BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 009733
(527 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|B0S733|REN3A_DANRE Regulator of nonsense transcripts 3A OS=Danio rerio GN=upf3a PE=2
SV=2
Length = 452
Score = 85.1 bits (209), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 59/170 (34%), Positives = 97/170 (57%), Gaps = 18/170 (10%)
Query: 8 TKVVIRHLPPSLSQNDLLALFRDHFND--RYNWFCFRPGKSSFFYSYKHQRYSRAYVELK 65
+KVVIR LPPSLS++ L ++H + +++F F P S Y H +SRAY+ K
Sbjct: 43 SKVVIRRLPPSLSKDQL----QEHLSPLPSFDYFEFFPADQSL---YPHL-FSRAYINFK 94
Query: 66 KPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSRE-GTIFKDPDYLE 124
P + F + +G+VF++ KG ++ A+VE+AP Q+V K +K + GTI +DP+Y
Sbjct: 95 NPEDIIIFRDRFDGYVFIDNKGQEYPAVVEFAPFQKVSKKKLKKKDAKAGTIEEDPEYRR 154
Query: 125 FLKVIAKPAE-NLPSAEIQLERKEAELSGAPKETLV--VTPLMEYVRQKR 171
FL+ + E ++ + E L E+ +E + TPL+EY++ K+
Sbjct: 155 FLENYSCDEEKSMANPETLL----GEIEAKTRELIAKRTTPLLEYIKNKK 200
>sp|Q9BZI7|REN3B_HUMAN Regulator of nonsense transcripts 3B OS=Homo sapiens GN=UPF3B PE=1
SV=1
Length = 483
Score = 77.0 bits (188), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 56/170 (32%), Positives = 93/170 (54%), Gaps = 18/170 (10%)
Query: 8 TKVVIRHLPPSLSQNDLLALFRDHFND--RYNWFCFRPGKSSFFYSYKHQRYSRAYVELK 65
+KVVIR LPP+L++ L ++H +++F F +S Y H Y+RAY+ K
Sbjct: 51 SKVVIRRLPPTLTKEQL----QEHLQPMPEHDYFEFFSNDTSL---YPHM-YARAYINFK 102
Query: 66 KPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSRE-GTIFKDPDYLE 124
+ F + +G+VF++ KG ++ AIVE+AP Q+ K ++K + GTI DP+Y +
Sbjct: 103 NQEDIILFRDRFDGYVFLDNKGQEYPAIVEFAPFQKAAKKKTKKRDTKVGTIDDDPEYRK 162
Query: 125 FLKVIAKPAENLPSA-EIQLERKEAELSGAPKETLV--VTPLMEYVRQKR 171
FL+ A E + S E LE E+ +E + TPL+ +++ K+
Sbjct: 163 FLESYATDNEKMTSTPETLLE----EIEAKNRELIAKKTTPLLSFLKNKQ 208
>sp|Q9H1J1|REN3A_HUMAN Regulator of nonsense transcripts 3A OS=Homo sapiens GN=UPF3A PE=1
SV=1
Length = 476
Score = 73.9 bits (180), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 52/169 (30%), Positives = 89/169 (52%), Gaps = 16/169 (9%)
Query: 8 TKVVIRHLPPSLSQNDLLALFRD-HFNDRYNWFCFRPGKSSFFYSYKHQRYSRAYVELKK 66
+KVVIR LPP L++ L R +D + +F ++ Y H YSRAY+ +
Sbjct: 68 SKVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFF------AADLSLYPHL-YSRAYINFRN 120
Query: 67 PAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSRE-GTIFKDPDYLEF 125
P + F + +G++F++ KG ++ A+VE+AP Q++ K RK + G+I DP+Y +F
Sbjct: 121 PDDILLFRDRFDGYIFLDSKGLEYPAVVEFAPFQKIAKKKLRKKDAKTGSIEDDPEYKKF 180
Query: 126 LKVIAKPAENLPS-AEIQLERKEAELSGAPKETLV--VTPLMEYVRQKR 171
L+ E + E L E+ +E + TPL+EY++ ++
Sbjct: 181 LETYCVEEEKTSANPETLL----GEMEAKTRELIARRTTPLLEYIKNRK 225
