RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9572
(163 letters)
>gnl|CDD|239227 cd02897, A2M_2, Proteins similar to alpha2-macroglobulin (alpha
(2)-M). This group also contains the pregnancy zone
protein (PZP). Alpha(2)-M and PZP are broadly specific
proteinase inhibitors. Alpha (2)-M is a major carrier
protein in serum. The structural thioester of alpha
(2)-M, is involved in the immobilization and entrapment
of proteases. PZP is a trace protein in the plasma of
non-pregnant females and males which is elevated in
pregnancy. Alpha (2)-M and PZ bind to placental
protein-14 and may modulate its activity in T-cell
growth and cytokine production contributing to fetal
survival. It has been suggested that thioester bond
cleavage promotes the binding of PZ and alpha (2)-M to
the CD91 receptor clearing them from circulation.
Length = 292
Score = 77.6 bits (192), Expect = 8e-18
Identities = 23/34 (67%), Positives = 30/34 (88%)
Query: 130 SIPNLANLIKMPFGCGEQNMLNFVPNIVVLEYLK 163
++ NL NL++MP+GCGEQNM+NF PNI VL+YLK
Sbjct: 1 ALQNLDNLLRMPYGCGEQNMVNFAPNIYVLDYLK 34
>gnl|CDD|192631 pfam10569, Thiol-ester_cl, Alpha-macro-globulin thiol-ester
bond-forming region. This short highly conserved region
of proteinase-binding alpha-macro-globulins contains the
cysteine and a glutamine of a thiol-ester bond that is
cleaved at the moment of proteinase binding, and
mediates the covalent binding of the
alpha-macro-globulin to the proteinase. The GCGEQ motif
is highly conserved.
Length = 30
Score = 63.2 bits (155), Expect = 1e-14
Identities = 18/30 (60%), Positives = 25/30 (83%)
Query: 134 LANLIKMPFGCGEQNMLNFVPNIVVLEYLK 163
L +LI+MP+GCGEQNM++F PN+ L+YL
Sbjct: 1 LDSLIRMPYGCGEQNMISFAPNVYALQYLD 30
>gnl|CDD|239221 cd02891, A2M_like, Proteins similar to alpha2-macroglobulin (alpha
(2)-M). Alpha (2)-M is a major carrier protein in
serum. It is a broadly specific proteinase inhibitor.
The structural thioester of alpha (2)-M, is involved in
the immobilization and entrapment of proteases. This
group contains another broadly specific proteinase
inhibitor: pregnancy zone protein (PZP). PZP is a
trace protein in the plasma of non-pregnant females and
males which is elevated in pregnancy. Alpha (2)-M and PZ
bind to placental protein-14 and may modulate its
activity in T-cell growth and cytokine production
thereby protecting the allogeneic fetus from attack by
the maternal immune system. This group also contains C3,
C4 and C5 of vertebrate complement. The vertebrate
complement is an effector of both the acquired and
innate immune systems The point of convergence of the
classical, alternative and lectin pathways of the
complement system is the proteolytic activation of C3.
C4 plays a key role in propagating the classical and
lectin pathways. C5 participates in the classical and
alternative pathways. The thioester bond located within
the structure of C3 and C4 is central to the function of
complement. C5 does not contain an active thioester
bond.
Length = 282
Score = 64.7 bits (158), Expect = 5e-13
Identities = 16/31 (51%), Positives = 21/31 (67%)
Query: 133 NLANLIKMPFGCGEQNMLNFVPNIVVLEYLK 163
NL L++ P+GCGEQ M PN+ VL+YL
Sbjct: 4 NLDYLLRYPYGCGEQTMSRAAPNLYVLKYLD 34
>gnl|CDD|239226 cd02896, complement_C3_C4_C5, Proteins similar to C3, C4 and C5 of
vertebrate complement. The vertebrate complement
system, comprised of a large number of distinct plasma
proteins, is an effector of both the acquired and innate
immune systems. The point of convergence of the
classical, alternative and lectin pathways of the
complement system is the proteolytic activation of C3.
