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= psy9180
(491 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 47.0 bits (110), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 10/120 (8%)
Query: 153 YTDGSKTMNTTSCAF-SIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVS 211
YTDG K A+ + + +L PV AE +AI + LE Q IV+
Sbjct: 623 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVNIVT 678
Query: 212 DSRSALAALSNVSFTNPLVSKVYSCWDLLRS--RNKVVHFLWCPSHCGIRGNEAVDEAAR 269
DS N++ L W ++++ ++V+F W P H GI GN+ DEAA+
Sbjct: 679 DS---YYCWKNITEGLGLEGPQNPWWPIIQNIREKEIVYFAWVPGHKGIYGNQLADEAAK 735
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 46.2 bits (108), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 10/120 (8%)
Query: 153 YTDGSKTMNTTSCAF-SIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVS 211
YTDG K A+ + + +L PV AE +AI + LE Q IV+
Sbjct: 624 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVNIVT 679
Query: 212 DSRSALAALSNVSFTNPLVSKVYSCWDLLRS--RNKVVHFLWCPSHCGIRGNEAVDEAAR 269
DS N++ L W ++++ ++V+F W P H GI GN+ DEAA+
Sbjct: 680 DS---YYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGNQLADEAAK 736
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 46.2 bits (108), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 10/120 (8%)
Query: 153 YTDGSKTMNTTSCAF-SIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVS 211
YTDG K A+ + + +L PV AE +AI + LE Q IV+
Sbjct: 624 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVNIVT 679
Query: 212 DSRSALAALSNVSFTNPLVSKVYSCWDLLRS--RNKVVHFLWCPSHCGIRGNEAVDEAAR 269
DS N++ L W ++++ ++V+F W P H GI GN+ DEAA+
Sbjct: 680 DS---YYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGNQLADEAAK 736
>sp|P19560|POL_BIV29 Gag-Pol polyprotein OS=Bovine immunodeficiency virus (strain R29)
GN=gag-pol PE=1 SV=2
Length = 1475
Score = 43.1 bits (100), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 54/135 (40%), Gaps = 9/135 (6%)
Query: 148 NYTICYTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQF 207
N T YTDG K T + + + S N AEL AI C+ + P +
Sbjct: 1001 NLTTYYTDGGKKGKTAAAVYWCEGRTKSKVFPGTNQ--QAELKAI--CMALLDGPP--KM 1054
Query: 208 LIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLRSRNKVVHFLWCPSHCGIRGNEAVDEA 267
I++DSR A + T +L + + V W P+H GI GN DE
Sbjct: 1055 NIITDSRYAYEGMREEPETWAREGIWLEIAKILPFK-QYVGVGWVPAHKGIGGNTEADEG 1113
Query: 268 ARNPVNPTQLKLCSP 282
+ + Q+ CSP
Sbjct: 1114 VKKALE--QMAPCSP 1126
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 42.7 bits (99), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 36/134 (26%), Positives = 55/134 (41%), Gaps = 10/134 (7%)
Query: 140 GVINSKYANYTICYTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAI 199
G + +Y Y YTDG K + + A+ + I N AEL A+ + L+
Sbjct: 956 GPVIERYPTY---YTDGGKKGSKAAAAYWREGKIRREVFPGTNQ--QAELKAVLMALQD- 1009
Query: 200 TVHPSDQFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLRSRNKVVHFLWCPSHCGIR 259
P+ + I++DSR A + T + LR R + V W P H GI
Sbjct: 1010 --GPA-KMNIITDSRYAFEGMREEPETWGREGLWKEIGEELR-RKEYVGVSWVPGHKGIG 1065
Query: 260 GNEAVDEAARNPVN 273
GN VD+ + +
Sbjct: 1066 GNTEVDQEVQKALQ 1079
>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 = 41.2 bits (95), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 10/83 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYSCWDLLRSR 243
AEL+AI L L+ + IV+DS+ AL +S+ +P+V ++ +L ++
Sbjct: 1062 KAELMAILLALQ----DSKETVNIVTDSQYALGVISSQPTQSESPIVQQIIE--EL--TK 1113
Query: 244 NKVVHFLWCPSHCGIRGNEAVDE 266
+ V+ W P+H GI GNE +D+
Sbjct: 1114 KEQVYLTWVPAHKGIGGNEKIDK 1136
