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= psy6532
(277 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>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 = 46.2 bits (108), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/115 (33%), Positives = 60/115 (52%), Gaps = 9/115 (7%)
Query: 109 IDGSKN-EQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALII 167
+DG+ N E +G A + E+ K L++ + AEL A+L +L K+ I+
Sbjct: 1028 VDGAANRETKLGKAGYVTEQGKQKIIKLDETTNQ-KAELMAILLALQDSKET----VNIV 1082
Query: 168 TDSLSCLQAIMNM--FHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADE 220
TDS L I + E+P+V+++ EEL+ E V W P+H GI GNE D+
Sbjct: 1083 TDSQYALGVISSQPTQSESPIVQQIIEELTKKEQ-VYLTWVPAHKGIGGNEKIDK 1136
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 44.7 bits (104), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 8/91 (8%)
Query: 143 HAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMN---MFHENPLVKRVQEELSSTES 199
AEL A+L +L Q G K IITDS + + + L K + EEL E
Sbjct: 997 QAELKAVLMAL----QDGPAKMNIITDSRYAFEGMREEPETWGREGLWKEIGEELRRKEY 1052
Query: 200 PVEFLWCPSHVGIAGNETADEEAKQAINNDV 230
V W P H GI GN D+E ++A+ +
Sbjct: 1053 -VGVSWVPGHKGIGGNTEVDQEVQKALQGPI 1082
>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 = 42.0 bits (97), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/128 (31%), Positives = 61/128 (47%), Gaps = 19/128 (14%)
Query: 95 LYVRKYENSNMKPTIDGSKNEQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLL 154
YV N N K G EQG +++I+K + + AEL A+L +L
Sbjct: 1028 FYVDGAANRNTKLGKAGYVTEQG--------KQNIIKL----EETTNQKAELMAVLIALQ 1075
Query: 155 TIKQLGTCKALIITDSLSCLQAIMNM--FHENPLVKRVQEELSSTESPVEFLWCPSHVGI 212
K+ + I+TDS L I + ++P+V+++ EEL+ E V W P+H GI
Sbjct: 1076 DSKE----QVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTKKER-VYLTWVPAHKGI 1130
Query: 213 AGNETADE 220
GNE D+
Sbjct: 1131 GGNEKIDK 1138
>sp|Q9IDV9|POL_HV1YB Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group N
(isolate YBF106) GN=gag-pol PE=3 SV=3
Length = 1449
Score = 42.0 bits (97), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 46/100 (46%), Gaps = 16/100 (16%)
Query: 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPV 201
A LQ++L Q +A I+TDS Q M + H P LV ++ EEL E V
Sbjct: 1074 AELQAILLALQESGQEANIVTDS----QYAMGIIHSQPDKSESDLVGQIIEELIKKER-V 1128
Query: 202 EFLWCPSHVGIAGNETADEEAKQAINNDVIHNELFFDEVK 241
W P+H GI GNE D + + I LF D ++
Sbjct: 1129 YLSWVPAHKGIGGNEQVD-----XLVSSGIRXVLFLDGIE 1163
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 40.8 bits (94), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 54/125 (43%), Gaps = 22/125 (17%)
Query: 108 TIDGSKNEQGVGCALTIPEKDIVKRFGLNKNASIFH--AELFALLQSLLTIKQLGTCKAL 165
T G +N +G+ +T + KR G + H AE A+ +L + +
Sbjct: 625 TDGGKQNGEGIAAYVTSNGRTKQKRLG-----PVTHQVAERMAIQMALEDTRDK---QVN 676
Query: 166 IITDSLSCLQAIMNMFHEN-------PLVKRVQEELSSTESPVEFLWCPSHVGIAGNETA 218
I+TDS C + I P+++ ++E+ V F W P H GI GN+ A
Sbjct: 677 IVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREK-----EIVYFAWVPGHKGICGNQLA 731
Query: 219 DEEAK 223
DE AK
Sbjct: 732 DEAAK 736
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 40.8 bits (94), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 54/125 (43%), Gaps = 22/125 (17%)
Query: 108 TIDGSKNEQGVGCALTIPEKDIVKRFGLNKNASIFH--AELFALLQSLLTIKQLGTCKAL 165
T G +N +G+ +T + KR G + H AE A+ +L + +
Sbjct: 625 TDGGKQNGEGIAAYVTSNGRTKQKRLG-----PVTHQVAERMAIQMALEDTRDK---QVN 676
Query: 166 IITDSLSCLQAIMNMFHEN-------PLVKRVQEELSSTESPVEFLWCPSHVGIAGNETA 218
I+TDS C + I P+++ ++E+ V F W P H GI GN+ A
