RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2655
(84 letters)
>gnl|CDD|215699 pfam00079, Serpin, Serpin (serine protease inhibitor). Structure
is a multi-domain fold containing a bundle of helices
and a beta sandwich.
Length = 369
Score = 86.9 bits (216), Expect = 5e-22
Identities = 28/72 (38%), Positives = 41/72 (56%)
Query: 12 SSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTND 71
LKIAN+++ K ++L P + + +E+ VDFS P A K++N WV TN
Sbjct: 79 KGYTLKIANRLFVDKGLKLKPDFLQLLKKYYGAEVESVDFSDPAEARKQINSWVEKKTNG 138
Query: 72 KIKDLIKAGNLT 83
KIKDL+ G+L
Sbjct: 139 KIKDLLPEGSLD 150
>gnl|CDD|238101 cd00172, SERPIN, SERine Proteinase INhibitors (serpins) exhibit
conformational polymorphism shifting from native to
cleaved, latent, delta, or polymorphic forms. Many
serpins, such as antitrypsin and antichymotrypsin,
function as serine protease inhibitors which regulate
blood coagulation cascades. Non-inhibitory serpins
perform many diverse functions such as chaperoning
proteins or transporting hormones. Serpins are of
medical interest because mutants have been associated
with blood clotting disorders, emphysema, cirrhosis, and
dementia.
Length = 364
Score = 84.6 bits (210), Expect = 3e-21
Identities = 26/72 (36%), Positives = 42/72 (58%)
Query: 12 SSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTND 71
ELK+AN+++ K + + + A +++E+ VDF+ P AAA ++N+WV TN
Sbjct: 78 KGVELKLANRLFVQKGLTVKEDFLDLAKKYYDAEVESVDFANPEAAAAQINNWVEEKTNG 137
Query: 72 KIKDLIKAGNLT 83
KIKDL+ L
Sbjct: 138 KIKDLLSPDALD 149
>gnl|CDD|214513 smart00093, SERPIN, SERine Proteinase INhibitors.
Length = 359
Score = 69.1 bits (170), Expect = 1e-15
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 15 ELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE-MNDWVSNHTNDKI 73
ELK AN ++ K ++L ++ + +E+ VDFS AK+ +NDWV T KI
Sbjct: 77 ELKTANALFVDKSLKLKDSFLEDIKKLYGAEVQSVDFSDKAEEAKKQINDWVEKKTQGKI 136
Query: 74 KDLIK 78
KDL+
Sbjct: 137 KDLLS 141
>gnl|CDD|238998 cd02043, plant_SERPIN, SERine Proteinase INhibitors (serpins),
plant specific subgroup. It has been suggested that
plant serpins play a role in defense against insect
predators. This subgroup corresponds to clade P of the
serpin superfamily. In general, serpins exhibit
conformational polymorphism shifting from native to
cleaved, latent, delta, or polymorphic forms. Many
serpins, such as antitrypsin and antichymotrypsin,
function as serine protease inhibitors which regulate
blood coagulation cascades. Non-inhibitory serpins
perform many diverse functions such as chaperoning
proteins or transporting hormones.
Length = 381
Score = 56.7 bits (137), Expect = 4e-11
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 14 PELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDF-SQPPAAAKEMNDWVSNHTNDK 72
P L AN ++ K + L P+++ A +++ +E VDF ++ +E+N WV TN
Sbjct: 83 PRLSFANGVWVDKSLSLKPSFKDLAANSYKAEARPVDFRTKAEEVRREVNSWVEKATNGL 142
Query: 73 IKDLIKAG 80
IKD++ G
Sbjct: 143 IKDILPPG 150
>gnl|CDD|239003 cd02048, neuroserpin, Neuroserpin is a inhibitory member of the
SERine Proteinase INhibitor (serpin) family that reacts
preferentially with tissue-type plasminogen activator
(tPA). It is located in neurons in regions of the brain
where tPA is also found, suggesting that neuroserpin is
the selective inhibitor of tPA in the central nervous
system (CNS). This subgroup corresponds to clade I of
the serpin superfamily.