>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 = 40.0 bits (92), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 10/83 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYSCWDLLRSR 243
AEL+A+ + L+ +Q IV+DS+ L +S+ +P+V ++ +L ++
Sbjct: 1064 KAELMAVLIALQ----DSKEQVNIVTDSQYVLGIISSQPTQSDSPIVQQIIE--EL--TK 1115
Query: 244 NKVVHFLWCPSHCGIRGNEAVDE 266
+ V+ W P+H GI GNE +D+
Sbjct: 1116 KERVYLTWVPAHKGIGGNEKIDK 1138
>sp|Q9QSR3|POL_HV1VI Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate VI850) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 38.9 bits (89), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 18/87 (20%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDL 239
AEL AIYL L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1058 KAELQAIYLALQ----DSGSEVNIVTDSQYALGIIQAQPDKSESEIVNQIIEQLI----- 1108
Query: 240 LRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1109 ---QKERVYLSWVPAHKGIGGNEQVDK 1132
>sp|P27973|POL_SIVV1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM155) GN=gag-pol PE=3 SV=2
Length = 1470
Score = 38.5 bits (88), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYSCWDLLRSR 243
AEL AI + LE + IV+DS+ A+ L+ +PLV ++ + +
Sbjct: 1089 QAELTAIKMALE----DSGPKVNIVTDSQYAMGILTAQPTQSDSPLVEQIIA----QMVQ 1140
Query: 244 NKVVHFLWCPSHCGIRGNEAVDE 266
+ ++ W P+H GI GNE +D+
Sbjct: 1141 KEAIYLQWVPAHKGIGGNEEIDK 1163
>sp|P03366|POL_HV1B1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH10) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 38.1 bits (87), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1077 ELQAIYLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEQLI------- 1125
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1126 -KKEKVYLAWVPAHKGIGGNEQVDK 1149
>sp|Q9WC63|POL_HV1S9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9173) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 38.1 bits (87), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1062 ELQAIYLALQDSGIEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEELI------- 1110
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1111 -KKEKVYLSWVPAHKGIGGNEQVDK 1134
>sp|P04585|POL_HV1H2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate HXB2) GN=gag-pol PE=1 SV=4
Length = 1435
Score = 38.1 bits (87), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1065 ELQAIYLALQDSGLEVN----IVTDSQYALGIIQAQPDQSESELVNQIIEQLI------- 1113
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1114 -KKEKVYLAWVPAHKGIGGNEQVDK 1137
>sp|P0C6F2|POL_HV1LW Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate LW123) GN=gag-pol PE=1 SV=1
Length = 1435
Score = 37.7 bits (86), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1065 ELQAIYLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEQLI------- 1113
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1114 -KKEKVYLAWVPAHKGIGGNEQVDK 1137
>sp|P16088|POL_FIVPE Pol polyprotein OS=Feline immunodeficiency virus (isolate Petaluma)
GN=pol PE=1 SV=1
Length = 1124
Score = 37.7 bits (86), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 50/117 (42%), Gaps = 13/117 (11%)
Query: 153 YTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSD 212
Y DG + + + A D ++ S AE+ A+ L L+A S++ I++D
Sbjct: 599 YIDGGRKLGKAAKAAYWTDTGKWRVMDLEGSNQKAEIQALLLALKA----GSEEMNIITD 654
Query: 213 SRSALAALSNVSFTNPLVSKVYSCWD--LLRSRNKVVHFL-WCPSHCGIRGNEAVDE 266
S+ + N+ P + W L K F+ W P H GI GNE VD+
Sbjct: 655 SQYVI----NIILQQP--DMMEGIWQEVLEELEKKTAIFIDWVPGHKGIPGNEEVDK 705
>sp|P35963|POL_HV1Y2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate YU-2) GN=gag-pol PE=1 SV=3
Length = 1435