Sbjct: 677 IVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREK-----EIVYFAWVPGHKGICGNQLA 731
Query: 219 DEEAK 223
DE AK
Sbjct: 732 DEAAK 736
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 40.4 bits (93), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 22/125 (17%)
Query: 108 TIDGSKNEQGVGCALTIPEKDIVKRFGLNKNASIFH--AELFALLQSLLTIKQLGTCKAL 165
T G +N +G+ +T + KR G + H AE A+ +L + +
Sbjct: 624 TDGGKQNGEGIAAYVTSNGRTKQKRLG-----PVTHQVAERMAIQMALEDTRDK---QVN 675
Query: 166 IITDSLSCLQAIMNMFH----ENP---LVKRVQEELSSTESPVEFLWCPSHVGIAGNETA 218
I+TDS C + I +NP +++ ++E+ V F W P H GI GN+ A
Sbjct: 676 IVTDSYYCWKNITEGLGLEGPQNPWWPIIQNIREK-----EIVYFAWVPGHKGIYGNQLA 730
Query: 219 DEEAK 223
DE AK
Sbjct: 731 DEAAK 735
>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 = 40.0 bits (92), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 45/100 (45%), Gaps = 16/100 (16%)
Query: 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPV 201
A LQ++L Q I+TDS Q M + H P LV ++ EEL E V
Sbjct: 1074 AELQAILMALQESGRDVNIVTDS----QYAMGIIHSQPDKSESELVSQIIEELIKKER-V 1128
Query: 202 EFLWCPSHVGIAGNETADEEAKQAINNDVIHNELFFDEVK 241
W P+H GI GNE D+ + + I LF D ++
Sbjct: 1129 YLSWVPAHKGIGGNEQVDK-----LVSSGIRKILFLDGIE 1163
>sp|Q1A249|POL_SIVEK Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate EK505)
GN=gag-pol PE=3 SV=3
Length = 1448
Score = 39.7 bits (91), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 65/139 (46%), Gaps = 22/139 (15%)
Query: 109 IDGSKN-EQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALII 167
+DG+ N E +G A + ++ K +++ + AEL A+L +L Q + I+
Sbjct: 1038 VDGAANRETKLGKAGFVTDRGRQKVTSISETTNQ-QAELQAVLMALQDAGQ----EVNIV 1092
Query: 168 TDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEE 221
TDS Q ++ + H P LV ++ EEL E + W P+H GI GNE D+
Sbjct: 1093 TDS----QYVLGIIHSQPDKSESELVNQIIEELIKKER-IYLSWVPAHKGIGGNEQIDK- 1146
Query: 222 AKQAINNDVIHNELFFDEV 240
+ + I LF D +
Sbjct: 1147 ----LVSTGIRKVLFLDGI 1161
>sp|A4IYE6|RNH_FRATW Ribonuclease H OS=Francisella tularensis subsp. tularensis (strain
WY96-3418) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|Q0BMB7|RNH_FRATO Ribonuclease H OS=Francisella tularensis subsp. holarctica (strain
OSU18) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|A0Q6W0|RNH_FRATN Ribonuclease H OS=Francisella tularensis subsp. novicida (strain
U112) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|B2SFV9|RNH_FRATM Ribonuclease H OS=Francisella tularensis subsp. mediasiatica
(strain FSC147) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|Q2A3X6|RNH_FRATH Ribonuclease H OS=Francisella tularensis subsp. holarctica (strain
LVS) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|A7NBM9|RNH_FRATF Ribonuclease H OS=Francisella tularensis subsp. holarctica (strain
FTNF002-00 / FTA) GN=rnhA PE=3 SV=1
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|Q14IN1|RNH_FRAT1 Ribonuclease H OS=Francisella tularensis subsp. tularensis (strain
FSC 198) GN=rnhA PE=3 SV=2
Length = 152
Score = 39.7 bits (91), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + +G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEIYGSEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S + V + W H G
Sbjct: 73 YTDS-KYLQNGINEWLANWKANGWKTAAKKEVKNKDLWQELDSLTNKHNVTWGWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
AGNE ADE A +AI
Sbjct: 132 NAGNEKADELANKAI 146
>sp|P31822|POL_FIVT2 Pol polyprotein OS=Feline immunodeficiency virus (isolate TM2)
GN=pol PE=3 SV=1
Length = 1124
