RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14533
(209 letters)
>gnl|CDD|238020 cd00063, FN3, Fibronectin type 3 domain; One of three types of
internal repeats found in the plasma protein
fibronectin. Its tenth fibronectin type III repeat
contains an RGD cell recognition sequence in a flexible
loop between 2 strands. Approximately 2% of all animal
proteins contain the FN3 repeat; including extracellular
and intracellular proteins, membrane spanning cytokine
receptors, growth hormone receptors, tyrosine
phosphatase receptors, and adhesion molecules. FN3-like
domains are also found in bacterial glycosyl hydrolases.
Length = 93
Score = 70.2 bits (172), Expect = 5e-16
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 7/97 (7%)
Query: 58 PSGLHAVAISSDSIRVTWSPPPAHLTNGDLLGYYLGYREQGFGRQNSYNFTTIPNRSDGA 117
P+ L ++S S+ ++W+PP G + GY + YRE+G G T S
Sbjct: 4 PTNLRVTDVTSTSVTLSWTPPED--DGGPITGYVVEYREKGSGDWKEVEVTPGSETS--- 58
Query: 118 GVATLTGLRKYRKYDIVVQAFNEKGPGPMSSEVSVQT 154
TLTGL+ +Y+ V+A N G P S V+V T
Sbjct: 59 --YTLTGLKPGTEYEFRVRAVNGGGESPPSESVTVTT 93
Score = 42.5 bits (100), Expect = 1e-05
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 162 PPLDITCSALSSTSLSVTWQPPPLLLQNGEILGYKVYY 199
PP ++ + ++STS++++W PP G I GY V Y
Sbjct: 3 PPTNLRVTDVTSTSVTLSWTPPE--DDGGPITGYVVEY 38
Score = 40.6 bits (95), Expect = 5e-05
Identities = 16/42 (38%), Positives = 19/42 (45%)
Query: 8 NSGTEQWAVLQDLLPATLYRVRVLAENSLGAGRPSDPLLVHT 49
G+E L L P T Y RV A N G PS+ + V T
Sbjct: 52 TPGSETSYTLTGLKPGTEYEFRVRAVNGGGESPPSESVTVTT 93
>gnl|CDD|200951 pfam00041, fn3, Fibronectin type III domain.
Length = 84
Score = 59.4 bits (144), Expect = 4e-12
Identities = 30/91 (32%), Positives = 42/91 (46%), Gaps = 8/91 (8%)
Query: 57 EPSGLHAVAISSDSIRVTWSPPPAHLTNGDLLGYYLGYREQGFGRQNSYNFTTIPNRSDG 116
P+ L ++S S+ ++WSPPP NG + GY + YR N
Sbjct: 2 APTNLTVTDVTSTSLTLSWSPPPG---NGPITGYEVEYRP-----VNGGEEWKEITVPGT 53
Query: 117 AGVATLTGLRKYRKYDIVVQAFNEKGPGPMS 147
TLTGL+ +Y++ VQA N G GP S
Sbjct: 54 TTSYTLTGLKPGTEYEVRVQAVNGAGEGPPS 84
Score = 42.8 bits (101), Expect = 6e-06
Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 3/43 (6%)
Query: 162 PPLDITCSALSSTSLSVTWQPPPLLLQNGEILGYKVYYENMRE 204
P ++T + ++STSL+++W PPP NG I GY+V Y +
Sbjct: 2 APTNLTVTDVTSTSLTLSWSPPPG---NGPITGYEVEYRPVNG 41
Score = 35.9 bits (83), Expect = 0.002
Identities = 19/41 (46%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 3 EWKSQN-SGTEQWAVLQDLLPATLYRVRVLAENSLGAGRPS 42
EWK GT L L P T Y VRV A N G G PS
Sbjct: 44 EWKEITVPGTTTSYTLTGLKPGTEYEVRVQAVNGAGEGPPS 84
>gnl|CDD|214495 smart00060, FN3, Fibronectin type 3 domain. One of three types of
internal repeat within the plasma protein, fibronectin.
The tenth fibronectin type III repeat contains a RGD
cell recognition sequence in a flexible loop between 2
strands. Type III modules are present in both
extracellular and intracellular proteins.