Score = 37.7 bits (86), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNK 245
EL AIYL L+ + + IV+DS+ AL + + LVS++ L++
Sbjct: 1065 ELQAIYLALQDSGLEVN----IVTDSQYALGIIQAQPDRSESELVSQIIE--QLIKKEK- 1117
Query: 246 VVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE VD+
Sbjct: 1118 -VYLAWVPAHKGIGGNEQVDK 1137
>sp|P05895|POL_SIVVT Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM TYO-1) GN=gag-pol PE=3 SV=2
Length = 1467
Score = 37.7 bits (86), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 34/131 (25%), Positives = 57/131 (43%), Gaps = 18/131 (13%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYSCWDLLRSR 243
A+L AI + LE IV+DS+ A+ L+ +PLV ++ + L +
Sbjct: 1092 QAKLTAIKMALE----DSGPNVNIVTDSQYAMGILTAQPTQSDSPLVEQIIA----LMIQ 1143
Query: 244 NKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQLKLCSPEDFKPIAASIVKKE-WQNQWD 302
+ ++ W P+H GI GNE +D+ + + I + K E + N W
Sbjct: 1144 KQQIYLQWVPAHKGIGGNEEIDKLVSKGIRRVLF-------LEKIEEAQEKHERYHNNWK 1196
Query: 303 NVPNTNKLKAI 313
N+ +T L I
Sbjct: 1197 NLADTYGLPQI 1207
>sp|Q73368|POL_HV1B9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (strain 89.6) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 37.4 bits (85), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 56/118 (47%), Gaps = 12/118 (10%)
Query: 153 YTDGSKTMNTTSC-AFSIDDLISSSQLNPVNSI-FSAELIAIYLCLEAITVHPSDQFLIV 210
Y DG+ +T S A + D ++ ++ EL AI+L L+ + + IV
Sbjct: 1028 YVDGAANRDTKSGKAGYVTDRGRQKVVSLADTTNQKTELQAIHLALQDSGLEVN----IV 1083
Query: 211 SDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+DS+ AL + + LVS++ L++ V+ W P+H GI GNE VD+
Sbjct: 1084 TDSQYALGIIQAQPDKSESELVSQIIE--QLIKKEK--VYLAWVPAHKGIGGNEQVDK 1137
>sp|P22382|POL_SIVGB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate GB1)
GN=gag-pol PE=3 SV=2
Length = 1441
Score = 37.0 bits (84), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 12/91 (13%)
Query: 178 LNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYS 235
LN N EL A+ L LE + + IV+DS+ + L++ +P+V ++
Sbjct: 1066 LNTTNQ--QTELHAVKLALEDSGSYVN----IVTDSQYVVGILASRPTETDHPIVKEII- 1118
Query: 236 CWDLLRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+L++ + K+ + W P+H GI GNE +D+
Sbjct: 1119 --ELMKGKEKI-YLSWLPAHKGIGGNEQIDK 1146
>sp|O93215|POL_HV190 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype H (isolate 90CF056) GN=gag-pol PE=3 SV=4
Length = 1435
Score = 37.0 bits (84), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1065 ELQAIYLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEELI------- 1113
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1114 -KKEKVYLSWVPAHKGIGGNEQVDK 1137
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 37.0 bits (84), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSR 243
AEL A+ L L+ Q IV+DS+ + L + +P+V ++ ++
Sbjct: 1090 QAELWAVDLALK----DSGAQVNIVTDSQYVMGVLQGLPDQSDSPIVEQIIQ----KLTQ 1141
Query: 244 NKVVHFLWCPSHCGIRGNEAVDE 266
++ W P+H GI GNE VD+
Sbjct: 1142 KTAIYLAWVPAHKGIGGNEEVDK 1164
>sp|P19028|POL_FIVSD Pol polyprotein OS=Feline immunodeficiency virus (strain San Diego)
GN=pol PE=3 SV=1
Length = 1124
Score = 37.0 bits (84), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 48/117 (41%), Gaps = 13/117 (11%)
Query: 153 YTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSD 212
Y DG + + + A D + S AE+ A+ L L+A ++ I++D
Sbjct: 599 YIDGGRKLGKAAKAAYWTDTGKWQVMELEGSNQKAEIQALLLALKA----GPEEMNIITD 654
Query: 213 SRSALAALSNVSFTNPLVSKVYSCWD--LLRSRNKVVHFL-WCPSHCGIRGNEAVDE 266
S+ + LS K+ W L K F+ W P H GI GNE VD+
Sbjct: 655 SQYMINILSQQP------DKMEGIWQEVLEELEKKTAIFIDWVPGHKGIPGNEEVDK 705
