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= psy14646
(366 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O91080|POL_HV1YF Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group N
(isolate YBF30) GN=gag-pol PE=3 SV=3
Length = 1449
Score = 34.7 bits (78), Expect = 1.2, Method: Composition-based stats.
Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 18/117 (15%)
Query: 127 LQSLNHVKELDTRKILIISDSLSSFQAISNLYHPNP------LVKKIQEEYSNSQANIKF 180
LQ++ + R + I++DS Q + H P LV +I EE + +
Sbjct: 1076 LQAILMALQESGRDVNIVTDS----QYAMGIIHSQPDKSESELVSQIIEELIKKE-RVYL 1130
Query: 181 LWCPSHVSISGNERAEECYSN------YLASVETAIRSDPRFFWKYERSMRKDQSLP 231
W P+H I GNE+ ++ S+ +L +E A R+ + ++M D +LP
Sbjct: 1131 SWVPAHKGIGGNEQVDKLVSSGIRKILFLDGIEKAQEDHDRYHSNW-KAMASDFNLP 1186
>sp|Q77373|POL_HV1AN Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group O
(isolate ANT70) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 33.9 bits (76), Expect = 2.0, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 143 IISDSLSSFQAISN--LYHPNPLVKKIQEEYSNSQANIKFLWCPSHVSISGNERAEECYS 200
I++DS + IS+ +P+V++I EE + + + W P+H I GNE+ ++ S
Sbjct: 1081 IVTDSQYALGVISSQPTQSESPIVQQIIEELTKKE-QVYLTWVPAHKGIGGNEKIDKLVS 1139
>sp|Q79666|POL_HV1MV Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group O
(isolate MVP5180) GN=gag-pol PE=3 SV=3
Length = 1446
Score = 33.9 bits (76), Expect = 2.0, Method: Composition-based stats.
Identities = 24/100 (24%), Positives = 48/100 (48%), Gaps = 10/100 (10%)
Query: 140 KILIISDSLSSFQAISN--LYHPNPLVKKIQEEYSNSQANIKFLWCPSHVSISGNERAEE 197
++ I++DS IS+ +P+V++I EE + + + W P+H I GNE+ ++
Sbjct: 1080 QVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTKKE-RVYLTWVPAHKGIGGNEKIDK 1138
Query: 198 CYSN------YLASVETAIRSDPRFFWKYERSMRKDQSLP 231
S +L ++ A ++ + R++ D LP
Sbjct: 1139 LVSKDIRRVLFLEGIDQAQEDHEKYHSNW-RALASDFGLP 1177
>sp|Q196X5|VF203_IIV3 Uncharacterized protein 085L OS=Invertebrate iridescent virus 3
GN=IIV3-085L PE=3 SV=1
Length = 161
Score = 33.5 bits (75), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 11/75 (14%)
Query: 104 FFNNKHELKDKLLQQIAYVDINSLQSLNHVKELDTRKIL----------IISDSLSSFQA 153
++ K KDKLL+ + + IN++ LN V + DT K++ I D L S
Sbjct: 24 WYPTKTRTKDKLLKDLNTLKINTVNLLNQVLKTDTTKLVDFHIANVHCDGIIDRLLSPDE 83
Query: 154 ISNLYHPN-PLVKKI 167
++ LYH + PL K++
Sbjct: 84 LAQLYHKDYPLYKRL 98
>sp|Q6B8R8|RPOB_GRATL DNA-directed RNA polymerase subunit beta OS=Gracilaria
tenuistipitata var. liui GN=rpoB PE=3 SV=1
Length = 1120
Score = 32.7 bits (73), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 56/117 (47%), Gaps = 11/117 (9%)
Query: 61 QLNETKRFALNKHSSIFHAE--LFSIPLHLSLTNCTIDRDSSIDIFFNNKHELKDKLLQQ 118
++N+ + H + E L S+ L++ I ID N + +LLQ
Sbjct: 301 KINQKLNLKVPTHFRVLSPEDILVSLDYLLNIKEQNIGTFDDIDHLGNRRVRSVGELLQN 360
Query: 119 IAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLYHPNPLVKKIQEEYSNSQ 175
+ +N L+ + ++E R I+ DSLS +SNL +P PL+ ++E +S+SQ
Sbjct: 361 QVRIGLNRLERI--IRE---RMIICDLDSLS----LSNLVNPKPLMASVREFFSSSQ 408
>sp|Q1A249|POL_SIVEK Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate EK505)
GN=gag-pol PE=3 SV=3
Length = 1448
Score = 32.7 bits (73), Expect = 4.7, Method: Composition-based stats.