Length = 83
Score = 58.8 bits (142), Expect = 8e-12
Identities = 29/87 (33%), Positives = 42/87 (48%), Gaps = 7/87 (8%)
Query: 58 PSGLHAVAISSDSIRVTWSPPPAHLTNGDLLGYYLGYREQGFGRQNSYNFTTIPNRSDGA 117
PS L ++S S+ ++W PPP G ++GY + YRE+G N T
Sbjct: 4 PSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYREEG-SEWKEVNVTPSSTS---- 58
Query: 118 GVATLTGLRKYRKYDIVVQAFNEKGPG 144
TLTGL+ +Y+ V+A N G G
Sbjct: 59 --YTLTGLKPGTEYEFRVRAVNGAGEG 83
Score = 41.1 bits (96), Expect = 3e-05
Identities = 15/39 (38%), Positives = 27/39 (69%)
Query: 162 PPLDITCSALSSTSLSVTWQPPPLLLQNGEILGYKVYYE 200
PP ++ + ++STS++++W+PPP G I+GY+V Y
Sbjct: 3 PPSNLRVTDVTSTSVTLSWEPPPDDGITGYIVGYRVEYR 41
Score = 33.7 bits (77), Expect = 0.012
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 1 DVEWKSQN-SGTEQWAVLQDLLPATLYRVRVLAENSLGAG 39
EWK N + + L L P T Y RV A N G G
Sbjct: 44 GSEWKEVNVTPSSTSYTLTGLKPGTEYEFRVRAVNGAGEG 83
>gnl|CDD|222106 pfam13403, Hint_2, Hint domain. This domain is found in inteins.
Length = 147
Score = 28.6 bits (65), Expect = 1.3
Identities = 22/70 (31%), Positives = 27/70 (38%), Gaps = 17/70 (24%)
Query: 22 PATLYRVRVLAENSLGAGRPSDPLLVHTEAEPPTAEPSGLHAVAISSDSIRVTWSPP--- 78
P L VR+ +LG G P LLV S H V +SS + +
Sbjct: 53 PPRLRPVRI-RAGALGNGLPERDLLV-----------SPQHRVLVSSPIAELLFGEDEVL 100
Query: 79 -PA-HLTNGD 86
PA HL NG
Sbjct: 101 VPAKHLVNGP 110
>gnl|CDD|221976 pfam13199, Glyco_hydro_66, Glycosyl hydrolase family 66. This
family is a set of glycosyl hydrolase enzymes including
cycloisomaltooligosaccharide glucanotransferase
(EC:2.4.1.-) and dextranase (EC:3.2.1.11) activities.
Length = 564
Score = 28.4 bits (64), Expect = 2.9
Identities = 12/53 (22%), Positives = 21/53 (39%)
Query: 132 DIVVQAFNEKGPGPMSSEVSVQTLEDVPAAPPLDITCSALSSTSLSVTWQPPP 184
+ + A + G G + V L +V + + +S SL+ W PP
Sbjct: 12 TVNLTASLKNGTGGGTVTVRYYHLGEVVGETEVTLKLKPGASWSLTFEWTPPA 64
>gnl|CDD|79056 PRK12581, PRK12581, oxaloacetate decarboxylase; Provisional.
Length = 468
Score = 28.2 bits (62), Expect = 3.2
Identities = 17/56 (30%), Positives = 25/56 (44%)
Query: 44 PLLVHTEAEPPTAEPSGLHAVAISSDSIRVTWSPPPAHLTNGDLLGYYLGYREQGF 99
PL+VHT A ++ + L AV +D I SP + YL +E G+
Sbjct: 208 PLIVHTHATSGISQMTYLAAVEAGADRIDTALSPFSEGTSQPATESMYLALKEAGY 263
>gnl|CDD|215292 PLN02533, PLN02533, probable purple acid phosphatase.
