RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8906
(180 letters)
>gnl|CDD|214535 smart00139, MyTH4, Domain in Myosin and Kinesin Tails. Domain
present twice in myosin-VIIa, and also present in 3
other myosins.
Length = 152
Score = 70.1 bits (172), Expect = 1e-15
Identities = 34/101 (33%), Positives = 50/101 (49%), Gaps = 5/101 (4%)
Query: 2 ERAMRKDSLLTELYLQLIKQTTDHPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAH 61
++ + L E+Y QLIKQ TD+P S R W LL L S+ P+ RL+ YL+
Sbjct: 53 QKGLDHPELRDEIYCQLIKQLTDNPSRQS--EERGWQLLYLCTSLFPPSERLL-PYLLQF 109
Query: 62 LKRCSSDCVSEEGKYARFAEKCVLKTQGTRRRQWPPSREEI 102
L R + E A++ + +T R+ PPSR E+
Sbjct: 110 LSRRADP--GSEQGLAKYCLYRLERTLKNGARKQPPSRLEL 148
>gnl|CDD|216118 pfam00784, MyTH4, MyTH4 domain. Domain in myosin and kinesin
tails, present twice in myosin-VIIa, and also present in
3 other myosins.
Length = 106
Score = 55.4 bits (134), Expect = 1e-10
Identities = 31/105 (29%), Positives = 49/105 (46%), Gaps = 10/105 (9%)
Query: 2 ERAMRKDSLLTELYLQLIKQTTDHPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAH 61
++ +++ L E+Y Q+IKQTT +P S LR W LL L P+ ++ KYL
Sbjct: 12 QQGIKRPELRDEIYCQIIKQTTKNPSKQS--ALRGWELLYLCTGTFPPSEEIL-KYLSQF 68
Query: 62 LKRCSSDCVSEEGKYARFAEKCVLKTQGTRRRQWPPSREEILCTI 106
L + A + ++ + +T R+ PPSR EI
Sbjct: 69 LHK-------RAHGLAAYCQERLKRTFKNGTRKQPPSRLEIEALK 106
>gnl|CDD|214604 smart00295, B41, Band 4.1 homologues. Also known as
ezrin/radixin/moesin (ERM) protein domains. Present in
myosins, ezrin, radixin, moesin, protein tyrosine
phosphatases. Plasma membrane-binding domain. These
proteins play structural and regulatory roles in the
assembly and stabilization of specialized plasmamembrane
domains. Some PDZ domain containing proteins bind one or
more of this family. Now includes JAKs.
Length = 201
Score = 34.2 bits (79), Expect = 0.018
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 113 ARFYFMDGSYHAVEFHPSATARDAVALIRAKLGLRD 148
+ Y +DG+ E S TA + + + KLG+R+
Sbjct: 2 LKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRE 37
>gnl|CDD|239837 cd04372, RhoGAP_chimaerin, RhoGAP_chimaerin: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of chimaerins. Chimaerins are a family
of phorbolester- and diacylglycerol-responsive GAPs
specific for the Rho-like GTPase Rac. Chimaerins exist
in two alternative splice forms that each contain a
C-terminal GAP domain, and a central C1 domain which
binds phorbol esters, inducing a conformational change
that activates the protein; one splice form is lacking
the N-terminal Src homology-2 (SH2) domain. 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 = 194
Score = 30.6 bits (69), Expect = 0.30
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 25 HPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKRCSS 67
+P+ R+ H AL+ L PAH +YL+ HLKR +
Sbjct: 104 ISNPDERLEAVHEALMLLP-----PAHYETLRYLMEHLKRVTL 141
>gnl|CDD|216027 pfam00620, RhoGAP, RhoGAP domain. GTPase activator proteins
towards Rho/Rac/Cdc42-like small GTPases.
Length = 152
Score = 28.7 bits (65), Expect = 1.2
Identities = 21/58 (36%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 8 DSLLT-ELYLQLIKQTTDHPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKR 64
+ LLT ELY + I + D RV L L PA+R +YL+AHL R
Sbjct: 69 EPLLTFELYEEFI-EAAKSEDEEERVEALRELLRKLP-----PANRDTLRYLLAHLNR 120
>gnl|CDD|185577 PTZ00363, PTZ00363, rab-GDP dissociation inhibitor; Provisional.