Length = 388
Score = 53.7 bits (129), Expect = 5e-10
Identities = 24/68 (35%), Positives = 36/68 (52%)
Query: 16 LKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKD 75
+AN +Y + + FN+ + VDFSQ A A+ +N WV NHTN+KIKD
Sbjct: 84 FNLANSLYLQNGFHVKEKFLQSNKKYFNAAVKLVDFSQVKAVAEHINKWVENHTNNKIKD 143
Query: 76 LIKAGNLT 83
+ + + T
Sbjct: 144 MFSSRDFT 151
>gnl|CDD|239006 cd02051, PAI-1_nexin-1, Plasminogen activator inhibitor-1_like.
Plasminogen activator inhibitor-1 (PAI-1) is the
primary, fast-acting inhibitor of plasminogen
activators. It is often bound to vitronectin, an
abundant component of the extracellular matrix in many
tissues. Protease nexin-1 is a potent serpin able to
inhibit thrombin, plasmin, and plasminogen activators.
PAI-1 and nexin-1 are members of the serpin superfamily
and represent clade E. In general, SERine Proteinase
INhibitors (serpins) exhibit conformational polymorphism
shifting from native to cleaved, latent, delta, or
polymorphic forms. Many serpins, such as antitrypsin
and antichymotrypsin, function as serine protease
inhibitors which regulate blood coagulation cascades.
Non-inhibitory serpins perform many diverse functions
such as chaperoning proteins or transporting hormones.
Length = 377
Score = 51.0 bits (122), Expect = 4e-09
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 5 RPSNYEISSP----ELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE 60
+ N I S + AN ++ ++ + + + F E+ VDFS P AA
Sbjct: 73 KKLNKAIVSKKNKDIVTTANAVFAQSGFKMEVPFVPRNKEVFQCEVKSVDFSDPETAAFS 132
Query: 61 MNDWVSNHTNDKIKDLIKAG 80
+NDWV N T I +L+
Sbjct: 133 INDWVKNETKGMIDNLLSPD 152
>gnl|CDD|239004 cd02049, bacterial_SERPIN, SERine Proteinase INhibitors (serpins),
prokaryotic subgroup. Little information about specific
functions is available for this subgroup, most likely
they are inhibitory members of the serpin superfamily.
In general, serpins exhibit conformational polymorphism
shifting from native to cleaved, latent, delta, or
polymorphic forms. Many serpins, such as antitrypsin and
antichymotrypsin, function as serine protease
inhibitors.
Length = 364
Score = 49.7 bits (119), Expect = 9e-09
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 13 SPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDK 72
+ EL IAN I+ L P + D + + + ++DF P AAA+E+N WV T K
Sbjct: 82 TVELIIANSIWIEPGFTLKPDFLQTIKDYYQAYVLELDFQSP-AAAEEINRWVKEKTKGK 140
Query: 73 IKDLI 77
I ++
Sbjct: 141 IDKIV 145
>gnl|CDD|239014 cd02059, ovalbumin_like, The ovalbumin_like group of serpins
contains ovalbumin, the squamous cell carcinoma antigen
1 (SCCA1) and other closely related serpins of clade B
of the serpin superfamily. Ovalbumin, the major protein
component of avian egg white, is a non-inhibitory member
of SERine Proteinase INhibitorS (serpins). In contrast,
SCCA1 inhibits cysteine proteinases such as cathepsin S,
K, L, and papain, a so called cross-class serpin.
Length = 389
Score = 48.2 bits (115), Expect = 4e-08
Identities = 25/82 (30%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 2 FNQRPSNYEISSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEM 61
N+ +YE L IAN++Y K + Y + ++L VDF A+++
Sbjct: 91 INKPNDDYE-----LSIANRLYGEKTYPFHQEYLDCVEKLYRAKLEPVDFQNAAEASRKK 145
Query: 62 -NDWVSNHTNDKIKDLIKAGNL 82
N WV + TN KIK+L G +
Sbjct: 146 INSWVESQTNGKIKNLFGKGTI 167
>gnl|CDD|227163 COG4826, COG4826, Serine protease inhibitor [Posttranslational
modification, protein turnover, chaperones].