>sp|O89940|POL_HV1SE Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate SE6165) GN=gag-pol PE=3 SV=3
Length = 1433
Score = 37.0 bits (84), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDL 239
AEL AI L L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1061 KAELQAIQLALQ----DSRSEVNIVTDSQYALGIIQAQPDRSEAELVNQIIEQLI----- 1111
Query: 240 LRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1112 ---KKEKVYLSWVPAHKGIGGNEQVDK 1135
>sp|P31822|POL_FIVT2 Pol polyprotein OS=Feline immunodeficiency virus (isolate TM2)
GN=pol PE=3 SV=1
Length = 1124
Score = 36.6 bits (83), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 51/116 (43%), Gaps = 11/116 (9%)
Query: 153 YTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDQFLIVSD 212
Y DGS+ + A + + S AE+ A+ L L+A S++ I++D
Sbjct: 598 YIDGSRKQGKAARAAYWTNTGKWQIMEIEGSNQKAEVQALLLALKA----GSEEMNIITD 653
Query: 213 SRSALAALSNV-SFTNPLVSKVYSCWDLLRSRNKVVHFL-WCPSHCGIRGNEAVDE 266
S+ L L+ L +V L + K+ F+ W P H GI GNE VD+
Sbjct: 654 SQYILNILNQQPDLMEGLWQEV-----LEQMEKKIAIFIDWVPGHKGIPGNEEVDK 704
>sp|Q1A267|POL_SIVMB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate MB66)
GN=gag-pol PE=3 SV=4
Length = 1438
Score = 36.6 bits (83), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 10/83 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNVSFTNP--LVSKVYSCWDLLRSR 243
AEL AI L L+ V + IV+DS+ AL + T+ +V+++ +L++
Sbjct: 1062 KAELQAIQLALQDSEVEVN----IVTDSQYALGIIQGQPDTSESEIVNQIIE--ELIKKE 1115
Query: 244 NKVVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE +D+
Sbjct: 1116 K--VYLSWVPAHKGIGGNEQIDK 1136
>sp|O89290|POL_HV193 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate 93BR020) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 36.6 bits (83), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDL 239
AEL AI L L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1058 KAELQAIQLALQ----DSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLI----- 1108
Query: 240 LRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1109 ---KKEKVYLSWVPAHKGIGGNEQVDK 1132
>sp|Q02836|POL_SIVG1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.grivet
(isolate AGM gr-1) GN=gag-pol PE=3 SV=2
Length = 1472
Score = 36.6 bits (83), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 59/135 (43%), Gaps = 12/135 (8%)
Query: 136 QLFAGVINSKYANYTICYTDGSKTMNTTSCAFSIDDLISSSQLNPVNSIFS--AELIAIY 193
+L+ ++ + Y DG+ + T S++ + + + AEL A+
Sbjct: 1033 KLWYSLVKEPIKGEDVYYVDGAASKVTKLGKAGYLSERGKSRIRELENTTNQQAELTAVK 1092
Query: 194 LCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNKVVHFLW 251
+ LE + IV+DS+ + L+ +PLV ++ L++ R V+ W
Sbjct: 1093 MALE----DSGENVNIVTDSQYVMNILTACPQESNSPLVEQIIQA--LMKKRQ--VYLQW 1144
Query: 252 CPSHCGIRGNEAVDE 266
P+H GI GN +D+
Sbjct: 1145 VPAHKGIGGNTEIDK 1159
>sp|Q9WC54|POL_HV1S2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9280) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 36.6 bits (83), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 52/122 (42%), Gaps = 20/122 (16%)
Query: 153 YTDGSKTMNT-TSCAFSIDDLISSSQLNPVNSI-FSAELIAIYLCLEAITVHPSDQFLIV 210
Y DG+ T T A + D + ++ EL AIYL L + + IV
Sbjct: 1025 YVDGASNRETKTGKAGYVTDKGRQKVVTLTDTTNQKTELHAIYLALRDSGLEVN----IV 1080
Query: 211 SDSRSALAAL------SNVSFTNPLVSKVYSCWDLLRSRNKVVHFLWCPSHCGIRGNEAV 264
+DS+ AL + S N ++ ++ + + V+ W P+H GI GNE V
Sbjct: 1081 TDSQYALGIIQAQPDKSESELVNQIIEELI--------KKEKVYLSWVPAHKGIGGNEQV 1132
Query: 265 DE 266
D+
Sbjct: 1133 DK 1134
>sp|P20892|POL_HV1OY Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate OYI) GN=gag-pol PE=3 SV=3
Length = 1434
Score = 36.2 bits (82), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNK 245
