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= psy7520
(402 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>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 = 44.3 bits (103), Expect = 0.002, Method: Composition-based stats.
Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 21/122 (17%)
Query: 140 YTDGSKSVN------GTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
Y DG+ + N G N+I L + NQ +EL+A+ + L+ K
Sbjct: 1029 YVDGAANRNTKLGKAGYVTEQGKQNIIKLEETTNQ-----KAELMAVLIALQDSK----E 1079
Query: 194 HFLIISDSKSALTALSNN--TSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEF 251
I++DS+ L +S+ SD+PIV +I K + V W P+H GI GNE
Sbjct: 1080 QVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTK----KERVYLTWVPAHKGIGGNEK 1135
Query: 252 VD 253
+D
Sbjct: 1136 ID 1137
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 47/122 (38%), Gaps = 13/122 (10%)
Query: 140 YTDGSKSVNGTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIIS 199
YTDG K AY +N L V +E +AI + LE + I++
Sbjct: 623 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTH-QVAERMAIQMALEDTR---DKQVNIVT 678
Query: 200 DS----KSALTALSNNTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVDNA 255
DS K+ L NP I K + V F W P H GI GN+ D A
Sbjct: 679 DSYYCWKNITEGLGLEGPQNPWWPIIQNIREK-----EIVYFAWVPGHKGIYGNQLADEA 733
Query: 256 AR 257
A+
Sbjct: 734 AK 735
>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 = 42.0 bits (97), Expect = 0.008, Method: Composition-based stats.
Identities = 33/97 (34%), Positives = 49/97 (50%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSNN--TSDNP 216
+I L + NQ +EL+AI L L+ K I++DS+ AL +S+ S++P
Sbjct: 1052 IIKLDETTNQ-----KAELMAILLALQDSK----ETVNIVTDSQYALGVISSQPTQSESP 1102
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
IV +I K + V W P+H GI GNE +D
Sbjct: 1103 IVQQIIEELTK----KEQVYLTWVPAHKGIGGNEKID 1135
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 40.0 bits (92), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 47/122 (38%), Gaps = 13/122 (10%)
Query: 140 YTDGSKSVNGTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIIS 199
YTDG K AY +N L V +E +AI + LE + I++
Sbjct: 624 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTH-QVAERMAIQMALEDTR---DKQVNIVT 679
Query: 200 DS----KSALTALSNNTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVDNA 255
DS K+ L +P I K + V F W P H GI GN+ D A
Sbjct: 680 DSYYCWKNITEGLGLEGPQSPWWPIIQNIREK-----EIVYFAWVPGHKGICGNQLADEA 734
Query: 256 AR 257
A+
Sbjct: 735 AK 736
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 40.0 bits (92), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 47/122 (38%), Gaps = 13/122 (10%)
Query: 140 YTDGSKSVNGTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIIS 199
YTDG K AY +N L V +E +AI + LE + I++
Sbjct: 624 YTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTH-QVAERMAIQMALEDTR---DKQVNIVT 679
Query: 200 DS----KSALTALSNNTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVDNA 255
DS K+ L +P I K + V F W P H GI GN+ D A
Sbjct: 680 DSYYCWKNITEGLGLEGPQSPWWPIIQNIREK-----EIVYFAWVPGHKGICGNQLADEA 734
Query: 256 AR 257
A+
Sbjct: 735 AK 736
>sp|P22382|POL_SIVGB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate GB1)
GN=gag-pol PE=3 SV=2
Length = 1441
Score = 39.7 bits (91), Expect = 0.041, Method: Composition-based stats.
Identities = 29/99 (29%), Positives = 49/99 (49%), Gaps = 10/99 (10%)
Query: 175 SELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYG 232
+EL A+ L LE S+ I++DS+ + L++ +D+PIV +I +L
Sbjct: 1073 TELHAVKLALED----SGSYVNIVTDSQYVVGILASRPTETDHPIVKEII----ELMKGK 1124
Query: 233 KTVSFLWCPSHSGIAGNEFVDNAARNPVNPHLPLKLCSP 271
+ + W P+H GI GNE +D + + L L+ P
Sbjct: 1125 EKIYLSWLPAHKGIGGNEQIDKLVSSGIRKVLFLQNIEP 1163
>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 = 39.3 bits (90), Expect = 0.054, Method: Composition-based stats.