Length = 410
Score = 47.5 bits (113), Expect = 7e-08
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 12 SSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE-MNDWVSNHTN 70
S EL+ AN ++ +D L Y + +++E+ +DF P A+++ +N WV TN
Sbjct: 118 DSYELETANALWVQEDYPLKENYVNNVRNYYDAEVTNLDFVNKPDASRDTINKWVEEKTN 177
Query: 71 DKIKDLIKAGNLT 83
KIKDL+ +
Sbjct: 178 GKIKDLVPEDYIG 190
>gnl|CDD|239013 cd02058, PAI-2, Plasminogen Activator Inhibitor-2 (PAI-2). PAI-2 is
a serine protease inhibitor that belongs to the
ov-serpin branch of the serpin superfamily. It is is an
effective inhibitor of urinary plasminogen activator
(urokinase or uPA) and is involved in cell
differentiation, tissue growth and regeneration.
Length = 380
Score = 45.1 bits (107), Expect = 4e-07
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 16 LKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAA-KEMNDWVSNHTNDKIK 74
LK AN++Y K + + +E VDF + A KE+N WV T KI+
Sbjct: 87 LKSANRLYGEKTYPFLEKFLQLTQKYYQAEPQAVDFVEAAEQARKEINSWVERQTEGKIQ 146
Query: 75 DLIKAGNL 82
+L+ G++
Sbjct: 147 NLLPPGSV 154
>gnl|CDD|239000 cd02045, antithrombin-III_like, Antithrombin is a serine proteinase
inhibitor (serpin) which controls the process of
coagulation. It is the most important anticoagulant
molecule in mammalian circulation systems, controlled by
its interaction with the co-factor, heparin, which
accelerates its interaction with target proteases, such
as thrombin and factor Xa. This subgroup corresponds to
clade C of the serpin superfamily.
Length = 381
Score = 42.1 bits (99), Expect = 5e-06
Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 13 SPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE-MNDWVSNHTND 71
S EL AN+++ K + N YQ + + ++L +DF + P ++ +N+W++N T +
Sbjct: 91 SSELISANRLFGDKSLTFNETYQDISEIVYGAKLWPLDFKEKPELSRITINEWIANKTEN 150
Query: 72 KIKDLIKAGNLT 83
+I D+I G +
Sbjct: 151 RITDVIPEGAID 162
>gnl|CDD|239011 cd02056, alpha-1-antitrypsin_like, alpha-1-antitrypsin_like. This
family contains a variety of different members of clade
A of the serpin superfamily. They include the classical
serine proteinase inhibitors, alpha-1-antitrypsin and
alpha-1-antichymotrypsin, protein C inhibitor,
kallistatin, and noninhibitory serpins, like
corticosteroid and thyroxin binding globulins. In
general, SERine Proteinase INhibitors (serpins) exhibit
conformational polymorphism shifting from native to
cleaved, latent, delta, or polymorphic forms. Many
serpins, such as antitrypsin and antichymotrypsin,
function as serine protease inhibitors which regulate
blood coagulation cascades. Non-inhibitory serpins
perform many diverse functions such as chaperoning
proteins or transporting hormones. Serpins are of
medical interest because mutants have been associated
with blood clotting disorders, emphysema, cirrhosis, and
dementia.
Length = 361
Score = 40.3 bits (95), Expect = 2e-05
Identities = 19/67 (28%), Positives = 32/67 (47%)
Query: 12 SSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTND 71
S +L + N ++ K ++ + + SE DF A K++ND+V T+
Sbjct: 80 SGLQLNMGNALFLDKRLKPLDKFLEDVKHLYESEAFSTDFQDSAEAKKQINDYVEKKTHG 139
Query: 72 KIKDLIK 78
KI DL+K
Sbjct: 140 KIVDLVK 146
>gnl|CDD|238999 cd02044, ov-serpin, ovalbumin family of serpins (ov-serpins).