Length = 443
Score = 29.2 bits (66), Expect = 1.2
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 24 DHPDPNSRVNLRHWALLCLACSVVLPAHRLVRKYLVAHLKRCSSDCVSEEGKY 76
+HP PN+ +C +++P +L RK + + S+ V +GKY
Sbjct: 307 NHPIPNTNNAN--------SCQIIIPQKQLGRKNDIYIMLVSSNHGVCPKGKY 351
>gnl|CDD|219518 pfam07692, Fea1, Low iron-inducible periplasmic protein. In
Chlamydomonas reinhardtii, the gene encoding
Fe-assimilating protein 1 is induced by iron deficiency.
In green algae, this protein is periplasmic. The two
paralogues FEA1 and FEA2 are the major proteins secreted
by iron-deficient Chlamydomonas reinhardtii, and both
are up-regulated in response to iron deficiency. FEA1
but not FEA2 is up-regulated by high CO2 concentration.
Both FEA1 and FEA2 are secreted into the periplasmic
space and genetic evidence confirms that their
association with the cell is required for growth in low
iron.
Length = 359
Score = 28.4 bits (63), Expect = 1.9
Identities = 9/31 (29%), Positives = 14/31 (45%)
Query: 138 ALIRAKLGLRDGALGYAIYEVGTLGYTIYEV 168
L+ A G D + + V TL Y +E+
Sbjct: 109 FLLGAADGDGDATIAKGVIGVSTLKYAAHEM 139
>gnl|CDD|238090 cd00159, RhoGAP, RhoGAP: GTPase-activator protein (GAP) for
Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small
GTPases. Small GTPases (G proteins) cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when bound
to GDP. The Rho family of small G proteins, which
includes Cdc42Hs, activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. G proteins 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. The
RhoGAPs are one of the major classes of regulators of
Rho G proteins.
Length = 169
Score = 27.7 bits (62), Expect = 2.9
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 9/60 (15%)
Query: 7 KDSLLT-ELYLQLIKQTTDHPDPNSRVNLRHWALLCLACSVVLP-AHRLVRKYLVAHLKR 64
+ L+ ELY + I+ + L+ LL LP +R + KYL+ L +
Sbjct: 67 PEPLIPFELYDEFIELAKIEDEEERIEALK--ELLKS-----LPPENRDLLKYLLKLLHK 119
>gnl|CDD|238427 cd00831, CHS_like, Chalcone and stilbene synthases; plant-specific
polyketide synthases (PKS) and related enzymes, also
called type III PKSs. PKS generate an array of different
products, dependent on the nature of the starter
molecule. They share a common chemical strategy, after
the starter molecule is loaded onto the active site
cysteine, a carboxylative condensation reation extends
the polyketide chain. Plant-specific PKS are dimeric
iterative PKSs, using coenzyme A esters to deliver
substrate to the active site, but they differ in the
choice of starter molecule and the number of
condensation reactions.
Length = 361
Score = 27.6 bits (62), Expect = 4.0
Identities = 16/59 (27%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 42 LACSVVLPAHRLVRKYLVAHLKRCSSDCVSEEGKYARFAEKCVLKTQGTRRRQWPPSRE 100
LA +P HR+ + LV +R S E K + C TR P E
Sbjct: 5 LAIGTAVPPHRVPQSELVDFYRRLFSSDHLPELK-EKLKRLCAKTGIETRYLVLPGGEE 62
>gnl|CDD|191151 pfam04988, AKAP95, A-kinase anchoring protein 95 (AKAP95).
A-kinase (or PKA)-anchoring protein AKAP95 is implicated
in mitotic chromosome condensation by acting as a
targeting molecule for the condensin complex. The
protein contains two zinc fingers which are thought to
mediate the binding of AKAP95 to DNA.
Length = 165
Score = 27.0 bits (60), Expect = 4.2
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 26 PDPNSRVNLRHW-----ALLCLACSVVLPAHR-LVRKYLVAHL 62
D + H+ A+ C AC V++PA ++K+L +
Sbjct: 74 QDLMKGIGQEHFMKKVEAVHCSACDVLIPALFSSLQKHLKSPD 116
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
0.325 0.139 0.429
Gapped
Lambda K H
0.267 0.0621 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,382,632
Number of extensions: 860668
Number of successful extensions: 1050
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1047
Number of HSP's successfully gapped: 18
Length of query: 180
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 89
Effective length of database: 6,901,388
Effective search space: 614223532
Effective search space used: 614223532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.6 bits)