Score = 38.9 bits (89), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 8/77 (10%)
Query: 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENP--LVKRVQEELSSTESPVEFL- 204
A +Q+LL + G+ + IITDS Q I+N+ ++ P + QE L E +
Sbjct: 632 AEVQALLLALKAGSEEMNIITDS----QYILNILNQQPDLMEGLWQEVLEQMEKKIAIFI 687
Query: 205 -WCPSHVGIAGNETADE 220
W P H GI GNE D+
Sbjct: 688 DWVPGHKGIPGNEEVDK 704
>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 = 38.1 bits (87), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 43/139 (30%), Positives = 60/139 (43%), Gaps = 22/139 (15%)
Query: 109 IDGSKN-EQGVGCALTIPEKDIVKRFGLNKNA---SIFHAELFALLQSLLTIKQLGTCKA 164
+DG+ N E G A + +K K L + HA AL S L +
Sbjct: 1026 VDGASNRETKTGKAGYVTDKGRQKVVTLTDTTNQKTELHAIYLALRDSGLEVN------- 1078
Query: 165 LIITDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEE 221
I+TDS L +QA + E+ LV ++ EEL E V W P+H GI GNE D+
Sbjct: 1079 -IVTDSQYALGIIQAQPDK-SESELVNQIIEELIKKEK-VYLSWVPAHKGIGGNEQVDK- 1134
Query: 222 AKQAINNDVIHNELFFDEV 240
+ + I LF D +
Sbjct: 1135 ----LVSSGIRKVLFLDGI 1149
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 37.7 bits (86), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 50/87 (57%), Gaps = 9/87 (10%)
Query: 137 KNASIFHAELFALLQSLLTIKQLGTCKALIITDS---LSCLQAIMNMFHENPLVKRVQEE 193
+N + AEL+A+ L +K G + I+TDS + LQ + + ++P+V+++ ++
Sbjct: 1084 ENTTNQQAELWAVD---LALKDSG-AQVNIVTDSQYVMGVLQGLPDQ-SDSPIVEQIIQK 1138
Query: 194 LSSTESPVEFLWCPSHVGIAGNETADE 220
L+ ++ + W P+H GI GNE D+
Sbjct: 1139 LTQ-KTAIYLAWVPAHKGIGGNEEVDK 1164
>sp|B0TZ91|RNH_FRAP2 Ribonuclease H OS=Francisella philomiragia subsp. philomiragia
(strain ATCC 25017) GN=rnhA PE=3 SV=1
Length = 152
Score = 37.7 bits (86), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 59/135 (43%), Gaps = 21/135 (15%)
Query: 110 DGS-KNEQGVGCALTIPEKDIVKR--FGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DG+ K G+G I + V + G K+ + EL A +++L +K+ C I
Sbjct: 15 DGACKGNPGIGGWGAILSYNGVDKEISGAEKDTTNNRMELMAAIKTLQALKR--KCDITI 72
Query: 167 ITDSLSCLQAIMNMFHENPLV-------------KRVQEELSS--TESPVEFLWCPSHVG 211
TDS LQ +N + N K + +EL S T+ V + W H G
Sbjct: 73 YTDS-KYLQNGINQWLANWKANGWKTAAKKEVKNKDLWQELDSLTTKHNVTWSWVKGHSG 131
Query: 212 IAGNETADEEAKQAI 226
GNE ADE A +AI
Sbjct: 132 NQGNEKADELANKAI 146
>sp|C3LPN8|RNH_VIBCM Ribonuclease H OS=Vibrio cholerae serotype O1 (strain M66-2)
GN=rnhA PE=3 SV=1
Length = 156
Score = 37.4 bits (85), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 23/119 (19%)
Query: 126 EKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFH--- 182
EK + + + L N + E+ A + +L +K+ C+ ++ TDS Q I H
Sbjct: 32 EKTLARGYRLTTNNRM---EMLAAVMALQALKE--PCRVILTTDSQYVRQGITQWIHNWK 86
Query: 183 --------ENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINN 228
+ P L + + +E + + VE+ W H G NE DE A+QA N
Sbjct: 87 LRGWKTADKKPVKNADLWQALDKETARHQ--VEWRWVKGHAGHRENEMCDELARQAAEN 143
>sp|Q9KPX8|RNH_VIBCH Ribonuclease HI OS=Vibrio cholerae serotype O1 (strain ATCC 39315 /
El Tor Inaba N16961) GN=rnhA PE=3 SV=1
Length = 156
Score = 37.4 bits (85), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 23/119 (19%)
Query: 126 EKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFH--- 182
EK + + + L N + E+ A + +L +K+ C+ ++ TDS Q I H
Sbjct: 32 EKTLARGYRLTTNNRM---EMLAAVMALQALKE--PCRVILTTDSQYVRQGITQWIHNWK 86
Query: 183 --------ENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINN 228
+ P L + + +E + + VE+ W H G NE DE A+QA N
Sbjct: 87 LRGWKTADKKPVKNADLWQALDKETARHQ--VEWRWVKGHAGHRENEMCDELARQAAEN 143
>sp|A5F633|RNH_VIBC3 Ribonuclease H OS=Vibrio cholerae serotype O1 (strain ATCC 39541 /