Identities = 34/97 (35%), Positives = 50/97 (51%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ S I++DS+ AL + + S++
Sbjct: 1046 VVSLTETTNQ-----KTELHAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDRSESE 1096
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
IV +I KL + K V W P+H GI GNE VD
Sbjct: 1097 IVNQII---EKLIEKEK-VYLSWVPAHKGIGGNEQVD 1129
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 38.9 bits (89), Expect = 0.067, Method: Composition-based stats.
Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 12/82 (14%)
Query: 175 SELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYG 232
+EL A+ L L+ + I++DS+ + L + SD+PIV +I +KL
Sbjct: 1091 AELWAVDLALKD----SGAQVNIVTDSQYVMGVLQGLPDQSDSPIVEQII---QKLTQ-- 1141
Query: 233 KTVSFL-WCPSHSGIAGNEFVD 253
KT +L W P+H GI GNE VD
Sbjct: 1142 KTAIYLAWVPAHKGIGGNEEVD 1163
>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 = 38.5 bits (88), Expect = 0.083, Method: Composition-based stats.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 18/160 (11%)
Query: 139 CYTDGSKSVNGTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLII 198
C + + G Y + L + NQ ++L AI + LE + I+
Sbjct: 1062 CNRNSKEGKAGYISQYGKQRVETLENTTNQ-----QAKLTAIKMALED----SGPNVNIV 1112
Query: 199 SDSKSALTALSNN--TSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVDNAA 256
+DS+ A+ L+ SD+P+V +I L + + W P+H GI GNE +D
Sbjct: 1113 TDSQYAMGILTAQPTQSDSPLVEQIIA----LMIQKQQIYLQWVPAHKGIGGNEEIDKLV 1168
Query: 257 RNPVNPHLPLKLCSPLDLKPFAAKLTKTKWQALWDTLPIP 296
+ L L+ K + W+ L DT +P
Sbjct: 1169 SKGIRRVLFLEKIEEAQEK---HERYHNNWKNLADTYGLP 1205
>sp|P04588|POL_HV1MA Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate MAL) GN=gag-pol PE=1 SV=3
Length = 1440
Score = 38.5 bits (88), Expect = 0.088, Method: Composition-based stats.
Identities = 33/97 (34%), Positives = 49/97 (50%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ S I++DS+ AL + + S++
Sbjct: 1058 VVSLTETTNQ-----KTELQAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDKSESE 1108
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
IV +I + KD V W P+H GI GNE VD
Sbjct: 1109 IVNQI-IEQLIQKD---KVYLSWVPAHKGIGGNEQVD 1141
>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 = 37.7 bits (86), Expect = 0.16, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 10/81 (12%)
Query: 175 SELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSNN--TSDNPIVAKISVTWRKLKDYG 232
+EL AI + LE I++DS+ A+ L+ SD+P+V +I +
Sbjct: 1090 AELTAIKMALED----SGPKVNIVTDSQYAMGILTAQPTQSDSPLVEQIIAQMVQ----K 1141
Query: 233 KTVSFLWCPSHSGIAGNEFVD 253
+ + W P+H GI GNE +D
Sbjct: 1142 EAIYLQWVPAHKGIGGNEEID 1162
>sp|Q9QBZ9|POL_HV197 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 97ZR-EQTB11) GN=gag-pol PE=3 SV=2
Length = 1429
Score = 37.7 bits (86), Expect = 0.16, Method: Composition-based stats.
Identities = 33/97 (34%), Positives = 49/97 (50%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
+I ++ + NQ +EL AIHL L+ S I++DS+ AL + + S++
Sbjct: 1048 VISITETTNQ-----KTELQAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDKSESE 1098
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V +I K KD V W P+H GI GNE VD
Sbjct: 1099 LVNQIIEQLIK-KD---RVYLSWVPAHKGIGGNEQVD 1131
>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 = 37.0 bits (84), Expect = 0.24, Method: Composition-based stats.
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 21/122 (17%)
Query: 140 YTDGS--KSVNGTSCAYSIN----NLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
Y DG+ + Y N ++ L+ + NQ +EL AIHL L+
Sbjct: 1034 YVDGAANRETKKGKAGYVTNRGRQKVVSLTDTTNQ-----KTELQAIHLALQD----SGL 1084
Query: 194 HFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEF 251
I++DS+ AL + + S++ +V++I K + V W P+H GI GNE
Sbjct: 1085 EVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQ 1140
Query: 252 VD 253
VD
Sbjct: 1141 VD 1142
>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 = 37.0 bits (84), Expect = 0.27, Method: Composition-based stats.