Family of closely related proteins, whose members can be
secreted (ovalbumin), cytosolic (leukocyte elastase
inhibitor, LEI), or targeted to both compartments
(plasminogen activator inhibitor 2, PAI-2). This
subgroup corresponds to clade B of the serpin
superfamily. In general, serpins exhibit conformational
polymorphism shifting from native to cleaved, latent,
delta, or polymorphic forms. Many serpins, such as
antitrypsin and antichymotrypsin, function as serine
protease inhibitors which regulate blood coagulation
cascades. Non-inhibitory serpins perform many diverse
functions such as chaperoning proteins or transporting
hormones. Serpins are of medical interest because
mutants can cause blood clotting disorders, emphysema,
cirrhosis, and dementia.
Length = 370
Score = 37.9 bits (88), Expect = 1e-04
Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 16 LKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE-MNDWVSNHTNDKIK 74
LK+ N++Y K P + + + EL VDF + +N W+ + T KI+
Sbjct: 83 LKLVNRLYGEKRYNFLPEFLSSTKKPYAKELETVDFKDKAEETRGQINSWIKDQTKGKIE 142
Query: 75 DLIKAGNL 82
+L+ ++
Sbjct: 143 NLLPENSV 150
>gnl|CDD|239005 cd02050, C1_inh, C1 inhibitor (C1-Inh) is a protease inhibitor of
the serpin family. It plays a pivotal role in regulating
the activation of the classical complement pathway and
of the contact system, via regulating bradykinin
formation, inhibiting factor XII and kallikrein of the
contact system, and via acting on factor XI in the
coagulation cascade. This subgroup corresponds to clade
G of the serpin superfamily.
Length = 352
Score = 34.4 bits (79), Expect = 0.003
Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 16 LKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEM-NDWVSNHTNDKIK 74
L A++I+ D+ L ++ ++ + + + S EM N WV+ TN+KI
Sbjct: 75 LLSASQIFHHPDLHLRESFTNESWQFYKAR--PRELSNNSELNLEMINSWVAKATNNKIP 132
Query: 75 DLI 77
L+
Sbjct: 133 RLL 135
>gnl|CDD|239001 cd02046, hsp47, Heat shock protein 47 (Hsp47), also called
colligin, because of its collagen binding ability, is a
chaperone specific for procollagen. It has been shown to
be essential for collagen biosynthesis, but its exact
function is still unclear. Hsp47 is a non-inhibitory
member of the SERPIN superfamily and corresponds to
clade H.
Length = 366
Score = 31.8 bits (72), Expect = 0.019
Identities = 14/62 (22%), Positives = 31/62 (50%)
Query: 17 KIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKDL 76
KI N++Y + + + ++N E K++F +A +N+W + T+ K+ ++
Sbjct: 89 KIGNRLYGPSSVSFADDFVKNSKKHYNYEHSKINFRDKRSALNSINEWAAQTTDGKLPEV 148
Query: 77 IK 78
K
Sbjct: 149 TK 150
>gnl|CDD|239009 cd02054, angiotensinogen, Angiotensinogen is part of the
renin-angiotensin system (RAS), which plays an important
role in blood pressure regulation, renal haemodynamics,
fluid and electrolyte homeostasis. It is also involved
in normal and abnormal growth processes. The growth
promoting actions of angiotensin have been shown in a
variety of cells and tissues. This subgroup represents
clade A8 of the serpin superfamily. In general, SERine
Proteinase INhibitors (serpins) exhibit conformational
polymorphism shifting from native to cleaved, latent,
delta, or polymorphic forms. Many serpins, such as
antitrypsin and antichymotrypsin, function as serine
protease inhibitors which regulate blood coagulation
cascades. Non-inhibitory serpins perform many diverse
functions such as chaperoning proteins or transporting
hormones.
