RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14392
(164 letters)
>gnl|CDD|238271 cd00487, Pep_deformylase, Polypeptide or peptide deformylase; a
family of metalloenzymes that catalyzes the removal of
the N-terminal formyl group in a growing polypeptide
chain following translation initiation during protein
synthesis in prokaryotes. These enzymes utilize Fe(II)
as the catalytic metal ion, which can be replaced with a
nickel or cobalt ion with no loss of activity. There are
two types of peptide deformylases, types I and II, which
differ in structure only in the outer surface of the
domain. Because these enzymes are essential only in
prokaryotes (although eukaryotic gene sequences have
been found), they are a target for a new class of
antibacterial agents.
Length = 141
Score = 134 bits (340), Expect = 3e-41
Identities = 48/130 (36%), Positives = 67/130 (51%), Gaps = 14/130 (10%)
Query: 4 IILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWIN 63
+I M M GL+APQ+G+ R+F++ PD E P +V IN
Sbjct: 26 LIDDMFETMYAAPGVGLAAPQIGVSKRIFVIDVPDEEN-------------KEPPLVLIN 72
Query: 64 PEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQH 123
PE+ + EGC S+ + +V R +KV + LDE G P AEG+ AR IQH
Sbjct: 73 PEIIESS-GETEYGEEGCLSVPGYRGEVERPKKVTVRYLDEDGNPIELEAEGFLARCIQH 131
Query: 124 EMDHLDGLLF 133
E+DHL+G+LF
Sbjct: 132 EIDHLNGILF 141
>gnl|CDD|216435 pfam01327, Pep_deformylase, Polypeptide deformylase.
Length = 155
Score = 134 bits (341), Expect = 3e-41
Identities = 42/135 (31%), Positives = 70/135 (51%), Gaps = 14/135 (10%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
+K +I M M + GL+APQ+G+ R+F++ D + +V
Sbjct: 27 LKELIDDMLETMYAANGVGLAAPQIGVSKRIFVIDVGDEDG-------------EPEPLV 73
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
INPE+ ++ V EGC S+ L+ +V R +++ + D G A+G+ AR+
Sbjct: 74 LINPEIISAS-EETVEGEEGCLSVPGLRGEVERPKRITVRYQDLNGNEHELEADGFLARV 132
Query: 121 IQHEMDHLDGLLFTD 135
+QHE+DHL+G+LF D
Sbjct: 133 LQHEIDHLNGILFLD 147
>gnl|CDD|223320 COG0242, Def, N-formylmethionyl-tRNA deformylase [Translation,
ribosomal structure and biogenesis].
Length = 168
Score = 118 bits (298), Expect = 2e-34
Identities = 42/117 (35%), Positives = 64/117 (54%), Gaps = 13/117 (11%)
Query: 19 GLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMKILDYKDKVTAL 78
GL+APQ+G+ R+F++ + P +V INPE+ ++ +T
Sbjct: 46 GLAAPQIGISKRIFVIDVEEDGR------------PKEPPLVLINPEIISKS-EETLTGE 92
Query: 79 EGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMDHLDGLLFTD 135
EGC S+ ++ +V R ++ + LD GKP AEG AR IQHE+DHL+G+LF D
Sbjct: 93 EGCLSVPGVRGEVERPERITVKYLDRNGKPQELEAEGLLARCIQHEIDHLNGVLFID 149
>gnl|CDD|234668 PRK00150, def, peptide deformylase; Reviewed.
Length = 165
Score = 117 bits (295), Expect = 4e-34
Identities = 44/117 (37%), Positives = 63/117 (53%), Gaps = 15/117 (12%)
Query: 19 GLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMKILDYKDKVTAL 78
GL+APQVG+ R+ ++ D E +V INPE+ ++ +T
Sbjct: 46 GLAAPQVGVSKRIIVIDVEDKEG---------------EPLVLINPEIISESSEEYLTYE 90
Query: 79 EGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMDHLDGLLFTD 135
EGC S+ + +VPR +V + LD GKP A+G AR IQHE+DHL+G+LF D
Sbjct: 91 EGCLSVPGVYGEVPRPERVTVKALDRDGKPFELEADGLLARCIQHEIDHLNGVLFID 147
>gnl|CDD|237227 PRK12846, PRK12846, peptide deformylase; Reviewed.