Identities = 36/122 (29%), Positives = 54/122 (44%), Gaps = 21/122 (17%)
Query: 140 YTDG--SKSVNGTSCAYSIN----NLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
Y DG S+ Y N ++ L+ + NQ +EL AIHL L+
Sbjct: 1040 YVDGAASRETKLGKAGYVTNRGRQKVVTLTDTTNQ-----KTELQAIHLALQD----SGL 1090
Query: 194 HFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEF 251
I++DS+ AL + + S++ +V +I K + V W P+H GI GNE
Sbjct: 1091 EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIK----KEKVYLAWVPAHKGIGGNEQ 1146
Query: 252 VD 253
VD
Sbjct: 1147 VD 1148
>sp|P05959|POL_HV1RH Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate RF/HAT3) GN=gag-pol PE=1 SV=3
Length = 1436
Score = 37.0 bits (84), Expect = 0.30, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ I++DS+ AL + + S++
Sbjct: 1054 VVSLTDTTNQ-----KTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESE 1104
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1105 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1137
>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 = 0.32, Method: Composition-based stats.
Identities = 31/97 (31%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
+I L+ + NQ +EL AI L L+ + I++DS+ AL + +TS++
Sbjct: 1052 IISLTETTNQ-----KAELQAIQLALQDSEV----EVNIVTDSQYALGIIQGQPDTSESE 1102
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
IV +I K + V W P+H GI GNE +D
Sbjct: 1103 IVNQIIEELIK----KEKVYLSWVPAHKGIGGNEQID 1135
>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 = 36.6 bits (83), Expect = 0.33, Method: Composition-based stats.
Identities = 36/122 (29%), Positives = 54/122 (44%), Gaps = 21/122 (17%)
Query: 140 YTDG--SKSVNGTSCAYSIN----NLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
Y DG S+ Y N ++ L+ + NQ +EL AIHL L+
Sbjct: 1040 YVDGAASRETKLGKAGYVTNRGRQKVVTLTHTTNQ-----KTELQAIHLALQD----SGL 1090
Query: 194 HFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEF 251
I++DS+ AL + + S++ +V +I K + V W P+H GI GNE
Sbjct: 1091 EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIK----KEKVYLAWVPAHKGIGGNEQ 1146
Query: 252 VD 253
VD
Sbjct: 1147 VD 1148
>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 = 36.6 bits (83), Expect = 0.34, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ I++DS+ AL + + S++
Sbjct: 1057 VVSLTDTTNQ-----KTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESE 1107
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1108 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1140
>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 = 36.6 bits (83), Expect = 0.35, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ I++DS+ AL + + S++
Sbjct: 1052 VVSLTDTTNQ-----KTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESE 1102
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1103 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1135
>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 = 36.6 bits (83), Expect = 0.37, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ I++DS+ AL + + S++
Sbjct: 1053 VVSLADTTNQ-----KTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESE 1103
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1104 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1136
>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 = 36.6 bits (83), Expect = 0.38, Method: Composition-based stats.
Identities = 32/98 (32%), Positives = 49/98 (50%), Gaps = 17/98 (17%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ S I++DS+ AL + + S++
Sbjct: 1048 VVPLTETTNQ-----KTELQAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDKSESE 1098
Query: 217 IVAKI-SVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V +I +K K Y W P+H GI GNE VD
Sbjct: 1099 LVNQIIEQLIQKEKVY-----LSWVPAHKGIGGNEQVD 1131
>sp|P12497|POL_HV1N5 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate NY5) GN=gag-pol PE=1 SV=4
Length = 1435
Score = 36.2 bits (82), Expect = 0.42, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AIHL L+ I++DS+ AL + + S++
Sbjct: 1053 VVPLTDTTNQ-----KTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESE 1103
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1104 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1136
>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 = 35.8 bits (81), Expect = 0.62, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 10/81 (12%)
Query: 175 SELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYG 232
+EL AIHL L+ I++DS+ AL + + S++ +V++I K
Sbjct: 1066 TELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIK----K 1117
Query: 233 KTVSFLWCPSHSGIAGNEFVD 253
+ V W P+H GI GNE VD
Sbjct: 1118 EKVYLAWVPAHKGIGGNEQVD 1138
>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 = 35.8 bits (81), Expect = 0.65, Method: Composition-based stats.