EL AI+L L+ + + IV+DS+ AL + + LVS++ L++
Sbjct: 1064 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVSQIIE--QLIKKEK- 1116
Query: 246 VVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE VD+
Sbjct: 1117 -VYLAWVPAHKGIGGNEQVDK 1136
>sp|P05961|POL_HV1MN Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate MN) GN=gag-pol PE=1 SV=3
Length = 1441
Score = 36.2 bits (82), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNK 245
EL AI+L L+ + + IV+DS+ AL + + LVS++ L++
Sbjct: 1071 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVSQIIE--QLIKKEK- 1123
Query: 246 VVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE VD+
Sbjct: 1124 -VYLAWVPAHKGIGGNEQVDK 1143
>sp|P04587|POL_HV1B5 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH5) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.2 bits (82), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AI+L L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1077 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEQLI------- 1125
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1126 -KKEKVYLAWVPAHKGIGGNEQVDK 1149
>sp|P03369|POL_HV1A2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate ARV2/SF2) GN=gag-pol PE=1 SV=3
Length = 1437
Score = 36.2 bits (82), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNK 245
EL AI+L L+ + + IV+DS+ AL + + LVS++ L++
Sbjct: 1067 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVSQIIE--QLIKKEK- 1119
Query: 246 VVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE VD+
Sbjct: 1120 -VYLAWVPAHKGIGGNEQVDK 1139
>sp|P03367|POL_HV1BR Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BRU/LAI) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.2 bits (82), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AI+L L+ + + IV+DS+ AL + S N ++ ++
Sbjct: 1077 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVNQIIEQLI------- 1125
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1126 -KKEKVYLAWVPAHKGIGGNEQVDK 1149
>sp|P20875|POL_HV1JR Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate JRCSF) GN=gag-pol PE=1 SV=3
Length = 1439
Score = 36.2 bits (82), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSNV--SFTNPLVSKVYSCWDLLRSRNK 245
EL AI+L L+ + + IV+DS+ AL + + LVS++ L++
Sbjct: 1069 ELQAIHLALQDSGLEVN----IVTDSQYALGIIQAQPDKSESELVSQIIE--QLIKKEK- 1121
Query: 246 VVHFLWCPSHCGIRGNEAVDE 266
V+ W P+H GI GNE VD+
Sbjct: 1122 -VYLAWVPAHKGIGGNEQVDK 1141
>sp|P24740|POL_HV1U4 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate U455) GN=gag-pol PE=1 SV=3
Length = 1428
Score = 35.8 bits (81), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AI+L L+ + IV+DS+ AL + S N ++ K+
Sbjct: 1058 ELHAIHLALQ----DSGSEVNIVTDSQYALGIIQAQPDRSESEIVNQIIEKLIE------ 1107
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ V+ W P+H GI GNE VD+
Sbjct: 1108 --KEKVYLSWVPAHKGIGGNEQVDK 1130
>sp|Q9QBZ5|POL_HV1MP Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP255) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 35.4 bits (80), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AI+L L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1060 ELQAIHLALQ----DSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLI------- 1108
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1109 -QKEKVYLSWVPAHKGIGGNEQVDK 1132
>sp|Q9QBY3|POL_HV196 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 96CM-MP535) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 35.4 bits (80), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDL 239