Length = 372
Score = 28.3 bits (63), Expect = 0.36
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 49 VDFSQPPAAAKEMNDWVSNHTNDKIKDLIKAGNLT 83
VDF++P A +++N++V ++ K+K +K +
Sbjct: 130 VDFTEPDVAEEKINNFVQATSDGKVKSSLKGLSPD 164
>gnl|CDD|204811 pfam12026, DUF3513, Domain of unknown function (DUF3513). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 192 to 218 amino acids in length. This domain is
found associated with pfam00018, pfam08824. This domain
has a conserved QPP sequence motif.
Length = 208
Score = 26.6 bits (59), Expect = 1.5
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 21 KIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPP 55
++A+ L+ +A+D F L +QPP
Sbjct: 87 LHFYAEQCRLHFGTLLKAIDAFLGSLSS---NQPP 118
>gnl|CDD|224860 COG1949, Orn, Oligoribonuclease (3'->5' exoribonuclease) [RNA
processing and modification].
Length = 184
Score = 26.1 bits (58), Expect = 1.7
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 53 QPPAAAKEMNDWVSN-HTNDKIKDLIKAGNLTL 84
Q +M++W + H + + +KA +T
Sbjct: 50 QSDEQLAKMDEWNTETHGRSGLTERVKASTVTE 82
>gnl|CDD|216402 pfam01268, FTHFS, Formate--tetrahydrofolate ligase.
Length = 557
Score = 25.8 bits (58), Expect = 2.4
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 17 KIANKIYFAKDIELNPAYQTQ 37
IA +IY A +E +P + Q
Sbjct: 451 TIATEIYGADGVEFSPKAKKQ 471
>gnl|CDD|235429 PRK05359, PRK05359, oligoribonuclease; Provisional.
Length = 181
Score = 25.5 bits (57), Expect = 2.9
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 53 QPPAAAKEMNDWVSN-HTNDKIKDLIKAGNLTL 84
Q A M++W + HT + D ++A ++
Sbjct: 47 QSDEALAAMDEWNTRTHTRSGLIDRVRASTVSE 79
>gnl|CDD|238266 cd00477, FTHFS, Formyltetrahydrofolate synthetase (FTHFS) catalyzes
the ATP-dependent activation of formate ion via its
addition to the N10 position of tetrahydrofolate. FTHFS
is a highly expressed key enzyme in both the
Wood-Ljungdahl pathway of autotrophic CO2 fixation
(acetogenesis) and the glycine synthase/reductase
pathways of purinolysis. The key physiological role of
this enzyme in acetogens is to catalyze the formylation
of tetrahydrofolate, an initial step in the reduction of
carbon dioxide and other one-carbon precursors to
acetate. In purinolytic organisms, the enzymatic
reaction is reversed, liberating formate from
10-formyltetrahydrofolate with concurrent production of
ATP.
Length = 524
Score = 25.6 bits (57), Expect = 3.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 17 KIANKIYFAKDIELNPAYQTQ 37
IA KIY A +EL+P + +
Sbjct: 434 TIAKKIYGADGVELSPKAKKK 454
>gnl|CDD|227213 COG4876, COG4876, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 138
Score = 25.1 bits (54), Expect = 4.4
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 55 PAAAKEMNDWVSNHTNDKIKDL 76
P A + +W N + ++IK L
Sbjct: 42 PIATSKAKEWYRNLSKEEIKAL 63
>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein. The Polycystin
Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a
huge protein of 4303aas. Its repeated leucine-rich (LRR)
segment is found in many proteins. It contains 16
polycystic kidney disease (PKD) domains, one LDL-receptor
class A domain, one C-type lectin family domain, and
16-18 putative TMSs in positions between residues 2200
and 4100. Polycystin-L has been shown to be a cation
(Na+, K+ and Ca2+) channel that is activated by Ca2+. Two
members of the PCC family (polycystin 1 and 2) are
mutated in autosomal dominant polycystic kidney disease,
and polycystin-L is deleted in mice with renal and
retinal defects. Note: this model is restricted to the
amino half for technical reasons.
