BLASTP 2.2.23 [Feb-03-2010]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment:
Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= Os05g0108000 Os05g0108000|AK065542
(488 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os05g0108000 tRNA pseudouridine synthase B family protein 811 0.0
Os03g0370500 Similar to H/ACA ribonucleoprotein complex sub... 100 3e-21
Os07g0636000 Similar to H/ACA ribonucleoprotein complex sub... 99 7e-21
Os04g0576300 Pseudouridylate synthase TruB, N-terminal doma... 82 1e-15
>Os05g0108000 tRNA pseudouridine synthase B family protein
Length = 488
Score = 811 bits (2095), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 398/434 (91%), Positives = 398/434 (91%)
Query: 55 NPPKSSAADDRHTRPTDDHXXXXXXXXXXXXXXXXXPDPDATTAKPXXXXXXEFVELKPE 114
NPPKSSAADDRHTRPTDDH PDPDATTAKP EFVELKPE
Sbjct: 55 NPPKSSAADDRHTRPTDDHLDRAKRRYLRKRRSRLLPDPDATTAKPSSSSSSEFVELKPE 114
Query: 115 VVDFPRLHAREEALYFHDAFALPWEKDKHYRMLYRLEKKYFPDQSLDNAFVXXXXXXXXX 174
VVDFPRLHAREEALYFHDAFALPWEKDKHYRMLYRLEKKYFPDQSLDNAFV
Sbjct: 115 VVDFPRLHAREEALYFHDAFALPWEKDKHYRMLYRLEKKYFPDQSLDNAFVPADASPPSS 174
Query: 175 XXXXKGLVFFDDDDNNKEAEVKKKKDGEDRGEVLERKVEDFFRSLKKGPGHGEANVMKAK 234
KGLVFFDDDDNNKEAEVKKKKDGEDRGEVLERKVEDFFRSLKKGPGHGEANVMKAK
Sbjct: 175 DAADKGLVFFDDDDNNKEAEVKKKKDGEDRGEVLERKVEDFFRSLKKGPGHGEANVMKAK 234
Query: 235 KKEPPQVRHEADEWPQPHLASRRTELPPRWNGPTGTVVLIDKPKGWTSFTVCGKLRRLVN 294
KKEPPQVRHEADEWPQPHLASRRTELPPRWNGPTGTVVLIDKPKGWTSFTVCGKLRRLVN
Sbjct: 235 KKEPPQVRHEADEWPQPHLASRRTELPPRWNGPTGTVVLIDKPKGWTSFTVCGKLRRLVN 294
Query: 295 VQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMVKGYSGVFRLGEATSTWDADSPVIQ 354
VQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMVKGYSGVFRLGEATSTWDADSPVIQ
Sbjct: 295 VQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMVKGYSGVFRLGEATSTWDADSPVIQ 354
Query: 355 REPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGETVELSPRRISIH 414
REPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGETVELSPRRISIH
Sbjct: 355 REPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGETVELSPRRISIH 414
Query: 415 QFDIERSLEDRQNLIFRVICSKGTYIRSLCADLGKALGSCAHLTALRRDSIGDFSVNDAW 474
QFDIERSLEDRQNLIFRVICSKGTYIRSLCADLGKALGSCAHLTALRRDSIGDFSVNDAW
Sbjct: 415 QFDIERSLEDRQNLIFRVICSKGTYIRSLCADLGKALGSCAHLTALRRDSIGDFSVNDAW 474
Query: 475 SFAELEEQITKGYL 488
SFAELEEQITKGYL
Sbjct: 475 SFAELEEQITKGYL 488
>Os03g0370500 Similar to H/ACA ribonucleoprotein complex subunit 4 (EC 5.4.99.-)
(Nucleolar protein NAP57 homolog) (Nopp-140 associated
protein of 57 kDa homolog) (AtNAP57)
Length = 591
Score = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 67/205 (32%), Positives = 94/205 (45%), Gaps = 40/205 (19%)
Query: 271 VVLIDKPKGWTSFTVCGKLRRLVNVQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMV 330
V+ +DKP +S V ++RL+ V+K GH+GTLDP TG LIVCV +AT++V QG
Sbjct: 109 VINLDKPSNPSSHEVVAWIKRLLRVEKTGHSGTLDPKVTGNLIVCVDRATRLVKSQQGAG 168
Query: 331 KGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVG 390