>sp|Q10267|UPF3_SCHPO Nonsense-mediated mRNA decay protein 3 OS=Schizosaccharomyces pombe
(strain 972 / ATCC 24843) GN=upf3 PE=3 SV=1
Length = 278
Score = 70.5 bits (171), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 83/165 (50%), Gaps = 15/165 (9%)
Query: 9 KVVIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSSFFYSYKHQRYSRAYVELKKPA 68
KV++ +LPP+L + L + F W F GK++ + + S AY++ +
Sbjct: 13 KVLVFNLPPTLPEQVFLQSI-NSFLPHVEWHRFSKGKATV--GTRSELLSFAYLKFQSAT 69
Query: 69 GVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIFKDPDYLEFLKV 128
V EF + GH F+++K ++AIV AP Q++P + DS EG++ +DP + EF KV
Sbjct: 70 AVQEFFRVYQGHTFIDKKNNTYRAIVTIAPYQKIPPSKVKADSLEGSLEQDPKFQEF-KV 128
Query: 129 IAKPAENLPSAEIQLERKEAELSGAPKETLVVTPLMEYVRQKRAA 173
+ S + +E+ + TPL++Y+ +K+ A
Sbjct: 129 QRESYSQTASNDDVIEKLQTS-----------TPLLQYLAEKKNA 162
>sp|P48412|UPF3_YEAST Nonsense-mediated mRNA decay protein 3 OS=Saccharomyces cerevisiae
(strain ATCC 204508 / S288c) GN=UPF3 PE=1 SV=1
Length = 387
Score = 43.1 bits (100), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 66/142 (46%), Gaps = 19/142 (13%)
Query: 9 KVVIRHLPPSLSQNDLLALFRDHFND-----------RYNWFCFRPGKSSFFYS---YKH 54
K+VIR LPP+L+ ++ A+ RD+ ND +Y+ +CF G YS +K+
Sbjct: 87 KLVIRLLPPNLTADEFFAILRDNNNDDGDKQDIQGKLKYSDWCFFEGH----YSSKVFKN 142
Query: 55 QRYSRAYVELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKD-SRE 113
YSR + + + A + F++ K ++ +P + S+KD +
Sbjct: 143 STYSRCNFLFDNLSDLEKCANFIKTCKFIDNKDNITIPDMKLSPYVKKFTQTSKKDAALV 202
Query: 114 GTIFKDPDYLEFLKVIAKPAEN 135
GTI +D + F+ + + EN
Sbjct: 203 GTIEEDEIFKTFMNSMKQLNEN 224
>sp|Q8MCM4|MATK_TRIRP Maturase K OS=Trifolium repens GN=matK PE=3 SV=1
Length = 506
Score = 36.2 bits (82), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 47/120 (39%), Gaps = 18/120 (15%)
Query: 11 VIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSSF---------FYSYKHQRYSRAY 61
++R+ + LL LF HF NW CF P K S + + H Y Y
Sbjct: 163 ILRYWVKDVPFFHLLRLFLSHFC---NWNCFIPTKKSISTFSKRNPRLFLFLHNFYVCEY 219
Query: 62 VELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIFKDPD 121
+F F + H+ + F+ I YA + + + FS+ S FKDP+
Sbjct: 220 ------ESIFLFLRNKSSHLRLKSFSVFFERIFFYAKRKHLVEVFSKDFSYTLPFFKDPN 273
>sp|Q8MCL9|MATK_TRITL Maturase K OS=Trifolium thalii GN=matK PE=3 SV=1
Length = 506
Score = 35.8 bits (81), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 47/120 (39%), Gaps = 18/120 (15%)
Query: 11 VIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSSF---------FYSYKHQRYSRAY 61
++R+ + LL LF HF NW CF P K S + + H Y Y
Sbjct: 163 ILRYWVKDVPFFHLLRLFLYHFC---NWNCFIPTKKSISTFSKRNPRLFLFLHNFYVCEY 219