Length = 165
Score = 105 bits (264), Expect = 2e-29
Identities = 44/117 (37%), Positives = 65/117 (55%), Gaps = 16/117 (13%)
Query: 19 GLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMKILDYKDKVTAL 78
GL+APQ+G+ LR+ ++ D P V INPE+ L ++
Sbjct: 47 GLAAPQIGVSLRVVVIDLGD---------------DRVPPTVLINPEITELS-PEEEVGW 90
Query: 79 EGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMDHLDGLLFTD 135
EGC S+ L+ +V R +V++ D GKP AEG+ AR++QHE+DHLDG+L+TD
Sbjct: 91 EGCLSVPGLRGEVERPARVRVRAQDRDGKPIEIEAEGFLARVLQHEIDHLDGILYTD 147
>gnl|CDD|184758 PRK14596, PRK14596, peptide deformylase; Provisional.
Length = 199
Score = 92.6 bits (230), Expect = 4e-24
Identities = 46/129 (35%), Positives = 68/129 (52%), Gaps = 5/129 (3%)
Query: 19 GLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMKILDYKDK-VTA 77
GL+APQ+GL +RLF+ +E EG+ + V +NP + Y+ +
Sbjct: 45 GLAAPQIGLSVRLFVAVEYADDEEEEEGEEAPLRSRVLREYVMVNPVIT---YRKGDQSG 101
Query: 78 LEGCASLKSLQA-KVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMDHLDGLLFTDS 136
EGC S+ L VPR R+V++ D G+ + AEG+ AR+ QHE+DHLDG+LF D
Sbjct: 102 QEGCLSIPGLYEEGVPRARQVRVEYQDLDGQKRTLEAEGYLARVFQHEIDHLDGILFFDR 161
Query: 137 MLPKSLECV 145
+ E
Sbjct: 162 LPKAKREAF 170
>gnl|CDD|237761 PRK14597, PRK14597, peptide deformylase; Provisional.
Length = 166
Score = 88.3 bits (219), Expect = 9e-23
Identities = 52/140 (37%), Positives = 71/140 (50%), Gaps = 19/140 (13%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
+K I +M M +D GL+APQVG+ LR F+ +G K V
Sbjct: 25 LKKTIEEMIETMYHYDGVGLAAPQVGISLRFFV---------MDDGSGPK---------V 66
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
INPE+ I ++K A EGC S + V R + V++ DE G+ EG+AARI
Sbjct: 67 VINPEI-IEKSEEKEIAEEGCLSFPEIFEDVERSKWVKVRYQDERGEVVEELLEGYAARI 125
Query: 121 IQHEMDHLDGLLFTDSMLPK 140
QHE DHL+G+LF D + P
Sbjct: 126 FQHEYDHLNGVLFIDRLPPA 145
>gnl|CDD|232815 TIGR00079, pept_deformyl, peptide deformylase. Peptide deformylase
(EC 3.5.1.88), also called polypeptide deformylase, is a
metalloenzyme that uses water to release formate from
the N-terminal formyl-L-methionine of bacterial and
chloroplast peptides. This enzyme should not be confused
with formylmethionine deformylase (EC 3.5.1.31) which is
active on free N-formyl methionine and has been reported
from rat intestine [Protein fate, Protein modification
and repair].
Length = 161
Score = 80.5 bits (199), Expect = 7e-20
Identities = 43/137 (31%), Positives = 62/137 (45%), Gaps = 15/137 (10%)
Query: 4 IILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWIN 63
+ M M GL+APQVG+ R+ ++ D + IN
Sbjct: 29 QLDDMIETMIAEKGIGLAAPQVGILKRMIVIELED------ADKEPLLFL--------IN 74
Query: 64 PEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARIIQH 123
P++ I ++ EGC S+ VPR KV++ G D GKP A+G A IQH
Sbjct: 75 PKI-IESSEESSYLEEGCLSVPVYYGLVPRKEKVKIRGDDRFGKPIILEADGLLAICIQH 133
Query: 124 EMDHLDGLLFTDSMLPK 140
E+DHL+G+ F D + P
Sbjct: 134 EIDHLNGVFFVDYISPL 150
>gnl|CDD|237762 PRK14598, PRK14598, peptide deformylase; Provisional.
Length = 187
Score = 81.3 bits (201), Expect = 8e-20
Identities = 50/140 (35%), Positives = 65/140 (46%), Gaps = 19/140 (13%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFE-MQAFPHM 59
++ +I M M GL+APQVG LRL +V D+ + + M
Sbjct: 27 IEELIASMFESMYNASGIGLAAPQVGRSLRLLVV------------DVSCMKEYEDEKPM 74
Query: 60 VWINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAE--GWA 117
V INP IL K EGC S+ +Q V R + L DE + T E G
Sbjct: 75 VVINPH--ILAVKGYNAMEEGCLSVPGVQGDVVRPSSITLKYRDE--HFEERTEEFSGMM 130
Query: 118 ARIIQHEMDHLDGLLFTDSM 137
AR++QHE+DHLDG LF D M
Sbjct: 131 ARVLQHEIDHLDGTLFVDRM 150
>gnl|CDD|181704 PRK09218, PRK09218, peptide deformylase; Validated.