C4 plays a key role in propagating the classical and
lectin pathways. C5 participates in the classical and
alternative pathways. The thioester bond located within
the structure of C3 and C4 is central to the function of
complement. C5 does not contain an active thioester
bond.
Length = 297
Score = 50.0 bits (120), Expect = 8e-08
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 133 NLANLIKMPFGCGEQNMLNFVPNIVVLEYLK 163
L LI++P GCGEQ M+ P + L YL
Sbjct: 4 GLEKLIRLPTGCGEQTMIKLAPTVYALRYLD 34
>gnl|CDD|238362 cd00688, ISOPREN_C2_like, This group contains class II terpene
cyclases, protein prenyltransferases beta subunit, two
broadly specific proteinase inhibitors
alpha2-macroglobulin (alpha (2)-M) and pregnancy zone
protein (PZP) and, the C3 C4 and C5 components of
vertebrate complement. Class II terpene cyclases include
squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase
(OSQCY), these integral membrane proteins catalyze a
cationic cyclization cascade converting linear
triterpenes to fused ring compounds. The protein
prenyltransferases include protein farnesyltransferase
(FTase) and geranylgeranyltransferase types I and II
(GGTase-I and GGTase-II) which catalyze the
carboxyl-terminal lipidation of Ras, Rab, and several
other cellular signal transduction proteins,
facilitating membrane associations and specific
protein-protein interactions. Alpha (2)-M is a major
carrier protein in serum and involved in the
immobilization and entrapment of proteases. PZP is a
pregnancy associated protein. Alpha (2)-M and PZP are
known to bind to and, may modulate, the activity of
placental protein-14 in T-cell growth and cytokine
production thereby protecting the allogeneic fetus from
attack by the maternal immune system.
Length = 300
Score = 40.6 bits (95), Expect = 1e-04
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 8/39 (20%)
Query: 133 NLANLIKMPFG--------CGEQNMLNFVPNIVVLEYLK 163
+L L++ P+G CGEQ P + +L L
Sbjct: 4 HLKYLLRYPYGDGHWYQSLCGEQTWSTAWPLLALLLLLA 42
>gnl|CDD|165570 PHA03324, PHA03324, nuclear egress membrane protein UL34;
Provisional.
Length = 274
Score = 29.7 bits (66), Expect = 0.59
Identities = 26/103 (25%), Positives = 39/103 (37%), Gaps = 2/103 (1%)
Query: 53 IKVTATSNLAGDSMEGKLLVKPEGETQYKNKAIFVDLRKNKTFSVNVTLDMPKNIVPGS- 111
IK++ A D+ + L KP G K A+ + ++ P +
Sbjct: 167 IKISKCVQEAIDAAAQENLPKPRGFDSPKCAALAKKMLMEGAAEGGDRESSAESHPPAAI 226
Query: 112 -EHVEVSAVACKIGDLLGPSIPNLANLIKMPFGCGEQNMLNFV 153
EHV A A K LGP + + NL + FGC F+
Sbjct: 227 AEHVMQHARAHKKWGALGPRLFHKKNLGWILFGCALPAAAAFL 269
>gnl|CDD|151150 pfam10633, NPCBM_assoc, NPCBM-associated, NEW3 domain of
alpha-galactosidase. The English-language version of
the first reference can be found on pages 388-399 of the
above. This domain has been named NEW3 but its actual
function is not known. It is found on proteins which are
bacterial galactosidases. The domain is associated with
the NPCBM family, pfam08305, a novel putative
carbohydrate binding module found at the N-terminus of
glycosyl hydrolases.
Length = 78
Score = 28.1 bits (63), Expect = 0.60
Identities = 18/88 (20%), Positives = 26/88 (29%), Gaps = 15/88 (17%)
Query: 33 ANSGSTTTFVITPKELGYIGIKVTATSNLAGDSME-GKLLVK-PEGETQYKNKAIFVDLR 90
A G T T +T +N + + P G T + A L
Sbjct: 1 ATPGETVTLTLT-------------VTNDGTAPATNVSVSLSAPPGWTVEASPASAPSLP 47
Query: 91 KNKTFSVNVTLDMPKNIVPGSEHVEVSA 118
+T VT+ P G V +A
Sbjct: 48 PGETLEATVTVTPPAGAAAGDYPVTATA 75
>gnl|CDD|236398 PRK09185, PRK09185, 3-oxoacyl-(acyl carrier protein) synthase I;
Reviewed.