Length = 2740
Score = 25.4 bits (55), Expect = 4.6
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 1/48 (2%)
Query: 34 YQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKDLIKAGN 81
+ A+ N + + P A + W+ + K+K L+ +
Sbjct: 2570 HLGAAIRALNKSI-AITLPDPNGEASGLPHWLHDLIASKLKGLLDQAD 2616
>gnl|CDD|213344 cd12205, RasGAP_plexin, Ras-GTPase Activating Domain of plexins.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Ligand binding activates signal
transduction pathways controlling axon guidance in the
nervous system and other developmental processes,
including cell migration and morphogenesis, immune
function, and tumor progression. Plexins are divided
into four types (A-D) according to sequence similarity.
In vertebrates, type A Plexins serve as the co-receptors
for neuropilins to mediate the signaling of class 3
semaphorins except Sema3E, which signals through Plexin
D1. Plexins serve as direct receptors for several other
members of the semaphorin family: class 6 semaphorins
signal through type A plexins and class 4 semaphorins
through type B. Plexin C1 serves as the receptor of
Sema7A and plays regulation roles in both immune and
nervous systems. Plexins contain a C-terminal RasGAP
domain, which functions as an enhancer of the hydrolysis
of GTP that is bound to Ras-GTPases. Plexins display GAP
activity towards the Ras homolog Rap. Other proteins
having a RasGAP domain include p120GAP, IQGAP,
Rab5-activating protein 6, and Neurofibromin. Although
the Rho (Ras homolog) GTPases are most closely related
to members of the Ras family, RhoGAP and RasGAP show no
sequence homology at their amino acid level. RasGTPases
function as molecular switches in a large number of of
signaling pathways. When bound to GTP they are in the on
state and when bound to GDP they are in the off state.
The RasGAP domain speeds up the hydrolysis of GTP in
Ras-like proteins acting as a negative regulator.
Length = 382
Score = 25.3 bits (56), Expect = 4.8
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 19 ANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKDLIK 78
+NK+ FAKDI P Y+ + V NF ++ + PP + +EMN +++ + +
Sbjct: 289 SNKLLFAKDI---PRYR-EMVANFYRDIS----NLPPVSDEEMNSYLAELSESHSGEFNT 340
Query: 79 AGNL 82
L
Sbjct: 341 NVAL 344
>gnl|CDD|239007 cd02052, PEDF, Pigment epithelium-derived factor (PEDF)_like. PEDF
is non-inhibitory member of the Serpin superfamily. It
exhibits neurotrophic, neuroprotective and
antiangiogenic properties and is widely expressed in the
developing and adult nervous systems. This subgroup
corresponds to clade F1 of the serpin superfamily.
Length = 374
Score = 25.2 bits (55), Expect = 5.0
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 16 LKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKD 75
LK A++I + + L + Q V+ E ++ + +E+NDWV T K+
Sbjct: 97 LKSASRILLERKLRLRLEFVNQ-VEKSYGERPRI-LAGNALDLQEINDWVQQQTGGKVDR 154
Query: 76 LIK 78
+K
Sbjct: 155 FVK 157
>gnl|CDD|131752 TIGR02705, nudix_YtkD, nucleoside triphosphatase YtkD. The
functional assignment to the proteins of this family is
contentious. Reference challenges the findings of
reference , both in interpretation and in enzyme assay
results. This protein belongs to the nudix family and
shares some sequence identity with E. coli MutT but
appears not to be functionally interchangeable with it
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 156
Score = 24.6 bits (54), Expect = 5.6
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 13/75 (17%)
Query: 9 YEISSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKE-------M 61
YE+ +YFA+ L ++ D++ G V + P K M
Sbjct: 85 YEVEGESTDFVKDVYFAEVSAL------ESKDDYLETKGPVLLQEIPDIIKADPRFSFIM 138
Query: 62 NDWVSNHTNDKIKDL 76
D V ++ K +
Sbjct: 139 KDDVLLKCLERAKHI 153
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 25.0 bits (55), Expect = 5.9
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 6/30 (20%)
Query: 57 AAKEMNDW-----VSNHTNDKIKDLIKAGN 81
K++ W + KIK+L K GN
Sbjct: 107 IQKKLQAWLERLEIVGKKTKKIKELSK-GN 135
>gnl|CDD|237403 PRK13505, PRK13505, formate--tetrahydrofolate ligase; Provisional.