Ogawa 395 / O395) GN=rnhA PE=3 SV=1
Length = 156
Score = 37.4 bits (85), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 23/119 (19%)
Query: 126 EKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFH--- 182
EK + + + L N + E+ A + +L +K+ C+ ++ TDS Q I H
Sbjct: 32 EKTLARGYRLTTNNRM---EMLAAVMALQALKE--PCRVILTTDSQYVRQGITQWIHNWK 86
Query: 183 --------ENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAINN 228
+ P L + + +E + + VE+ W H G NE DE A+QA N
Sbjct: 87 LRGWKTADKKPVKNADLWQALDKETARHQ--VEWRWVKGHAGHRENEMCDELARQAAEN 143
>sp|P24107|POL_HV2CA Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate CAM2) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 37.4 bits (85), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 51/122 (41%), Gaps = 13/122 (10%)
Query: 110 DGSKNEQ---GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DGS N Q G +T +D VK N AEL A +L KA I
Sbjct: 1052 DGSCNRQSKEGKAGYVTDRGRDKVKILEQTTNQ---QAELEAFAMALTD----SGPKANI 1104
Query: 167 ITDSLSCLQAIMNM--FHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQ 224
I DS + + EN +V ++ EE+ E+ + W P+H GI GN+ D Q
Sbjct: 1105 IVDSQYVMGIVAGQPTESENRIVNQIIEEMIKKEA-IYVAWVPAHKGIGGNQEVDHLVSQ 1163
Query: 225 AI 226
I
Sbjct: 1164 GI 1165
>sp|P18802|POL_HV1ND Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate NDK) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 37.4 bits (85), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 166 IITDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEA 222
I+TDS L +QA + E+ LV ++ E+L E V W P+H GI GNE D+
Sbjct: 1079 IVTDSQYALGIIQAQPDK-SESELVSQIIEQLIKKEK-VYLAWVPAHKGIGGNEQVDKLV 1136
Query: 223 KQAINNDVIHNELFFDEV 240
Q I LF D +
Sbjct: 1137 SQG-----IRKVLFLDGI 1149
>sp|P12499|POL_HV1Z2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate Z2/CDC-Z34) GN=gag-pol PE=1 SV=3
Length = 1436
Score = 37.4 bits (85), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 166 IITDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEA 222
I+TDS L +QA + E+ LV ++ E+L E V W P+H GI GNE D+
Sbjct: 1083 IVTDSQYALGIIQAQPDK-SESELVSQIIEQLIKKEK-VYLAWVPAHKGIGGNEQVDKLV 1140
Query: 223 KQAINNDVIHNELFFDEV 240
Q I LF D +
Sbjct: 1141 SQG-----IRKVLFLDGI 1153
>sp|P04589|POL_HV1EL Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate ELI) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 37.0 bits (84), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 166 IITDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEA 222
I+TDS L +QA + E+ LV ++ E+L E V W P+H GI GNE D+
Sbjct: 1082 IVTDSQYALGIIQAQPDK-SESELVNQIIEQLIKKEK-VYLAWVPAHKGIGGNEQVDKLV 1139
Query: 223 KQAINNDVIHNELFFDEV 240
Q I LF D +
Sbjct: 1140 SQG-----IRKVLFLDGI 1152
>sp|P17283|POL_SIVCZ Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate CPZ
GAB1) GN=gag-pol PE=3 SV=2
Length = 1384
Score = 37.0 bits (84), Expect = 0.16, Method: Composition-based stats.
Identities = 29/101 (28%), Positives = 46/101 (45%), Gaps = 10/101 (9%)
Query: 166 IITDSLSCLQAIMNM--FHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAK 223
I+TDS L I + E+ LV ++ EEL E + W P+H GI GNE D+
Sbjct: 1031 IVTDSQYVLGIIQSQPDHSESELVNQIIEELIKKEK-IYLSWVPAHKGIGGNEQVDKLVS 1089
Query: 224 QAINNDVIHNELFFDEVKIIIKKKYTEEWNTKWVNISPNEN 264
I LF D + ++ E +++ W ++ + N
Sbjct: 1090 AG-----IRKVLFLDGID--RAQEEHERYHSNWKAMASDFN 1123
>sp|P05962|POL_HV2NZ Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate NIH-Z) GN=gag-pol PE=3 SV=3
Length = 1461
Score = 37.0 bits (84), Expect = 0.16, Method: Composition-based stats.
