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= psy5302
(333 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 45.1 bits (105), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 53/132 (40%), Gaps = 8/132 (6%)
Query: 91 LQQVPVDSTVIYTDASKTDVAVSSAFCSQDIKFSTRLHSLLSICNAELTSILFAIHFLLS 150
L + P IYTD K + +A+ + + + + ++ AE +I A+
Sbjct: 613 LVEEPTSGITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALEDTRD 672
Query: 151 SCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENKSKLSIRFIWVPSHVG 210
+N I +DS + + L S +I + K + F WVP H G
Sbjct: 673 KQVN--------IVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKG 724
Query: 211 IAGNEEADRLAK 222
I GN+ AD AK
Sbjct: 725 ICGNQLADEAAK 736
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 45.1 bits (105), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 53/132 (40%), Gaps = 8/132 (6%)
Query: 91 LQQVPVDSTVIYTDASKTDVAVSSAFCSQDIKFSTRLHSLLSICNAELTSILFAIHFLLS 150
L + P IYTD K + +A+ + + + + ++ AE +I A+
Sbjct: 613 LVEEPTSGITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALEDTRD 672
Query: 151 SCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENKSKLSIRFIWVPSHVG 210
+N I +DS + + L S +I + K + F WVP H G
Sbjct: 673 KQVN--------IVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKG 724
Query: 211 IAGNEEADRLAK 222
I GN+ AD AK
Sbjct: 725 ICGNQLADEAAK 736
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 43.9 bits (102), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 56/136 (41%), Gaps = 16/136 (11%)
Query: 91 LQQVPVDSTVIYTDASKTDVAVSSAFCSQDIKFSTRLHSLLSICNAELTSILFAIHFLLS 150
L + P IYTD K + +A+ + + + + ++ AE +I A+
Sbjct: 612 LVEEPTSGITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALEDTRD 671
Query: 151 SCLNEHTQACFVICSDSLSALQTLQNVFSL----NPIASEIRNLILENKSKLSIRFIWVP 206
+N I +DS + + L NP I+N+ + K + F WVP
Sbjct: 672 KQVN--------IVTDSYYCWKNITEGLGLEGPQNPWWPIIQNI----REKEIVYFAWVP 719
Query: 207 SHVGIAGNEEADRLAK 222
H GI GN+ AD AK
Sbjct: 720 GHKGIYGNQLADEAAK 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 = 0.006, Method: Composition-based stats.
Identities = 30/91 (32%), Positives = 44/91 (48%), Gaps = 16/91 (17%)
Query: 136 AELTSILFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASE---IRNLIL 192
AEL +IL A+ + ++ I +DS AL V S P SE ++ +I
Sbjct: 1063 AELMAILLAL---------QDSKETVNIVTDSQYAL----GVISSQPTQSESPIVQQIIE 1109
Query: 193 ENKSKLSIRFIWVPSHVGIAGNEEADRLAKE 223
E K + WVP+H GI GNE+ D+L +
Sbjct: 1110 ELTKKEQVYLTWVPAHKGIGGNEKIDKLVSK 1140
>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 = 39.7 bits (91), Expect = 0.032, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 5/65 (7%)
Query: 163 ICSDSLSALQTL--QNVFSLNPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRL 220
I +DS A+ L Q S +P+ +I L+++ K I WVP+H GI GNEE D+L
Sbjct: 1111 IVTDSQYAMGILTAQPTQSDSPLVEQIIALMIQ---KQQIYLQWVPAHKGIGGNEEIDKL 1167
Query: 221 AKEAL 225
+ +
Sbjct: 1168 VSKGI 1172
>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 = 39.3 bits (90), Expect = 0.037, Method: Composition-based stats.
Identities = 34/104 (32%), Positives = 50/104 (48%), Gaps = 16/104 (15%)
Query: 126 RLHSLLSICN--AELTSILFAIHFLLSSCLNEHTQACFVICSDSLSALQTL--QNVFSLN 181
R+ L + N AELT+I A+ E + I +DS A+ L Q S +
Sbjct: 1078 RVQQLENTTNQQAELTAIKMAL---------EDSGPKVNIVTDSQYAMGILTAQPTQSDS 1128
Query: 182 PIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
P+ +I I + K +I WVP+H GI GNEE D+L + +
Sbjct: 1129 PLVEQI---IAQMVQKEAIYLQWVPAHKGIGGNEEIDKLVSKGV 1169
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 39.3 bits (90), Expect = 0.038, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 163 ICSDSLSALQTLQNV--FSLNPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRL 220
I +DS + LQ + S +PI +I I + K +I WVP+H GI GNEE D+L
Sbjct: 1109 IVTDSQYVMGVLQGLPDQSDSPIVEQI---IQKLTQKTAIYLAWVPAHKGIGGNEEVDKL 1165
Query: 221 AKE 223
+
Sbjct: 1166 VSK 1168
>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 = 0.039, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 142 LFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSI 200
L AIH L +E I +DS AL +Q + SEI N I+E K +
Sbjct: 1059 LHAIHLALQDSGSEVN-----IVTDSQYALGIIQA--QPDRSESEIVNQIIEKLIEKEKV 1111
Query: 201 RFIWVPSHVGIAGNEEADRLAKEAL 225
WVP+H GI GNE+ D+L +
Sbjct: 1112 YLSWVPAHKGIGGNEQVDKLVSSGI 1136
>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 = 38.9 bits (89), Expect = 0.059, Method: Composition-based stats.