Query: 62 VELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIFKDPD 121
+F F + H+ + F+ I YA + + + FS+ S FKDP+
Sbjct: 220 ------ESIFLFLRNKSSHLRLKSFSVFFERIFFYAKREHLVEVFSKDFSYTLPFFKDPN 273
>sp|Q46IC6|THIG_PROMT Thiazole synthase OS=Prochlorococcus marinus (strain NATL2A)
GN=thiG PE=3 SV=1
Length = 268
Score = 35.0 bits (79), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 60/140 (42%), Gaps = 18/140 (12%)
Query: 163 LMEYVRQKR-------AAESGAQESLAVGRVGRRSRAASASKTSSTTTKRGSEKKKYILK 215
LME + KR A S A+E++ + R+GR + +T++ KKY+L
Sbjct: 61 LMESIDWKRIWMLPNTAGCSNAEEAIRIARLGRELAKLAGQETNNFVKLEVIPDKKYLLP 120
Query: 216 D---SAKNARRKDKSTFTVVAKREDQPASSSGKETSASETICGVEGSVGIPLTSDTGKK- 271
D + K A + K FTV+ P + E E C +G P+ S G +
Sbjct: 121 DPIGTLKAAEQLVKEGFTVLPYINSDPLIAKQLE----EIGCATVMPLGSPIGSAQGIRN 176
Query: 272 --KILLLKGKEREIPHVPDA 289
I ++ + R IP + DA
Sbjct: 177 AANIAMIIAESR-IPIIIDA 195
>sp|G5EBZ4|LE418_CAEEL Protein let-418 OS=Caenorhabditis elegans GN=let-418 PE=1 SV=1
Length = 1829
Score = 34.7 bits (78), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 450 VTRGEMKDDMSYGSKTV---DIAAPTSGGSHRHNGRRAATNITKDDGCINMIEGKSSKRR 506
+++ E+ D + +G++ + D+ A GS + AA I DD ++ + +S+K
Sbjct: 1087 MSKTELDDVLRWGTEELFSEDLDAAEGEGSEKKGA--AAQEIVWDDAAVDALLDRSNKEE 1144
Query: 507 GAAGSGGNEKQVW 519
AG G EK W
Sbjct: 1145 TPAGEDGEEKAEW 1157
>sp|Q5YJV6|MATK_TRIBE Maturase K OS=Trifolium beckwithii GN=matK PE=3 SV=1
Length = 506
Score = 33.9 bits (76), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 48/124 (38%), Gaps = 26/124 (20%)
Query: 11 VIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSS-------------FFYSYKHQRY 57
++R+ + LL LF HF NW CF P K S F Y++ Y
Sbjct: 163 ILRYWVKDVPFFHLLRLFLYHFC---NWNCFIPTKKSISTFSKSNPRLFLFLYNFYVCEY 219
Query: 58 SRAYVELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIF 117
++ L+ + H+ + F+ I YA + + + FS+ S F
Sbjct: 220 ESIFLFLRNKSY----------HLRLKSFSVFFERIFFYAKREHLVEVFSKDFSYTLPFF 269
Query: 118 KDPD 121
KDP+
Sbjct: 270 KDPN 273
>sp|Q8MCN9|MATK_TRIAO Maturase K OS=Trifolium albopurpureum GN=matK PE=3 SV=1
Length = 506
Score = 33.9 bits (76), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 48/124 (38%), Gaps = 26/124 (20%)
Query: 11 VIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSS-------------FFYSYKHQRY 57
++R+ + LL LF HF NW CF P K S F Y++ Y
Sbjct: 163 ILRYWVKDVPFFHLLRLFLYHFC---NWNCFIPTKKSISTFSKSNPRLFLFLYNFYVCEY 219
Query: 58 SRAYVELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIF 117
++ L+ + H+ + F+ I YA + + + FS+ S F
Sbjct: 220 ESIFLFLRNKSY----------HLRLKSFSVFFERIFFYAKREHLVEVFSKDFSYTLPFF 269