Length = 557
Score = 24.8 bits (55), Expect = 6.1
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 17 KIANKIYFAKDIELNPAYQTQ 37
KIA KIY AK +E +P + Q
Sbjct: 451 KIATKIYGAKGVEFSPKAKKQ 471
>gnl|CDD|239010 cd02055, PZI, Protein Z-dependent protease inhibitor (ZPI) is a
member of the serpin superfamily of proteinase
inhibitors (clade A10). ZPI inhibits coagulation factor
Xa , dependent on protein Z (PZ), a vitamin K-dependent
plasma protein. ZPI also inhibits factor XIa in a
process that does not require PZ. In general, SERine
Proteinase INhibitors (serpins) exhibit conformational
polymorphism shifting from native to cleaved, latent,
delta, or polymorphic forms.
Length = 365
Score = 24.5 bits (53), Expect = 7.4
Identities = 13/54 (24%), Positives = 23/54 (42%)
Query: 23 YFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAKEMNDWVSNHTNDKIKDL 76
+ KD ++ A+ + F+ E +DF A +N + T KI +L
Sbjct: 94 FIHKDFDVKEAFFNLSKQYFDMECLCMDFQNASQAKFLINHNIKKETKGKIPEL 147
>gnl|CDD|239012 cd02057, maspin_like, Maspin (mammary serine proteinase inhibitor),
a member of the serpin superfamily, with a multitude of
effects on cells and tissues at an assortment of
developmental stages. Maspin has tumor suppressing
activity against breast and prostate cancer. In general,
SERine Proteinase INhibitors (serpins) exhibit
conformational polymorphism shifting from native to
cleaved, latent, delta, or polymorphic forms. Many
serpins, such as antitrypsin and antichymotrypsin,
function as serine protease inhibitors which regulate
blood coagulation cascades. Non-inhibitory serpins
perform many diverse functions such as chaperoning
proteins or transporting hormones.
Length = 372
Score = 24.5 bits (53), Expect = 8.6
Identities = 13/72 (18%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 11 ISSPELKIANKIYFAKDIELNPAYQTQAVDNFNSELGKVDFSQPPAAAK-EMNDWVSNHT 69
S LK+ ++Y K + L+ + + EL VDF + ++N+ + T
Sbjct: 78 SSFYSLKLIKRLYVDKSLNLSTDFINSTKRPYPKELETVDFKDKLEETRGQINNSIKELT 137
Query: 70 NDKIKDLIKAGN 81
+ ++++ +
Sbjct: 138 DGHFENILNENS 149
>gnl|CDD|200452 cd11313, AmyAc_arch_bac_AmyA, Alpha amylase catalytic domain found
in archaeal and bacterial Alpha-amylases (also called
1,4-alpha-D-glucan-4-glucanohydrolase). AmyA (EC
3.2.1.1) catalyzes the hydrolysis of alpha-(1,4)
glycosidic linkages of glycogen, starch, related
polysaccharides, and some oligosaccharides. This group
includes firmicutes, bacteroidetes, and proteobacteria.
The Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 336
Score = 24.4 bits (54), Expect = 9.3
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 9/41 (21%)
Query: 38 AVDNF---NSELG-KVDFSQPPAAAKEMN-----DWVSNHT 69
AV ++ N E G DF A + DWV+NHT
Sbjct: 61 AVKDYRAVNPEYGTLEDFKALVDEAHDRGMKVILDWVANHT 101
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
0.311 0.128 0.365
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,176,013
Number of extensions: 319534
Number of successful extensions: 266
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 41
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
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 (21.8 bits)
S2: 53 (24.1 bits)