Identities = 27/105 (25%), Positives = 48/105 (45%), Gaps = 18/105 (17%)
Query: 139 RKILIISDSLSSFQAISNLYHPNP------LVKKIQEEYSNSQANIKFLWCPSHVSISGN 192
+++ I++DS Q + + H P LV +I EE + I W P+H I GN
Sbjct: 1087 QEVNIVTDS----QYVLGIIHSQPDKSESELVNQIIEELIKKE-RIYLSWVPAHKGIGGN 1141
Query: 193 ERAEECYSN------YLASVETAIRSDPRFFWKYERSMRKDQSLP 231
E+ ++ S +L ++ A R+ + ++M D +LP
Sbjct: 1142 EQIDKLVSTGIRKVLFLDGIDKAQEEHERYHSNW-KAMASDFNLP 1185
>sp|P51252|RPOB_PORPU DNA-directed RNA polymerase subunit beta OS=Porphyra purpurea
GN=rpoB PE=3 SV=1
Length = 1143
Score = 32.0 bits (71), Expect = 6.9, Method: Composition-based stats.
Identities = 35/127 (27%), Positives = 57/127 (44%), Gaps = 25/127 (19%)
Query: 62 LNETKRFALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNKHELKD-------- 113
L E R+ +NK + + F + LS + D I+I N L D
Sbjct: 299 LGEVGRYKINKKLGLNIPKTFRV---LSPQDILSSIDYLINIKDKNSGNLDDIDHLGNRR 355
Query: 114 -----KLLQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLYHPNPLVKKIQ 168
+LLQ V +N L+ + ++E R ++ DSLS +SNL +P PL+ ++
Sbjct: 356 VRSVGELLQNQFRVGLNRLERI--IRE---RMMICDIDSLS----LSNLINPKPLIASVR 406
Query: 169 EEYSNSQ 175
E + +SQ
Sbjct: 407 EFFGSSQ 413
>sp|Q1XDN5|RPOB_PORYE DNA-directed RNA polymerase subunit beta OS=Porphyra yezoensis
GN=rpoB PE=3 SV=1
Length = 1143
Score = 32.0 bits (71), Expect = 7.6, Method: Composition-based stats.
Identities = 35/127 (27%), Positives = 57/127 (44%), Gaps = 25/127 (19%)
Query: 62 LNETKRFALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNKHELKD-------- 113
L E R+ +NK + + F + LS + D I+I N L D
Sbjct: 299 LGEVGRYKINKKLGLNIPKTFRV---LSPQDILSSIDYLINIKDKNSGNLDDIDHLGNRR 355
Query: 114 -----KLLQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLYHPNPLVKKIQ 168
+LLQ V +N L+ + ++E R ++ DSLS +SNL +P PL+ ++
Sbjct: 356 VRSVGELLQNQFRVGLNRLERI--IRE---RMMICDIDSLS----LSNLINPKPLIASVR 406
Query: 169 EEYSNSQ 175
E + +SQ
Sbjct: 407 EFFGSSQ 413
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
0.319 0.133 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 132,044,665
Number of Sequences: 539616
Number of extensions: 5256913
Number of successful extensions: 13062
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 13060
Number of HSP's gapped (non-prelim): 27
length of query: 366
length of database: 191,569,459
effective HSP length: 119
effective length of query: 247
effective length of database: 127,355,155
effective search space: 31456723285
effective search space used: 31456723285
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (28.5 bits)