Identities = 40/126 (31%), Positives = 53/126 (42%), Gaps = 21/126 (16%)
Query: 110 DGSKNEQ---GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DGS N Q G +T +D VK N AEL A +L KA I
Sbjct: 1051 DGSCNRQSKEGKAGYITDRGRDRVKVLEQTTNQ---QAELEAFAMALTD----SGPKANI 1103
Query: 167 ITDSLSCLQAIMNMF------HENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADE 220
I DS Q +M + EN +V ++ EE+ E+ + W P+H GI GN+ D
Sbjct: 1104 IVDS----QYVMGIVAGQPTESENRIVNQIIEEMIKKEA-IYVAWVPAHKGIGGNQEVDH 1158
Query: 221 EAKQAI 226
Q I
Sbjct: 1159 LVSQGI 1164
>sp|P04584|POL_HV2RO Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate ROD) GN=gag-pol PE=1 SV=3
Length = 1464
Score = 37.0 bits (84), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 52/128 (40%), Gaps = 21/128 (16%)
Query: 110 DGSKNEQ---GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DGS N Q G +T KD VK+ N AEL A +L K I
Sbjct: 1054 DGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQ---QAELEAFAMALTD----SGPKVNI 1106
Query: 167 ITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADE 220
I DS Q +M + P +V ++ EE+ E+ + W P+H GI GN+ D
Sbjct: 1107 IVDS----QYVMGISASQPTESESKIVNQIIEEMIKKEA-IYVAWVPAHKGIGGNQEVDH 1161
Query: 221 EAKQAINN 228
Q I
Sbjct: 1162 LVSQGIRQ 1169
>sp|P05896|POL_SIVM1 Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
Mm142-83) GN=gag-pol PE=1 SV=2
Length = 1448
Score = 36.6 bits (83), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 38/125 (30%), Positives = 55/125 (44%), Gaps = 13/125 (10%)
Query: 109 IDGS---KNEQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKAL 165
+DGS ++++G +T KD VK N AEL A L +L KA
Sbjct: 1037 VDGSCSKQSKEGKAGYITDRGKDKVKVLEQTTNQ---QAELEAFLMALTD----SGPKAN 1089
Query: 166 IITDSLSCLQAIMN--MFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAK 223
II DS + I E+ LV ++ EE+ ++ + W P+H GI GN+ D
Sbjct: 1090 IIVDSQYVMGIITGCPTESESRLVNQIIEEMIK-KTEIYVAWVPAHKGIGGNQEIDHLVS 1148
Query: 224 QAINN 228
Q I
Sbjct: 1149 QGIRQ 1153
>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 = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 43/136 (31%), Positives = 63/136 (46%), Gaps = 16/136 (11%)
Query: 109 IDGSKN-EQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALII 167
+DG+ N E VG A + +K K L + + EL A+ +L Q + I+
Sbjct: 1026 VDGASNRETKVGKAGYVTDKGRQKVITLT-DTTNQKTELQAIYLAL----QDSGIEVNIV 1080
Query: 168 TDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQ 224
TDS L +QA + E+ LV ++ EEL E V W P+H GI GNE D+
Sbjct: 1081 TDSQYALGIIQAQPDK-SESELVNQIIEELIKKEK-VYLSWVPAHKGIGGNEQVDK---- 1134
Query: 225 AINNDVIHNELFFDEV 240
+ + I LF D +
Sbjct: 1135 -LVSSGIRKVLFLDGI 1149
>sp|Q1H190|RNH_METFK Ribonuclease H OS=Methylobacillus flagellatus (strain KT / ATCC
51484 / DSM 6875) GN=rnhA PE=3 SV=1
Length = 151
Score = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 24/101 (23%)
Query: 145 ELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENPLVKRVQEELSSTESPV--- 201
EL A++++L +K+ C I TDS+ + I H + + L+S PV
Sbjct: 49 ELTAVIRALEALKR--QCSVRIYTDSVYVQKGITEWVHS----WKARNWLTSDRKPVKNV 102
Query: 202 ---------------EFLWCPSHVGIAGNETADEEAKQAIN 227
E++W H G GNE AD A + ++
Sbjct: 103 DLWKALDSLVQQHQVEWVWVKGHAGNVGNERADALANKGVD 143
>sp|P16088|POL_FIVPE Pol polyprotein OS=Feline immunodeficiency virus (isolate Petaluma)