Length = 392
Score = 28.7 bits (65), Expect = 1.4
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 43 ITPKELGYIGIKVTAT-SNLAGDSMEGK 69
+ P ++GYI + TAT N D+ME +
Sbjct: 275 LAPADIGYINLHGTATPLN---DAMESR 299
>gnl|CDD|217942 pfam04179, Init_tRNA_PT, Initiator tRNA phosphoribosyl transferase.
This enzyme (EC:2.4.2.-) modifies exclusively the
initiator tRNA in position 64 using
5'-phosphoribosyl-1'-pyrophosphate as the modification
donor. As the initiator tRNA participates both in the
initiation and elongation of translation, the
2'-O-ribosyl phosphate modification discriminates the
initiator tRNAs from the elongator tRNAs.
Length = 441
Score = 28.1 bits (63), Expect = 2.1
Identities = 15/66 (22%), Positives = 25/66 (37%), Gaps = 11/66 (16%)
Query: 82 NKAIFVDLRKNKTFSVNVTLDMPKNIVPGSEHVEVSAVACKIGDL------LGPSIPNLA 135
N+A+F + + L P ++V SEH ++ +I LG I L
Sbjct: 115 NRALFPSDGQY--DKEDHVLYTPPSMVSDSEHSQIEK---RIDGFVKSLLKLGLDIEKLR 169
Query: 136 NLIKMP 141
+ P
Sbjct: 170 QQLGKP 175
>gnl|CDD|214795 smart00736, CADG, Dystroglycan-type cadherin-like domains.
Cadherin-homologous domains present in metazoan
dystroglycans and alpha/epsilon sarcoglycans, yeast
Axl2p and in a very large protein from magnetotactic
bacteria. Likely to bind calcium ions.
Length = 97
Score = 26.2 bits (58), Expect = 4.2
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 36 GSTTTFVITPK--ELGYIGIKVTATSNLAGDS 65
T T TP ++G + +KVTAT + +G S
Sbjct: 52 SDTGTLSGTPTNSDVGSLSLKVTAT-DSSGAS 82
>gnl|CDD|226116 COG3588, COG3588, Fructose-1,6-bisphosphate aldolase [Carbohydrate
transport and metabolism].
Length = 332
Score = 27.1 bits (60), Expect = 5.1
Identities = 19/70 (27%), Positives = 25/70 (35%), Gaps = 6/70 (8%)
Query: 44 TPKELGYIGIKVTATSNLAGDSMEGKLLVKPEGETQYKNKAIFVDLRKNKTFSVNVTLD- 102
TPK GI+ T S M +L P+ Y AI + ++ D
Sbjct: 29 TPKRFDSYGIEETEYSR---RDMRERLFTSPDFMEDYILGAILFEETMDQKADGGYPADY 85
Query: 103 --MPKNIVPG 110
K IVPG
Sbjct: 86 LWKEKGIVPG 95
>gnl|CDD|217652 pfam03636, Glyco_hydro_65N, Glycosyl hydrolase family 65,
N-terminal domain. This family of glycosyl hydrolases
contains vacuolar acid trehalase and maltose
phosphorylase.Maltose phosphorylase (MP) is a dimeric
enzyme that catalyzes the conversion of maltose and
inorganic phosphate into beta-D-glucose-1-phosphate and
glucose. This domain is believed to be essential for
catalytic activity although its precise function remains
unknown.
Length = 259
Score = 27.0 bits (60), Expect = 5.1
Identities = 20/80 (25%), Positives = 27/80 (33%), Gaps = 25/80 (31%)
Query: 49 GYIGIKVTATSNLAGDSMEG----------KLLVKPEGETQYKNKAI------------- 85
GY+G++ + +GDS G K V G +Y K I
Sbjct: 24 GYLGLRGNFEEDYSGDSYPGTYIAGVYFPDKTRVGKNGYPEYFEKVINLPNWIGLKILID 83
Query: 86 --FVDLRKNKTFSVNVTLDM 103
DL + S TLDM
Sbjct: 84 GEVFDLSTVEVESFERTLDM 103
>gnl|CDD|222991 PHA03119, PHA03119, helicase-primase primase subunit; Provisional.