Length = 427
Score = 28.1 bits (62), Expect = 4.2
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 30 VLAENSLGAGRPS--DPLLVHTEAEPPTAEPSGLHAVAISSDSIRVTW---SPPPAHLTN 84
VLA N L RP L++H + E P +H + D +R++W P +
Sbjct: 14 VLAGNVLSYDRPGTRKNLVIHPDNEDDPTHPDQVHISLVGPDKMRISWITQDSIPPSVVY 73
Query: 85 GDLLGYYLGYREQGFGRQNSYNFTTI 110
G + G Y G G +SY++ I
Sbjct: 74 GTVSGKYEG---SANGTSSSYHYLLI 96
>gnl|CDD|114473 pfam05749, Rubella_E2, Rubella membrane glycoprotein E2. Rubella
virus (RV), the sole member of the genus Rubivirus
within the family Togaviridae, is a small enveloped,
positive strand RNA virus. The nucleocapsid consists of
40S genomic RNA and a single species of capsid protein
which is enveloped within a host-derived lipid bilayer
containing two viral glycoproteins, E1 (58 kDa) and E2
(42-46 kDa). In virus infected cells, RV matures by
budding either at the plasma membrane, or at the
internal membranes depending on the cell type and enters
adjacent uninfected cells by a membrane fusion process
in the endosome, directed by E1-E2 heterodimers. The
heterodimer formation is crucial for E1 transport out of
the endoplasmic reticulum to the Golgi and plasma
membrane. In RV E1, a cysteine at position 82 is crucial
for the E1-E2 heterodimer formation and cell surface
expression of the two proteins.
Length = 267
Score = 27.4 bits (60), Expect = 4.9
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 53 PPTAEPSGLHAVAISSDSIRVTWSPPPAHLTNGDLLGYYL 92
PP A P+ L A S+ + +P P H D G +L
Sbjct: 97 PPPATPTPLTTAANSTTAATPATAPAPCHAGLNDSCGGFL 136
>gnl|CDD|180337 PRK05985, PRK05985, cytosine deaminase; Provisional.
Length = 391
Score = 27.2 bits (61), Expect = 6.3
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 7/36 (19%)
Query: 68 SDSIRVTWSPPPAHLTNGDLLG--YYLGYREQGFGR 101
+D IR TW P NGD+L +GYR GF
Sbjct: 295 NDGIRDTWWP----YGNGDMLERAMLIGYR-SGFRT 325
>gnl|CDD|153301 cd07617, BAR_Endophilin_B2, The Bin/Amphiphysin/Rvs (BAR) domain of
Endophilin-B2. BAR domains are dimerization, lipid
binding and curvature sensing modules found in many
different proteins with diverse functions. Endophilins
play roles in synaptic vesicle formation, virus budding,
mitochondrial morphology maintenance, receptor-mediated
endocytosis inhibition, and endosomal sorting.
Endophilins contain an N-terminal N-BAR domain (BAR
domain with an additional N-terminal amphipathic helix),
followed by a variable region containing proline
clusters, and a C-terminal SH3 domain. They are
classified into two types, A and B. Vertebrates contain
two endophilin-B isoforms. Endophilin-B proteins are
cytoplasmic proteins expressed mainly in the heart,
placenta, and skeletal muscle. Endophilin-B2, also
called SH3GLB2 (SH3-domain GRB2-like endophilin B2), is
a cytoplasmic protein that interacts with the apoptosis
inducer Bax. It is overexpressed in prostate cancer
metastasis and has been identified as a cancer antigen
with potential utility in immunotherapy. Endophilin-B2
forms homo- and heterodimers (with endophilin-B1)
through its BAR domain, which can bind and bend
membranes.
Length = 220
Score = 26.9 bits (59), Expect = 6.7
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 79 PAHLTNGDLLGYYLGYREQGFGRQNSYNFTTI 110
P+ +TN +LLG Y+ FG Y T I
Sbjct: 65 PSRVTNAELLGQYMTEAANDFGPGTPYGKTLI 96
>gnl|CDD|218627 pfam05540, Serpulina_VSP, Serpulina hyodysenteriae variable surface
protein. This family consists of several variable
surface proteins from Serpulina hyodysenteriae.
Length = 377
Score = 26.8 bits (59), Expect = 8.9
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 92 LGYREQGFGRQNSYNFTTIPNRSDGAGVAT 121
+GY GFG YN+T + G GV T
Sbjct: 91 IGYTSDGFGIGVGYNYTYTAAANKGLGVHT 120
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 26.5 bits (59), Expect = 9.6
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 7/31 (22%)
Query: 63 AVAISSDSIRV-------TWSPPPAHLTNGD 86
A+ ++ D IRV TWS L+ GD
Sbjct: 165 AMDLAPDGIRVNSVSPGWTWSRVMDELSGGD 195
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
0.313 0.132 0.397
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,821,165
Number of extensions: 991675
Number of successful extensions: 587
Number of sequences better than 10.0: 1
Number of HSP's gapped: 581
Number of HSP's successfully gapped: 24
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
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 (21.9 bits)
S2: 57 (25.7 bits)