Length = 136
Score = 64.2 bits (157), Expect = 7e-14
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 3/74 (4%)
Query: 59 MVWINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAA 118
+V NP I+ EGC SL + + RY ++ + LD + + T G+ A
Sbjct: 65 VVMFNP--VIVSKSGPYETEEGCLSL-TGERPTKRYEEITVKYLDRNWREQTQTFTGFTA 121
Query: 119 RIIQHEMDHLDGLL 132
+IIQHE+DH +G+L
Sbjct: 122 QIIQHELDHCEGIL 135
>gnl|CDD|184757 PRK14595, PRK14595, peptide deformylase; Provisional.
Length = 162
Score = 50.2 bits (120), Expect = 2e-08
Identities = 32/137 (23%), Positives = 63/137 (45%), Gaps = 18/137 (13%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
+K ++ +++ M + L APQ+G L++ I+ +M+ +
Sbjct: 28 LKRLLQDLEDTMYAQEAAALCAPQIGQSLQVAII-----------------DMEMEGLLQ 70
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
+NP++ I + +T LEG +L + +V R + + + D G TA AR+
Sbjct: 71 LVNPKI-ISQSNETITDLEGSITLPDVYGEVTRSKMIVVESYDVNGNKVELTAYDDVARM 129
Query: 121 IQHEMDHLDGLLFTDSM 137
I H +D ++G+ FT+
Sbjct: 130 ILHIIDQMNGIPFTERA 146
>gnl|CDD|149804 pfam08859, DGC, DGC domain. This domain appears to be a zinc
binding domain from the conservation of four potential
chelating cysteines. The domain is named after a
conserved central motif. The function of this domain is
unknown.
Length = 110
Score = 28.0 bits (63), Expect = 1.0
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 62 INPEMKILDYKDKVTALEGCA---SLKSLQAK-VPRYRKVQLTGLD-ETGKPDSWTAE 114
+ +K+ + A++GC + K L+ V R + LT L + + + E
Sbjct: 41 VEGLVKLARSGRPIIAIDGCPLNCAKKILEEAGVKPDRHIVLTDLGIKKNRGLDLSDE 98
>gnl|CDD|222448 pfam13905, Thioredoxin_8, Thioredoxin-like. Thioredoxins are
small enzymes that participate in redox reactions, via
the reversible oxidation of an active centre disulfide
bond.
Length = 94
Score = 27.7 bits (62), Expect = 1.1
Identities = 8/42 (19%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 27 LPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMKI 68
+P V F D E + ++ + ++A P +V ++ + ++
Sbjct: 56 MPKDWLNVPFGDKERNEL---LRLYGVKAIPTLVLLDKDGRV 94
>gnl|CDD|239195 cd02794, MopB_CT_DmsA-EC, The MopB_CT_DmsA-EC CD includes the
DmsA enzyme of the dmsABC operon encoding the anaerobic
dimethylsulfoxide reductase (DMSOR) of Escherichia coli
and other related DMSOR-like enzymes. Unlike other
DMSOR-like enzymes, this group has a predicted
N-terminal iron-sulfur [4Fe-4S] cluster binding site.
This CD is of the conserved molybdopterin_binding
C-terminal (MopB_CT) region present in many, but not
all, MopB homologs.
Length = 121
Score = 28.0 bits (63), Expect = 1.3
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 54 QAFPHMVWINP 64
+AFP VWINP
Sbjct: 26 EAFPQEVWINP 36
>gnl|CDD|218461 pfam05139, Erythro_esteras, Erythromycin esterase. This family
includes erythromycin esterase enzymes that confer
resistance to the erythromycin antibiotic.
Length = 344
Score = 28.1 bits (63), Expect = 2.0
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 11/58 (18%)
Query: 46 GDIKKFEMQAFPHMVWINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLD 103
GD + + FP +W N E+ L+ L+ A P KV GLD
Sbjct: 23 GDPDEAMFERFPTWMWRNEEV-----------LDLVEWLREYNAARPAKEKVGFYGLD 69
>gnl|CDD|117572 pfam09006, Surfac_D-trimer, Lung surfactant protein D coiled-coil
trimerisation. This domain, predominantly found in
lung surfactant protein D, forms a triple-helical
parallel coiled coil, and mediates trimerisation of the
protein.
Length = 46
Score = 25.6 bits (56), Expect = 2.8
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 72 KDKVTALEGCASLKSLQAKVPRYRKVQL 99
+ +V ALEG L+ LQ +Y+K L
Sbjct: 5 RQQVEALEG--QLQRLQNAFSQYKKAVL 30
>gnl|CDD|215527 PLN02976, PLN02976, amine oxidase.