Length = 1085
Score = 26.8 bits (59), Expect = 6.1
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 2 NDHKNVLRYNIREKV---YLYEFEVFRRKKLTIKANSGSTTTFVITPKELGYIGIKVTAT 58
ND K LR + RE V YL FE F RK++ + + T + P + + +A
Sbjct: 334 NDRKG-LRVSDREFVDYIYLAHFECFNRKQIRDHLRAVTLTDIALIPDVVSASSLGRSAI 392
Query: 59 SN 60
N
Sbjct: 393 EN 394
>gnl|CDD|221889 pfam13004, BACON, Bacteroidetes-Associated Carbohydrate-binding
Often N-terminal. The BACON (Bacteroidetes-Associated
Carbohydrate-binding Often N-terminal) domain is an
all-beta domain found in diverse architectures,
principally in combination with carbohydrate-active
enzymes and proteases. These architectures suggest a
carbohydrate-binding function which is also supported
by the nature of BACON's few conserved amino-acids. The
phyletic distribution of BACON and other data
tentatively suggest that it may frequently function to
bind mucin.
Length = 66
Score = 25.0 bits (55), Expect = 7.7
Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 29 LTIKANSGSTTT-----FVITPKE-LGYIGIKVTATSNLAGDSMEGKLLVKPEGETQ 79
+T+ +N T + +TP G + VT +N G+ + +K +T+
Sbjct: 2 VTVTSNVPWTASSSADWITVTPASGAGNTTVTVTVAANTTGEERTATITIKSGEKTK 58
>gnl|CDD|218155 pfam04575, DUF560, Protein of unknown function (DUF560). Family of
hypothetical bacterial proteins.
Length = 301
Score = 26.1 bits (58), Expect = 8.4
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 76 GETQYKNKAIFVDL-RKNKTFSVNVTLDMP----KNIVP 109
+ QYK+K +F + RK+K +SV+++L I P
Sbjct: 232 AKRQYKDKDLFGNKKRKDKEYSVSLSLWHRDLHWLGITP 270
>gnl|CDD|233562 TIGR01763, MalateDH_bact, malate dehydrogenase, NAD-dependent.
This enzyme converts malate into oxaloacetate in the
citric acid cycle. The critical residues which
discriminate malate dehydrogenase from lactate
dehydrogenase have been characterized , and have been
used to set the cutoffs for this model. Sequences
showing [aflimv][ap]R[rk]pgM[st] and [ltv][ilm]gGhgd
were kept above trusted, while those in which the
capitalized residues in the patterns were found to be
Q, E and E were kept below the noise cutoff. Some
sequences in the grey zone have been annotated as
malate dehydrogenases, but none have been
characterized. Phylogenetically, a clade of sequences
from eukaryotes such as Toxoplasma and Plasmodium which
include a characterized lactate dehydrogenase and show
abiguous critical residue patterns appears to be more
closely related to these bacterial sequences than other
eukaryotic sequences. These are relatively long branch
and have been excluded from the model. All other
sequences falling below trusted appear to be
phylogenetically outside of the clade including the
trusted hits. The annotation of Botryococcus braunii as
lactate dehydrogenase appears top be in error. This was
initially annotated as MDH by Swiss-Prot and then
changed. The rationale for either of these annotations
is not traceable [Energy metabolism, TCA cycle].
Length = 305
Score = 26.0 bits (57), Expect = 9.5
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 26 RKKLTI--KANSGSTTTFVITPKELGYI 51
RKK+++ G+TT F + KEL +
Sbjct: 1 RKKISVIGAGFVGATTAFRLAEKELADL 28
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
0.317 0.136 0.386
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,065,327
Number of extensions: 713777
Number of successful extensions: 544
Number of sequences better than 10.0: 1
Number of HSP's gapped: 544
Number of HSP's successfully gapped: 27
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.0 bits)