Identities = 34/123 (27%), Positives = 57/123 (46%), Gaps = 23/123 (18%)
Query: 140 YTDGSKSVN------GTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
Y DG+ + N G Y + L + NQ +EL+AI + LE
Sbjct: 1055 YVDGACNRNSREGKAGYITQYGKQRVEKLENTTNQ-----QAELMAIKMALED----SGP 1105
Query: 194 HFLIISDSKSALTALSNN--TSDNPIVAKI-SVTWRKLKDYGKTVSFLWCPSHSGIAGNE 250
+ I++DS+ A+ L+ SD+P++ +I ++ +K + Y W P+ GI GNE
Sbjct: 1106 NVNIVTDSQYAMGILTAQPTQSDSPLIEQIIALMVQKHQIY-----LQWVPADKGIGGNE 1160
Query: 251 FVD 253
+D
Sbjct: 1161 EID 1163
>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 = 35.4 bits (80), Expect = 0.70, Method: Composition-based stats.
Identities = 31/97 (31%), Positives = 47/97 (48%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
+I L+ + NQ +EL AI L L+ + S I++DS+ AL + + S+
Sbjct: 1051 IITLTETTNQ-----KAELQAIQLALQDSR----SEVNIVTDSQYALGIIQAQPDRSEAE 1101
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V +I K + V W P+H GI GNE VD
Sbjct: 1102 LVNQIIEQLIK----KEKVYLSWVPAHKGIGGNEQVD 1134
>sp|P15833|POL_HV2D2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate D205) GN=gag-pol PE=3 SV=3
Length = 1465
Score = 35.4 bits (80), Expect = 0.78, Method: Composition-based stats.
Identities = 37/138 (26%), Positives = 57/138 (41%), Gaps = 17/138 (12%)
Query: 140 YTDGS------KSVNGTSCAYSINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSS 193
YTDGS + G + + VL + NQ +EL A L L + P
Sbjct: 1050 YTDGSCNRTSKEGKAGYVTDRGKDKVKVLEQTTNQ-----QAELEAFALALTDSE--PQV 1102
Query: 194 HFLIISDSKSALTALSNNTSDNPIVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+ ++ S + A +++PIVAKI K + V W P+H G+ GN+ VD
Sbjct: 1103 NIIVDSQYVMGIIAAQPTETESPIVAKIIEEMIK----KEAVYVGWVPAHKGLGGNQEVD 1158
Query: 254 NAARNPVNPHLPLKLCSP 271
+ + L L+ P
Sbjct: 1159 HLVSQGIRQVLFLEKIEP 1176
>sp|B8J731|RNH_ANAD2 Ribonuclease H OS=Anaeromyxobacter dehalogenans (strain 2CP-1 /
ATCC BAA-258) GN=rnhA PE=3 SV=1
Length = 183
Score = 35.0 bits (79), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 48/118 (40%), Gaps = 17/118 (14%)
Query: 178 IAIHLCLEHLKFLPSSHFL-IISDSKSALTALSN-----------NTSDNPIVAKISVTW 225
+ + LE L+ LP + +ISDS+ + ALS S P++ + +
Sbjct: 56 MELRAVLEALEGLPGGEQVEVISDSRYVVDALSRWIHGWRKKGWRTASGEPVLNRDLIEA 115
Query: 226 RKLKDYGKTVSFLWCPSHSGIAGNEFVDN----AARNPVNPHLPLKLCSPLDLKPFAA 279
+ TV + W H G A NE VD AAR P ++ + L + F A
Sbjct: 116 LDARASALTVRYTWVRGHDGHAVNEVVDQLAQAAARGVAGPG-EAEVVAALRAEAFLA 172
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 34.7 bits (78), Expect = 1.3, Method: Composition-based stats.
Identities = 42/162 (25%), Positives = 65/162 (40%), Gaps = 30/162 (18%)
Query: 140 YTDGSKSVNGTSCAY----SINNLIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHF 195
YTDG K + + AY I + T NQ +EL A+ + L+ +
Sbjct: 966 YTDGGKKGSKAAAAYWREGKIRREVFPGT--NQ-----QAELKAVLMALQD----GPAKM 1014
Query: 196 LIISDSKSALTALSNNTSDNPIVAKISVTWRKL------KDYGKTVSFLWCPSHSGIAGN 249
II+DS+ A + + P W+++ K+Y V W P H GI GN
Sbjct: 1015 NIITDSRYAFEGMR----EEPETWGREGLWKEIGEELRRKEY---VGVSWVPGHKGIGGN 1067
Query: 250 EFVDNAARNPVNPHLPLKLCSPLDLKPFAAKLTKTK--WQAL 289
VD + + + + L + L+ KL KT W+ L
Sbjct: 1068 TEVDQEVQKALQGPITVSLPQEILLEAGETKLVKTGIFWEGL 1109
>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 = 34.7 bits (78), Expect = 1.3, Method: Composition-based stats.
