RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9136
(186 letters)
>gnl|CDD|218900 pfam06105, Aph-1, Aph-1 protein. This family consists of several
eukaryotic Aph-1 proteins.Gamma-secretase catalyzes the
intramembrane proteolysis of Notch, beta-amyloid
precursor protein, and other substrates as part of a new
signaling paradigm and as a key step in the pathogenesis
of Alzheimer's disease. It is thought that the
presenilin heterodimer comprises the catalytic site and
that a highly glycosylated form of nicastrin associates
with it. Aph-1 and Pen-2, two membrane proteins
genetically linked to gamma-secretase, associate
directly with presenilin and nicastrin in the active
protease complex. Co-expression of all four proteins
leads to marked increases in presenilin heterodimers,
full glycosylation of nicastrin, and enhanced
gamma-secretase activity.
Length = 237
Score = 108 bits (273), Expect = 1e-29
Identities = 58/144 (40%), Positives = 88/144 (61%), Gaps = 5/144 (3%)
Query: 31 KKSRGGLQYVSDRNTM-DNTYAMAYVSGLGYGTISAAFSLLNVLDQVSGPGTMGLKGESQ 89
KK+ GL ++D+ + + + +AYVSGLG+G IS FSL+N+L SGPGT+GL G+SQ
Sbjct: 85 KKAEEGLDSIADQGQIPIDKHQLAYVSGLGFGVISGVFSLVNILADSSGPGTVGLHGDSQ 144
Query: 90 YFGFTTSIFTCCFSLLHVFWSIVFFRGVEIKNRTLVASVVLSHIFISSYTWYMNSSGLFS 149
YF T++ T LLH FW ++FF G E + + +A VV+SH+ +S T + + L+
Sbjct: 145 YFFLTSAFITLAIILLHTFWGVIFFDGCEKRKYSHIAFVVVSHLVVSGLT--LLNRPLYE 202
Query: 150 VLFIIVF--TLFTAMFAYKVIGGS 171
+I + L +A+ V GGS
Sbjct: 203 ASLVISYIILLLMGAWAFVVAGGS 226
Score = 41.1 bits (97), Expect = 1e-04
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 2 TYMEFLGCTMTAFGPVIAMFLTTIMQDPVK 31
T F GCT AFGP +A+FL TI +DP++
Sbjct: 1 TVAVFFGCTFIAFGPALALFLLTIARDPLR 30
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 30.3 bits (69), Expect = 0.59
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 116 GVEIKNRTLVASVVLSHIFIS 136
GV I + +VA+ LSH +I+
Sbjct: 357 GVRITDPAIVAAATLSHRYIT 377
>gnl|CDD|165107 PHA02740, PHA02740, protein tyrosine phosphatase; Provisional.
Length = 298
Score = 27.2 bits (60), Expect = 4.7
Identities = 11/81 (13%), Positives = 30/81 (37%), Gaps = 8/81 (9%)
Query: 42 DRNTMDNTYAMAYVSGLGYGTISAAFSLLNV-LDQVSGPGTMGL-----KGESQYFGFTT 95
+++ D A + + + SA F + ++ + G + + K + +G
Sbjct: 213 EKHKADGKIAPIIIDCIDGISSSAVFCVFDICATEFDKTGMLSIANALKKVRQKKYGCMN 272
Query: 96 SI--FTCCFSLLHVFWSIVFF 114
+ + C+ L+ + F
Sbjct: 273 CLDDYVFCYHLIAAYLKEKFD 293
>gnl|CDD|214413 MTH00062, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 417
Score = 27.6 bits (62), Expect = 4.9
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 11/66 (16%)
Query: 102 FSLLHVFWSIVFFRGVEIKNRTLVASVVLSHIFISS----YTWYMNSSGLFSVLFIIVFT 157
L + +FF G LV ++L H+ I S N S LF ++F++ +
Sbjct: 358 LVYLLFWCFYLFFGG-------LVPLILLGHLLIRSESYESINVSNYSYLFFLIFLVFWC 410
Query: 158 LFTAMF 163
+
Sbjct: 411 YLGFLV 416
>gnl|CDD|185085 PRK15131, PRK15131, mannose-6-phosphate isomerase; Provisional.
Length = 389
Score = 27.2 bits (61), Expect = 5.3
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 134 FISSYTWYMNSSGLFSVLFIIVFTLF--TAMFAY 165
IS + Y + SGLFS L + V L AMF +
Sbjct: 219 LISEF--YPDDSGLFSPLLLNVVKLNPGEAMFLF 250
>gnl|CDD|219875 pfam08510, PIG-P, PIG-P. PIG-P (phosphatidylinositol
N-acetylglucosaminyltransferase subunit P) is an enzyme
involved in GPI anchor biosynthesis.
Length = 123
Score = 26.5 bits (59), Expect = 5.8
Identities = 6/27 (22%), Positives = 14/27 (51%)
Query: 87 ESQYFGFTTSIFTCCFSLLHVFWSIVF 113
+Y+GF I + +L++ W+ +
Sbjct: 2 TREYYGFVLYILSTLLFVLYLLWAFLP 28
>gnl|CDD|214414 MTH00063, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 522
Score = 26.8 bits (60), Expect = 7.2
Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 97 IFTCCFSLLHVFWSIVFFRGVEIKNRTLVASVVLSHIFISSYTWYMNSSGLFSVLFIIVF 156
+F F + S+ FFR EI L+ V Y+W+ + L S+ F++++
Sbjct: 462 LFYELFYSILDLVSLFFFRW-EIYLIELLCGVG--SSSSLLYSWFSLNLLLLSLFFLLIY 518
Query: 157 TLF 159
L
Sbjct: 519 LLI 521
>gnl|CDD|215194 PLN02340, PLN02340, endoglucanase.
Length = 614
Score = 26.8 bits (59), Expect = 7.7
Identities = 13/53 (24%), Positives = 26/53 (49%)
Query: 30 VKKSRGGLQYVSDRNTMDNTYAMAYVSGLGYGTISAAFSLLNVLDQVSGPGTM 82
++ + GGL YV + N + + A++ + +SAA + L D + P +
Sbjct: 330 IQLTPGGLMYVREWNNLQYASSAAFLLAVYSDYLSAANAKLRCPDGLVQPQEL 382
>gnl|CDD|189685 pfam00718, Polyoma_coat, Polyomavirus coat protein.
Length = 297
Score = 26.6 bits (59), Expect = 8.4
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 11/37 (29%)
Query: 72 VLDQVSGPGT-----------MGLKGESQYFGFTTSI 97
VLD +GP + MG ESQY+GF+TSI
Sbjct: 9 VLDVKTGPDSITTIEAYLNPRMGQPDESQYYGFSTSI 45
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 0.138 0.417
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,194,674
Number of extensions: 839963
Number of successful extensions: 1595
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1568
Number of HSP's successfully gapped: 152
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
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: 56 (25.3 bits)