Length = 1713
Score = 27.5 bits (61), Expect = 3.7
Identities = 21/101 (20%), Positives = 33/101 (32%), Gaps = 11/101 (10%)
Query: 39 PEESFSEGDIKKFEMQAFPHMVWINPEMKILDYKDKV---TALEGCASLKSLQAKVPRYR 95
E+S S + + V I PE +D V + L LQ + +
Sbjct: 332 LEDSPSHDIVGSHPVCNGASPVSITPEENESYVEDAVSLPDSEIKDGKLSKLQRVTRKAK 391
Query: 96 KVQLTGLDETGKPDSWTAEGWAARIIQHEMDHLDGLLFTDS 136
K +L + G D W + +E L+ DS
Sbjct: 392 KRKLGDMAYEGDAD-W-------ETLINEQGFLENPSACDS 424
>gnl|CDD|173861 cd08496, PBP2_NikA_DppA_OppA_like_9, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA can bind peptides of a wide range of lengths (2-35
amino-acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 454
Score = 27.3 bits (61), Expect = 4.9
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 99 LTGLDETGKPDSWTAEGWA--ARIIQHEMDHLDGLLFTD 135
L LD GK + AE W A + +GL F+D
Sbjct: 34 LIKLDPDGKLEPGLAESWEYNADGTTLTLHLREGLTFSD 72
>gnl|CDD|178608 PLN03046, PLN03046, D-glycerate 3-kinase; Provisional.
Length = 460
Score = 26.8 bits (59), Expect = 6.4
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 12/59 (20%)
Query: 70 DYKDKVTALEGCASL--KSLQAKVPRYRKVQLTGLDETGKPDSWTA----------EGW 116
D + V LE + L + ++ KVPRY K +G + P +W EGW
Sbjct: 281 DLQFSVETLEALSKLTKEGIKMKVPRYDKSAYSGRGDRADPSTWPEVEGPLEVILFEGW 339
>gnl|CDD|221395 pfam12048, DUF3530, Protein of unknown function (DUF3530). This
family of proteins is functionally uncharacterized. This
protein is found in bacteria. Proteins in this family
are typically between 272 to 336 amino acids in length.
These proteins are distantly related to alpa/beta
hydrolases so they may act as enzymes.
Length = 294
Score = 26.2 bits (58), Expect = 8.0
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 7/39 (17%)
Query: 88 QAKVPRYRKVQLTGLDETGKPDSWTA-----EGWAARII 121
+ K P YR++QL L P +W GW R+
Sbjct: 258 RNKKPDYRQIQLALLPGN--PSAWQELLRRIRGWLKRLG 294
>gnl|CDD|173857 cd08492, PBP2_NikA_DppA_OppA_like_15, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 484
Score = 26.4 bits (59), Expect = 9.3
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 99 LTGLDETGKPDSWTAEGW 116
L D TG+ W AE W
Sbjct: 36 LVYQDPTGEIVPWLAESW 53
>gnl|CDD|225748 COG3207, DIT1, Pyoverdine/dityrosine biosynthesis protein
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 330
Score = 26.0 bits (57), Expect = 9.3
Identities = 10/40 (25%), Positives = 12/40 (30%), Gaps = 1/40 (2%)
Query: 15 FDLF-GLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEM 53
D F L+L DP ES E + E
Sbjct: 156 VDAFEAQRDNHEFDRLQLLKGGDADPLESIRETLLASEEG 195
>gnl|CDD|133124 cd06593, GH31_xylosidase_YicI, YicI alpha-xylosidase is a
glycosyl hydrolase family 31 (GH31) enzyme that
catalyzes the release of an alpha-xylosyl residue from
the non-reducing end of alpha-xyloside substrates such
as alpha-xylosyl fluoride and isoprimeverose. YicI
forms a homohexamer (a trimer of dimers). All GH31
enzymes cleave a terminal carbohydrate moiety from a
substrate that varies considerably in size, depending
on the enzyme, and may be either a starch or a
glycoprotein. The YicI family corresponds to subgroup 4
in the Ernst et al classification of GH31 enzymes.
Length = 308
Score = 26.1 bits (58), Expect = 10.0
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 35 AFPDPEESFSEGDIKKFEMQAFPHMVWINP 64
FPDPE S K F++ +WINP
Sbjct: 64 RFPDPEGMLSRLKEKGFKVC-----LWINP 88
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
0.323 0.139 0.428
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,591,463
Number of extensions: 779035
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 562
Number of HSP's successfully gapped: 33
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.0 bits)