GN=pol PE=1 SV=1
Length = 1124
Score = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 10/78 (12%)
Query: 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENP-----LVKRVQEELSSTESPVE 202
A +Q+LL + G+ + IITDS Q ++N+ + P + + V EEL ++ +
Sbjct: 633 AEIQALLLALKAGSEEMNIITDS----QYVINIILQQPDMMEGIWQEVLEELEK-KTAIF 687
Query: 203 FLWCPSHVGIAGNETADE 220
W P H GI GNE D+
Sbjct: 688 IDWVPGHKGIPGNEEVDK 705
>sp|Q0AMI4|RNH_MARMM Ribonuclease H OS=Maricaulis maris (strain MCS10) GN=rnhA PE=3 SV=1
Length = 149
Score = 36.6 bits (83), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 17/97 (17%)
Query: 145 ELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFH----------ENPLVKRVQ--- 191
E+ A +Q+L +++ ++ITDS+ I H + VK V
Sbjct: 47 EMMAAIQALEALRKADRS-VILITDSVYLRDGITKWIHGWKKRGWKTADKKPVKNVDLWQ 105
Query: 192 --EELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226
+EL+ + + +++ W H G GNE ADE A++ +
Sbjct: 106 RLDELTRSHT-IDWRWVKGHAGDPGNERADELAREGL 141
>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 = 0.21, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 61/135 (45%), Gaps = 14/135 (10%)
Query: 109 IDGSKN-EQGVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALII 167
+DG+ N E +G A + +K K L + + AEL A+ +L Q + I+
Sbjct: 1028 VDGAANRETKLGKAGYVTDKGRQKIISLTETTNQ-KAELQAIQLAL----QDSEVEVNIV 1082
Query: 168 TDSLSCLQAIMNM--FHENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQA 225
TDS L I E+ +V ++ EEL E V W P+H GI GNE D+
Sbjct: 1083 TDSQYALGIIQGQPDTSESEIVNQIIEELIKKEK-VYLSWVPAHKGIGGNEQIDK----- 1136
Query: 226 INNDVIHNELFFDEV 240
+ + I LF D +
Sbjct: 1137 LVSSGIRKVLFLDGI 1151
>sp|P19505|POL_SIVSP Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
PBj14/BCL-3) GN=gag-pol PE=1 SV=2
Length = 1449
Score = 36.2 bits (82), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 52/129 (40%), Gaps = 21/129 (16%)
Query: 109 IDGSKNEQ---GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKAL 165
+DGS N Q G +T +D K N AEL A +L KA
Sbjct: 1038 VDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQ---QAELEAFYLALAD----SGPKAN 1090
Query: 166 IITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPVEFLWCPSHVGIAGNETAD 219
II DS Q +M + P LV ++ EE+ E+ + W P+H GI GN+ D
Sbjct: 1091 IIVDS----QYVMGIVAGQPTESESRLVNQIIEEMIKKEA-IYVAWVPAHKGIGGNQEVD 1145
Query: 220 EEAKQAINN 228
Q I
Sbjct: 1146 HLVSQGIRQ 1154
>sp|P19028|POL_FIVSD Pol polyprotein OS=Feline immunodeficiency virus (strain San Diego)
GN=pol PE=3 SV=1
Length = 1124
Score = 36.2 bits (82), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 10/78 (12%)
Query: 148 ALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMFHENP-----LVKRVQEELSSTESPVE 202
A +Q+LL + G + IITDS Q ++N+ + P + + V EEL ++ +
Sbjct: 633 AEIQALLLALKAGPEEMNIITDS----QYMINILSQQPDKMEGIWQEVLEELEK-KTAIF 687
Query: 203 FLWCPSHVGIAGNETADE 220
W P H GI GNE D+
Sbjct: 688 IDWVPGHKGIPGNEEVDK 705
>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 = 35.8 bits (81), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 44/93 (47%), Gaps = 8/93 (8%)
Query: 150 LQSLLTIKQLGTCKALIITDSLSCLQAIMNMFH--ENPLVKRVQEELSSTESPVEFLWCP 207
LQ++ Q + I+TDS L I+ E+ +V ++ E+L S E V W P
Sbjct: 1070 LQAIQLALQDSGSEVNIVTDSQYALGIILAQPDKSESEIVNQIIEQLISKER-VYLSWVP 1128
Query: 208 SHVGIAGNETADEEAKQAINNDVIHNELFFDEV 240
