RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12908
(148 letters)
>gnl|CDD|227489 COG5160, ULP1, Protease, Ulp1 family [Posttranslational
modification, protein turnover, chaperones].
Length = 578
Score = 86.1 bits (213), Expect = 2e-20
Identities = 38/126 (30%), Positives = 50/126 (39%), Gaps = 27/126 (21%)
Query: 47 NVDLFSYDILLVPIHVQKIHWCLATIDFRKKCLTYYDSMAGPDRGCLN------------ 94
D+FS + +PI++ HW LA ID KK + Y+DS+A L
Sbjct: 447 KTDIFSKKYIFIPINIS-YHWFLAIIDNPKKNILYFDSLANTHDPVLEFLRSYLLDEYKI 505
Query: 95 -------------DVPQQQNSSDCGVFTSTFAEYLSRNADIFKIKQKDMPYYRKKMMAEI 141
VPQQ+N SDCGVF F Y N + D P RK M I
Sbjct: 506 QHDKDPQIKMKHCKVPQQRNGSDCGVFVCMFIRYFLENPPEQ-FSKNDRPRARKNMAHTI 564
Query: 142 LSKKLL 147
++
Sbjct: 565 KDLQIN 570
>gnl|CDD|215622 PLN03189, PLN03189, Protease specific for SMALL UBIQUITIN-RELATED
MODIFIER (SUMO); Provisional.
Length = 490
Score = 73.3 bits (180), Expect = 4e-16
Identities = 37/121 (30%), Positives = 55/121 (45%), Gaps = 31/121 (25%)
Query: 54 DILLVPIHVQKIHWCLATIDFRKKCLTYYDSMAGPDRGCLN------------------- 94
D + VPIH Q+IHW LA I+ + + Y DS+ G D L+
Sbjct: 370 DKIFVPIH-QEIHWTLAVINKKDQKFQYLDSLKGRDPKILDALAKYYVDEVKDKSEKDID 428
Query: 95 ----------DVPQQQNSSDCGVFTSTFAEYLSRNADIFKIKQKDMPYYRKKMMAEILSK 144
D+P+Q+N DCG+F + ++ SR + Q+ MPY+R + EIL
Sbjct: 429 VSSWEQEFVEDLPEQKNGYDCGMFMIKYIDFYSRGLGLC-FGQEHMPYFRLRTAKEILRL 487
Query: 145 K 145
K
Sbjct: 488 K 488
>gnl|CDD|217278 pfam02902, Peptidase_C48, Ulp1 protease family, C-terminal
catalytic domain. This domain contains the catalytic
triad Cys-His-Asn.
Length = 216
Score = 70.2 bits (172), Expect = 1e-15
Identities = 36/145 (24%), Positives = 52/145 (35%), Gaps = 37/145 (25%)
Query: 34 YYDSMAGPDRGCLNVDLFSYDILLVPIHVQKIHWCLATIDFRKKCLTYYDSMAGPDRGCL 93
+Y+ + R LF DI+ +PI+ HW L I+ KK +T DS+ +
Sbjct: 64 FYNGVRRWTRKVNKKWLFDVDIIYIPINWDGKHWVLLIINLPKKTITILDSLISLHTEAV 123
Query: 94 ND------------------------------------VPQQQNSSDCGVFTSTFAEYLS 117
VPQQ NS DCG + F E L+
Sbjct: 124 KKRIRPIDNMLPYLMSEALKKEQDDPDLTPFEIKRLTKVPQQPNSGDCGPYVLKFIELLA 183
Query: 118 RNADI-FKIKQKDMPYYRKKMMAEI 141
F KD+ +RKK+ +I
Sbjct: 184 EGVPFEFLTADKDVDRFRKKLAVDI 208
>gnl|CDD|99706 cd06263, MAM, Meprin, A5 protein, and protein tyrosine phosphatase
Mu (MAM) domain. MAM is an extracellular domain which
mediates protein-protein interactions and is found in a
diverse set of proteins, many of which are known to
function in cell adhesion. Members include: type IIB
receptor protein tyrosine phosphatases (such as RPTPmu),
meprins (plasma membrane metalloproteases), neuropilins
(receptors of secreted semaphorins), and zonadhesins
(sperm-specific membrane proteins which bind to the
extracellular matrix of the egg). In meprin A and
neuropilin-1 and -2, MAM is involved in
homo-oligomerization. In RPTPmu, it has been associated
with both homophilic adhesive (trans) interactions and
lateral (cis) receptor oligomerization. In a
GPI-anchored protein that is expressed in cells in the
embryonic chicken spinal chord, MDGA1, the MAM domain
has been linked to heterophilic interactions with
axon-rich region.
Length = 157
Score = 27.3 bits (61), Expect = 2.6
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 5/49 (10%)
Query: 31 CLTYYDSMAGPDRGCLNVDLF----SYDILLVPIHV-QKIHWCLATIDF 74
CL+++ M G G LNV + LL Q W A +
Sbjct: 74 CLSFWYHMYGSGVGTLNVYVREEGGGLGTLLWSASGGQGNQWQEAEVTL 122
>gnl|CDD|146097 pfam03290, Peptidase_C57, Vaccinia virus I7 processing peptidase.
Length = 423
Score = 26.9 bits (60), Expect = 3.9
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 87 GPDRGCLNDVPQQQNSSDCGVFTSTF 112
G GC+N Q S+CG+F S F
Sbjct: 313 GAKYGCINVEVNQLLESECGMFISIF 338
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 26.9 bits (60), Expect = 5.2
Identities = 10/40 (25%), Positives = 14/40 (35%), Gaps = 6/40 (15%)
Query: 107 VFTSTFAEYLSRNADIF------KIKQKDMPYYRKKMMAE 140
V TS+ A + YYR K++AE
Sbjct: 107 VHTSSIAALGGPPDGRIDETTPWNERPFPNDYYRSKLLAE 146
>gnl|CDD|216032 pfam00629, MAM, MAM domain. An extracellular domain found in many
receptors.
Length = 159
Score = 25.8 bits (57), Expect = 9.0
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 5/49 (10%)
Query: 31 CLTYYDSMAGPDRGCLNVDLFSY-DILLVPIHV----QKIHWCLATIDF 74
CL ++ M+G G L V + + Q W A +
Sbjct: 74 CLRFWYHMSGSGVGTLRVYVRENGGGRGTLLWSRSGNQGPSWQEAEVTL 122
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
0.327 0.141 0.452
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,392,940
Number of extensions: 626860
Number of successful extensions: 499
Number of sequences better than 10.0: 1
Number of HSP's gapped: 493
Number of HSP's successfully gapped: 14
Length of query: 148
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 60
Effective length of database: 7,034,450
Effective search space: 422067000
Effective search space used: 422067000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (24.6 bits)