRNAs)
in the nucleus.
Length = 237
Score = 26.5 bits (59), Expect = 8.6
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 31 QKKFRS-REAEEKEKEDLVKQDKLEESRSKGNPKLKDLTYRSSNQREPGQP 80
++FR+ ++A+EKE E +++LE K K++ + SN PG P
Sbjct: 98 SRRFRAAKDAKEKEAEAEENREELETEGIKLPEKVEKEKF-DSNCITPGTP 147
>gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit,
predominant form. Bacteria have a single DNA-directed
RNA polymerase, with required subunits that include
alpha, beta, and beta-prime. This model describes the
predominant architecture of the beta-prime subunit in
most bacteria. This model excludes from among the
bacterial mostly sequences from the cyanobacteria, where
RpoC is replaced by two tandem genes homologous to it but
also encoding an additional domain [Transcription,
DNA-dependent RNA polymerase].
Length = 1140
Score = 26.9 bits (60), Expect = 8.9
Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 13/104 (12%)
Query: 27 IKEVQKKFRSREAEEKEKEDLVKQDKLEESRSKGNPKLKDLTYRSSNQREPGQPSTP-ST 85
I EV E K K +V +D+ +E + P L + + G T S
Sbjct: 928 IAEVDGTVEIIEDIVKNKRVVVIKDENDEEKKYTIPFGAQLRVKDGDSVSAGDKLTEGSI 987
Query: 86 NLNTVFR----------LIKEVQKKFRSR--EAEEKEKEDLVKQ 117
+ + + R L+KEVQK +R + E +K E +V+Q
Sbjct: 988 DPHDLLRIKGIQAVQEYLVKEVQKVYRLQGVEINDKHIEVIVRQ 1031
>gnl|CDD|204614 pfam11221, Med21, Subunit 21 of Mediator complex. Med21 has been
known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in
Drosophila. The heterodimer of the two subunits Med7 and
Med21 appears to act as a hinge between the middle and
the tail regions of Mediator.
Length = 132
Score = 26.1 bits (58), Expect = 9.6
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 10 PGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQ 50
PG S+ L + L +E+++ RE KEKE L+K+
Sbjct: 81 PGIESSEEEQLRRIKELEEELREVEAEREEAVKEKEKLLKK 121
Score = 26.1 bits (58), Expect = 9.6
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 77 PGQPSTPSTNLNTVFRLIKEVQKKFRSREAEEKEKEDLVKQ 117
PG S+ L + L +E+++ RE KEKE L+K+
Sbjct: 81 PGIESSEEEQLRRIKELEEELREVEAEREEAVKEKEKLLKK 121
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
0.313 0.131 0.361
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,441,022
Number of extensions: 962999
Number of successful extensions: 1375
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1303
Number of HSP's successfully gapped: 134
Length of query: 211
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 118
Effective length of database: 6,812,680
Effective search space: 803896240
Effective search space used: 803896240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (25.8 bits)