+H GI GNE D+ + + I LF D +
Sbjct: 1129 AHKGIGGNEQVDK-----LVSSGIRKVLFLDGI 1156
>sp|Q88FF5|RNH_PSEPK Ribonuclease HI OS=Pseudomonas putida (strain KT2440) GN=rnhA PE=3
SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 16/109 (14%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAI---MNMFHENPLVKR 189
+G + + EL A +Q L+++K+ C+ ++ TDS ++ I M + +
Sbjct: 36 WGGERETTNNRMELMAAIQGLMSLKR--ECEVVLTTDSQYVMKGINEWMVNWKKRGWKTA 93
Query: 190 VQEELSSTE-----------SPVEFLWCPSHVGIAGNETADEEAKQAIN 227
+E + + + V + W H+G GNE AD+ A + ++
Sbjct: 94 AKEPVKNADLWQQLDEQVNRHKVTWKWVRGHIGHPGNERADQLANRGVD 142
>sp|B0KN00|RNH_PSEPG Ribonuclease H OS=Pseudomonas putida (strain GB-1) GN=rnhA PE=3
SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 16/109 (14%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAI---MNMFHENPLVKR 189
+G + + EL A +Q L+++K+ C+ ++ TDS ++ I M + +
Sbjct: 36 WGGERETTNNRMELMAAIQGLMSLKR--ECEVVLTTDSQYVMKGINEWMVNWKKRGWKTA 93
Query: 190 VQEELSSTE-----------SPVEFLWCPSHVGIAGNETADEEAKQAIN 227
+E + + + V + W H+G GNE AD+ A + ++
Sbjct: 94 AKEPVKNADLWQQLDEQVNRHKVTWKWVRGHIGHPGNERADQLANRGVD 142
>sp|A5W169|RNH_PSEP1 Ribonuclease H OS=Pseudomonas putida (strain F1 / ATCC 700007)
GN=rnhA PE=3 SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 16/109 (14%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAI---MNMFHENPLVKR 189
+G + + EL A +Q L+++K+ C+ ++ TDS ++ I M + +
Sbjct: 36 WGGERETTNNRMELMAAIQGLMSLKR--ECEVVLTTDSQYVMKGINEWMVNWKKRGWKTA 93
Query: 190 VQEELSSTE-----------SPVEFLWCPSHVGIAGNETADEEAKQAIN 227
+E + + + V + W H+G GNE AD+ A + ++
Sbjct: 94 AKEPVKNADLWQQLDEQVNRHKVTWKWVRGHIGHPGNERADQLANRGVD 142
>sp|P12502|POL_SIVS4 Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
F236/smH4) GN=gag-pol PE=3 SV=2
Length = 1449
Score = 35.8 bits (81), Expect = 0.34, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 163 KALIITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPVEFLWCPSHVGIAGNE 216
KA II DS Q +M + P LV ++ EE+ E+ + W P+H GI GN+
Sbjct: 1088 KANIIVDS----QYVMGIIAGQPTESESRLVNQIIEEMIKKEA-IYVAWVPAHKGIGGNQ 1142
Query: 217 TADEEAKQAI 226
D Q I
Sbjct: 1143 EVDHLVSQGI 1152
>sp|Q74120|POL_HV2KR Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate KR) GN=gag-pol PE=3 SV=3
Length = 1463
Score = 35.8 bits (81), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 52/128 (40%), Gaps = 21/128 (16%)
Query: 110 DGSKNEQ---GVGCALTIPEKDIVKRFGLNKNASIFHAELFALLQSLLTIKQLGTCKALI 166
DGS N Q G +T +D V+ N AEL A +L KA I
Sbjct: 1053 DGSCNRQSKEGKAGYITDRGRDKVRILEQTTNQ---QAELEAFAMALTD----SGPKANI 1105
Query: 167 ITDSLSCLQAIMNMFHENP------LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADE 220
I DS Q +M + P LV ++ EE+ E+ + W P+H GI GN+ D
Sbjct: 1106 IVDS----QYVMGIVAGQPTESESKLVNQIIEEMIKKET-LYVAWVPAHKGIGGNQEVDH 1160
Query: 221 EAKQAINN 228
Q I
Sbjct: 1161 LVSQGIRQ 1168
>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 = 35.8 bits (81), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 150 LQSLLTIKQLGTCKALIITDS---LSCLQAIMNMFHENPLVKRVQEELSSTESPVEFLWC 206
LQ++ Q + I+TDS L +QA + E+ LV ++ EEL E V W
Sbjct: 1066 LQAIYLALQDSGLEVNIVTDSQYALGIIQAQPDK-SESELVNQIIEELIKKEK-VYLSWV 1123
Query: 207 PSHVGIAGNETADE 220
P+H GI GNE D+
Sbjct: 1124 PAHKGIGGNEQVDK 1137
>sp|Q9I2S9|RNH_PSEAE Ribonuclease HI OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1