Identities = 37/140 (26%), Positives = 61/140 (43%), Gaps = 18/140 (12%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTAL--SNNTSDNP 216
++ L+ + NQ +EL AI L L+ S I++DS+ AL + + S++
Sbjct: 1057 IVSLTETTNQ-----KTELQAIQLALQD----SGSEVNIVTDSQYALGIILAQPDKSESE 1107
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVDNAARNPVNPHLPLKLCSPLDLKP 276
IV +I + V W P+H GI GNE VD + + L L +D
Sbjct: 1108 IVNQIIEQLIS----KERVYLSWVPAHKGIGGNEQVDKLVSSGIRKVLFL---DGIDKAQ 1160
Query: 277 FAAKLTKTKWQALWDTLPIP 296
+ + W+A+ + IP
Sbjct: 1161 EEHEKYHSNWRAMANEFNIP 1180
>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 = 34.7 bits (78), Expect = 1.4, Method: Composition-based stats.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AI+L L+ S I++DS+ AL + + S++
Sbjct: 1048 VVSLTETTNQ-----KAELQAIYLALQD----SGSEVNIVTDSQYALGIIQAQPDKSESE 1098
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
IV +I + + V W P+H GI GNE VD
Sbjct: 1099 IVNQIIEQLIQ----KERVYLSWVPAHKGIGGNEQVD 1131
>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 = 34.3 bits (77), Expect = 1.7, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 39/81 (48%), Gaps = 10/81 (12%)
Query: 175 SELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNPIVAKISVTWRKLKDYG 232
+EL A+ + LE + I++DS+ + L+ S++P+V +I K
Sbjct: 1086 AELTAVKMALED----SGENVNIVTDSQYVMNILTACPQESNSPLVEQIIQALMK----K 1137
Query: 233 KTVSFLWCPSHSGIAGNEFVD 253
+ V W P+H GI GN +D
Sbjct: 1138 RQVYLQWVPAHKGIGGNTEID 1158
>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 = 33.9 bits (76), Expect = 2.1, Method: Composition-based stats.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 15/97 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AI+L L+ I++DS+ AL + + S++
Sbjct: 1053 VVSLTDTTNQ-----KTELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDRSESE 1103
Query: 217 IVAKISVTWRKLKDYGKTVSFLWCPSHSGIAGNEFVD 253
+V++I K + V W P+H GI GNE VD
Sbjct: 1104 LVSQIIEQLIK----KEKVYLAWVPAHKGIGGNEQVD 1136
>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 = 33.5 bits (75), Expect = 2.8, Method: Composition-based stats.
Identities = 35/142 (24%), Positives = 63/142 (44%), Gaps = 22/142 (15%)
Query: 159 LIVLSTSLNQVVCVYSSELIAIHLCLEHLKFLPSSHFLIISDSKSALTALSN--NTSDNP 216
++ L+ + NQ +EL AI+L L+ I++DS+ AL + + S++
Sbjct: 1054 IVSLTETTNQ-----KTELQAIYLALQE----SGPEVNIVTDSQYALGIIQAQPDKSESE 1104
Query: 217 IVAKISVTWRKLKDYGKTVSFL--WCPSHSGIAGNEFVDNAARNPVNPHLPLKLCSPLDL 274
+V +I +++ K F W P+H GI GNE VD + + L L +D
Sbjct: 1105 LVNQI------IEELIKKEKFYLSWVPAHKGIGGNEQVDKLVSSGIRKVLFL---DGIDK 1155
Query: 275 KPFAAKLTKTKWQALWDTLPIP 296
+ + W+A+ +P
Sbjct: 1156 AQVQHEKYHSNWRAMASDFNLP 1177
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
0.321 0.137 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 159,792,941
Number of Sequences: 539616
Number of extensions: 6985585
Number of successful extensions: 13125
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 13120
Number of HSP's gapped (non-prelim): 40
length of query: 402
length of database: 191,569,459
effective HSP length: 120
effective length of query: 282
effective length of database: 126,815,539
effective search space: 35761981998
effective search space used: 35761981998
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 62 (28.5 bits)