AEL AI L L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1058 KAELQAICLALQ----DSGSEVNIVTDSQYALGIIQAQPDKSESDLVNQIIEQLI----- 1108
Query: 240 LRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + ++ W P+H GI GNE VD+
Sbjct: 1109 ---KKERIYLSWVPAHKGIGGNEQVDK 1132
>sp|P27980|POL_SIVVG Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM3) GN=gag-pol PE=3 SV=2
Length = 1465
Score = 35.4 bits (80), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 58/130 (44%), Gaps = 16/130 (12%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAALSN--VSFTNPLVSKVYSCWDLLRSR 243
AEL+AI + LE IV+DS+ A+ L+ +PL+ ++ + L +
Sbjct: 1090 QAELMAIKMALE----DSGPNVNIVTDSQYAMGILTAQPTQSDSPLIEQIIA----LMVQ 1141
Query: 244 NKVVHFLWCPSHCGIRGNEAVDEAARNPVNPTQLKLCSPEDFKPIAASIVKKEWQNQWDN 303
++ W P+ GI GNE +D+ V+ K+ E + A + + N W N
Sbjct: 1142 KHQIYLQWVPADKGIGGNEEIDKL----VSQGMRKILFLEKIE--EAQEEHERYHNNWRN 1195
Query: 304 VPNTNKLKAI 313
+ +T L I
Sbjct: 1196 LADTYGLPQI 1205
>sp|O41798|POL_HV19N Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate 92NG083) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 35.4 bits (80), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 186 SAELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDL 239
AEL AI L L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1063 KAELHAIQLALQ----DSRPEVNIVTDSQYALGIIQAQPDRSGSELVNQIIEQLI----- 1113
Query: 240 LRSRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + V+ W P+H GI GNE VD+
Sbjct: 1114 ---KKEKVYLSWVPAHKGIGGNEQVDK 1137
>sp|Q9Q720|POL_HV1V9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype H (isolate VI991) GN=gag-pol PE=3 SV=3
Length = 1436
Score = 35.4 bits (80), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AIYL L+ + IV+DS+ AL + S N ++ ++
Sbjct: 1066 ELQAIYLALQ----ESGPEVNIVTDSQYALGIIQAQPDKSESELVNQIIEELI------- 1114
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ + + W P+H GI GNE VD+
Sbjct: 1115 -KKEKFYLSWVPAHKGIGGNEQVDK 1138
>sp|Q75002|POL_HV1ET Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate ETH2220) GN=gag-pol PE=3 SV=3
Length = 1439
Score = 35.0 bits (79), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 18/85 (21%)
Query: 188 ELIAIYLCLEAITVHPSDQFLIVSDSRSALAAL------SNVSFTNPLVSKVYSCWDLLR 241
EL AI L L+ + IV+DS+ AL + S N ++ ++ S
Sbjct: 1069 ELQAIQLALQ----DSGSEVNIVTDSQYALGIILAQPDKSESEIVNQIIEQLIS------ 1118
Query: 242 SRNKVVHFLWCPSHCGIRGNEAVDE 266
+ V+ W P+H GI GNE VD+
Sbjct: 1119 --KERVYLSWVPAHKGIGGNEQVDK 1141
>sp|P50533|SMC2_XENLA Structural maintenance of chromosomes protein 2 OS=Xenopus laevis
GN=smc2 PE=1 SV=1
Length = 1203
Score = 32.3 bits (72), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 33/75 (44%), Gaps = 6/75 (8%)
Query: 20 KNNNNIEQLEEKEEVHLSLRRSKLLMNYVAKVRASPFN-----PVQKVLFSQNLTPYNFT 74
+ NNN QL+ KE H + K + AKV A N +K LF Q T Y+F
Sbjct: 901 RENNNDLQLKIKELEHNISKHKKDSADAAAKV-AKMLNDYEWIASEKHLFGQANTAYDFK 959
Query: 75 TNKPKPLLSRFQSLP 89
TN PK R L
Sbjct: 960 TNNPKEAGQRLHKLQ 974
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
0.318 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 182,921,348
Number of Sequences: 539616
Number of extensions: 7619996
Number of successful extensions: 19134
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 51
Number of HSP's that attempted gapping in prelim test: 19096
Number of HSP's gapped (non-prelim): 92
length of query: 491
length of database: 191,569,459
effective HSP length: 122
effective length of query: 369
effective length of database: 125,736,307
effective search space: 46396697283
effective search space used: 46396697283
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 63 (28.9 bits)