/ 1C / PRS 101 / LMG 12228) GN=rnhA PE=3 SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 49/110 (44%), Gaps = 20/110 (18%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMF----------- 181
+G + + EL A +Q+L +K+ +C +ITDS ++ I
Sbjct: 38 WGGEPDTTNNRMELMAAIQALAALKR--SCPIRLITDSEYVMRGITEWLPNWKKRGWKTA 95
Query: 182 HENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226
+ P L + + E+++ + VE+ W H G GNE AD+ A + +
Sbjct: 96 SKQPVKNADLWQALDEQVARHQ--VEWQWVRGHTGDPGNERADQLANRGV 143
>sp|Q02KV8|RNH_PSEAB Ribonuclease H OS=Pseudomonas aeruginosa (strain UCBPP-PA14)
GN=rnhA PE=3 SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 49/110 (44%), Gaps = 20/110 (18%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMF----------- 181
+G + + EL A +Q+L +K+ +C +ITDS ++ I
Sbjct: 38 WGGEPDTTNNRMELMAAIQALAALKR--SCPIRLITDSEYVMRGITEWLPNWKKRGWKTA 95
Query: 182 HENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226
+ P L + + E+++ + VE+ W H G GNE AD+ A + +
Sbjct: 96 SKQPVKNADLWQALDEQVARHQ--VEWQWVRGHTGDPGNERADQLANRGV 143
>sp|B7VB62|RNH_PSEA8 Ribonuclease H OS=Pseudomonas aeruginosa (strain LESB58) GN=rnhA
PE=3 SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 49/110 (44%), Gaps = 20/110 (18%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAIMNMF----------- 181
+G + + EL A +Q+L +K+ +C +ITDS ++ I
Sbjct: 38 WGGEPDTTNNRMELMAAIQALAALKR--SCPIRLITDSEYVMRGITEWLPNWKKRGWKTA 95
Query: 182 HENP-----LVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226
+ P L + + E+++ + VE+ W H G GNE AD+ A + +
Sbjct: 96 SKQPVKNADLWQALDEQVARHQ--VEWQWVRGHTGDPGNERADQLANRGV 143
>sp|B1JBN1|RNH_PSEPW Ribonuclease H OS=Pseudomonas putida (strain W619) GN=rnhA PE=3
SV=1
Length = 148
Score = 35.8 bits (81), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 48/109 (44%), Gaps = 16/109 (14%)
Query: 133 FGLNKNASIFHAELFALLQSLLTIKQLGTCKALIITDSLSCLQAI---MNMFHENPLVKR 189
+G + + EL A +Q L+ +K+ C+ ++ TDS ++ I M + +
Sbjct: 36 WGGERETTNNRMELMAAIQGLMALKR--ECEVVLTTDSQYVMKGINEWMVNWKKRGWKTA 93
Query: 190 VQEELSSTE-----------SPVEFLWCPSHVGIAGNETADEEAKQAIN 227
+E + + + V + W H+G GNE AD+ A + ++
Sbjct: 94 AKEPVKNADLWQQLDEQVNRHKVTWKWVRGHIGHPGNERADQLANRGVD 142
>sp|Q76634|POL_HV2UC Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate UC1) GN=gag-pol PE=3 SV=3
Length = 1471
Score = 35.8 bits (81), Expect = 0.38, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 183 ENPLVKRVQEELSSTESPVEFLWCPSHVGIAGNETADEEAKQAI 226
E+PLV ++ EE+ E+ + W P+H G+ GN+ D Q I
Sbjct: 1124 ESPLVNQIIEEMIKKEA-IYVGWVPAHRGLGGNQEVDHLVSQGI 1166
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
0.316 0.132 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 97,933,530
Number of Sequences: 539616
Number of extensions: 3891125
Number of successful extensions: 10563
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 116
Number of HSP's that attempted gapping in prelim test: 10544
Number of HSP's gapped (non-prelim): 133
length of query: 277
length of database: 191,569,459
effective HSP length: 116
effective length of query: 161
effective length of database: 128,974,003
effective search space: 20764814483
effective search space used: 20764814483
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.7 bits)