Query: 118 KDPD 121
KDP+
Sbjct: 270 KDPN 273
>sp|Q8MCN2|MATK_TRIGC Maturase K OS=Trifolium gracilentum GN=matK PE=3 SV=1
Length = 506
Score = 33.9 bits (76), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 48/124 (38%), Gaps = 26/124 (20%)
Query: 11 VIRHLPPSLSQNDLLALFRDHFNDRYNWFCFRPGKSS-------------FFYSYKHQRY 57
++R+ + LL LF HF NW CF P K S F Y++ Y
Sbjct: 163 ILRYWVKDVPFFHLLRLFLYHFC---NWNCFIPTKKSISTFSKSNPRLFLFLYNFYVCEY 219
Query: 58 SRAYVELKKPAGVFEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIF 117
++ L+ + H+ + F+ I YA + + + FS+ S F
Sbjct: 220 ESIFLFLRNKSY----------HLRLKSFSVFFERIFFYAKREHLVEVFSKDFSYTLPFF 269
Query: 118 KDPD 121
KDP+
Sbjct: 270 KDPN 273
>sp|Q8MCN8|MATK_TRIRS Maturase K OS=Trifolium resupinatum GN=matK PE=3 SV=1
Length = 506
Score = 32.7 bits (73), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 41/111 (36%), Gaps = 23/111 (20%)
Query: 24 LLALFRDHFNDRYNWFCFRPGKSS-------------FFYSYKHQRYSRAYVELKKPAGV 70
L L R D NW CF P K S F Y++ Y ++ L+ +
Sbjct: 173 LFHLLRLFLYDFCNWNCFTPTKKSISTFSKSNPRLFLFLYNFYVCEYESIFLFLRNKSS- 231
Query: 71 FEFAELLNGHVFVNEKGAQFKAIVEYAPSQRVPKPFSRKDSREGTIFKDPD 121
H+ + F+ I YA + + + FS+ S FKDP+
Sbjct: 232 ---------HLRLKSFSVFFERIFFYAKREHLVEVFSKDFSYTLPFFKDPN 273
>sp|Q6GLY8|SGK1B_XENLA Serine/threonine-protein kinase Sgk1-B OS=Xenopus laevis GN=sgk1-b
PE=2 SV=1
Length = 434
Score = 32.7 bits (73), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 53/121 (43%), Gaps = 24/121 (19%)
Query: 313 QRREAGGRLIRKILLNN----ETRQTQSVTGVQPQQKMQNLNQENGKPLP--------GP 360
QRR I+KI N+ + + QS+ + P Q+ + LN EN P P GP
Sbjct: 32 QRRMGLNEFIQKIATNSSYSCKPSEVQSILNISPPQESELLN-ENSSPPPSHSQQINLGP 90
Query: 361 TSSPNGHVTNNDSPIFSFDGN--------TKRSSDDRF-ARKVLHGSGAVSEKQEKRTRN 411
+S+P H +D G + +D++F A KVL + +K+EK +
Sbjct: 91 SSNP--HAKPSDFQFLKIIGKGSFGKVLLARHKADEKFYAVKVLQKKAILKKKEEKHIMS 148
Query: 412 K 412
+
Sbjct: 149 E 149
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.311 0.127 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 195,561,109
Number of Sequences: 539616
Number of extensions: 8491740
Number of successful extensions: 21557
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 173
Number of HSP's that attempted gapping in prelim test: 21369
Number of HSP's gapped (non-prelim): 337
length of query: 527
length of database: 191,569,459
effective HSP length: 122
effective length of query: 405
effective length of database: 125,736,307
effective search space: 50923204335
effective search space used: 50923204335
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 64 (29.3 bits)