K Y V R A P R + + + G ++Q PP+ SA+K
Sbjct: 169 KEYVCVARFHAAV-------PDTAR----------VARALEALTGAVFQRPPLISAVK-- 209
Query: 391 GEKMYDKARRGETVELSPRRISIHQFDIERSLE---DRQNLIFRVICSKGTYIRSLCADL 447
R++ + + LE DR +F + C GTY+R+LC L
Sbjct: 210 ------------------RQLRVRTIYESKLLEHDADRHLAVFWISCEAGTYVRTLCVHL 251
Query: 448 GKALGSCAHLTALRRDSIGDFSVND 472
G LG AH+ LRR G D
Sbjct: 252 GLLLGVGAHMQELRRVRSGILGETD 276
>Os07g0636000 Similar to H/ACA ribonucleoprotein complex subunit 4 (EC 5.4.99.-)
(Nucleolar protein NAP57 homolog) (Nopp-140 associated
protein of 57 kDa homolog) (AtNAP57)
Length = 600
Score = 99.0 bits (245), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 67/205 (32%), Positives = 93/205 (45%), Gaps = 40/205 (19%)
Query: 271 VVLIDKPKGWTSFTVCGKLRRLVNVQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMV 330
V+ +DKP +S V ++RL+ V K GH+GTLDP TG LIVCV +AT++V QG
Sbjct: 105 VINLDKPSNPSSHEVVAWIKRLLRVDKTGHSGTLDPKVTGNLIVCVDRATRLVKSQQGAG 164
Query: 331 KGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVG 390
K Y V R A P R + + + G ++Q PP+ SA+K
Sbjct: 165 KEYVCVARFHAAV-------PDTAR----------VARALEALTGAVFQRPPLISAVK-- 205
Query: 391 GEKMYDKARRGETVELSPRRISIHQFDIERSLE---DRQNLIFRVICSKGTYIRSLCADL 447
R++ + + LE DR +F + C GTY+R+LC L
Sbjct: 206 ------------------RQLRVRTIYESKLLEHDADRHLAVFWISCEAGTYVRTLCVHL 247
Query: 448 GKALGSCAHLTALRRDSIGDFSVND 472
G LG AH+ LRR G D
Sbjct: 248 GLLLGVGAHMQELRRVRSGILGEQD 272
>Os04g0576300 Pseudouridylate synthase TruB, N-terminal domain containing protein
Length = 198
Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 60/182 (32%), Positives = 82/182 (45%), Gaps = 39/182 (21%)
Query: 285 VCGKLRRLVNVQKVGHAGTLDPMATGLLIVCVGKATKVVDRYQGMVKGYSGVFRLGEATS 344
V ++RL+ V K GH+GTLDP TG LIVCV +AT++V QG K Y V R A
Sbjct: 38 VVAWIKRLLRVNKTGHSGTLDPKVTGNLIVCVDRATRLVKSQQGAGKEYVCVARFHAA-- 95
Query: 345 TWDADSPVIQREPWEHIKDEDIRKVAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGETV 404
D + + G ++Q P+ SA+K + R T+
Sbjct: 96 --------------------DTARALEALTGAMFQRLPLISAVK--------RQLRVRTI 127
Query: 405 ELSPRRISIHQFDIERSLEDRQNLIFRVICSKGTYIRSLCADLGKALGSCAHLTALRRDS 464
S + + D ER L +F + C GTY+R+LC LG LG AH+ L R
Sbjct: 128 YES----KLLEHDAERHLA-----VFWISCEAGTYVRTLCVHLGLLLGVGAHMQELHRVR 178
Query: 465 IG 466
G
Sbjct: 179 SG 180
Database: rap3
Posted date: Nov 19, 2010 6:03 PM
Number of letters in database: 17,035,801
Number of sequences in database: 52,214
Lambda K H
0.318 0.136 0.416
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 15,409,609
Number of extensions: 657935
Number of successful extensions: 1714
Number of sequences better than 1.0e-10: 4
Number of HSP's gapped: 1708
Number of HSP's successfully gapped: 4
Length of query: 488
Length of database: 17,035,801
Length adjustment: 105
Effective length of query: 383
Effective length of database: 11,553,331
Effective search space: 4424925773
Effective search space used: 4424925773
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: 158 (65.5 bits)