Identities = 30/85 (35%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 142 LFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSI 200
L AIH L +E I +DS AL +Q + SEI N I+E K +
Sbjct: 1071 LQAIHLALQDSGSEVN-----IVTDSQYALGIIQA--QPDKSESEIVNQIIEQLIQKDKV 1123
Query: 201 RFIWVPSHVGIAGNEEADRLAKEAL 225
WVP+H GI GNE+ D+L +
Sbjct: 1124 YLSWVPAHKGIGGNEQVDKLVSSGI 1148
>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 = 38.5 bits (88), Expect = 0.063, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 185 SEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
SEI N I+E SK + WVP+H GI GNE+ D+L +
Sbjct: 1106 SEIVNQIIEQLISKERVYLSWVPAHKGIGGNEQVDKLVSSGI 1147
>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 = 38.5 bits (88), Expect = 0.063, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1082 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1139
Query: 222 KEAL 225
+ +
Sbjct: 1140 SQGI 1143
>sp|P35956|POL_VILVK Pol polyprotein OS=Maedi visna virus (strain KV1772) GN=pol PE=1
SV=1
Length = 1101
Score = 38.5 bits (88), Expect = 0.066, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 181 NPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKE 223
NPI + I L+ NK K+ + WVP H GI NEE DR E
Sbjct: 646 NPIQARIMELV-HNKEKIGVH--WVPGHKGIPQNEEIDRYISE 685
>sp|P23427|POL_VILV2 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS2)
GN=pol PE=3 SV=1
Length = 1105
Score = 38.5 bits (88), Expect = 0.068, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 181 NPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKE 223
NPI + I L+ NK K+ + WVP H GI NEE DR E
Sbjct: 650 NPIQARIMELV-HNKEKIGVH--WVPGHKGIPQNEEIDRYISE 689
>sp|P19028|POL_FIVSD Pol polyprotein OS=Feline immunodeficiency virus (strain San Diego)
GN=pol PE=3 SV=1
Length = 1124
Score = 38.5 bits (88), Expect = 0.068, Method: Composition-based stats.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 172 QTLQNVFSLNPIASE-IRNLILENKSKLSIRFI-WVPSHVGIAGNEEADRLAKEAL 225
Q + N+ S P E I +LE K + FI WVP H GI GNEE D+L + +
Sbjct: 656 QYMINILSQQPDKMEGIWQEVLEELEKKTAIFIDWVPGHKGIPGNEEVDKLCQTMM 711
>sp|P03370|POL_VILV Pol polyprotein OS=Maedi visna virus (strain 1514) GN=pol PE=3 SV=1
Length = 1105
Score = 38.5 bits (88), Expect = 0.070, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 181 NPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKE 223
NPI + I L+ NK K+ + WVP H GI NEE DR E
Sbjct: 650 NPIQARIMELV-HNKEKIGVH--WVPGHKGIPQNEEIDRYISE 689
>sp|P12502|POL_SIVS4 Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
F236/smH4) GN=gag-pol PE=3 SV=2
Length = 1449
Score = 38.5 bits (88), Expect = 0.073, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1096 QYVMGIIAGQPTESESRLVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1152
>sp|P23426|POL_VILV1 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS1)
GN=pol PE=3 SV=1
Length = 1105
Score = 38.5 bits (88), Expect = 0.079, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 181 NPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKE 223
NPI + I L + NK K+ + WVP H GI NEE DR E
Sbjct: 650 NPIQARIMEL-MHNKEKIGVH--WVPGHKGIPQNEEIDRYISE 689
>sp|Q1A267|POL_SIVMB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate MB66)
GN=gag-pol PE=3 SV=4
Length = 1438
Score = 38.1 bits (87), Expect = 0.081, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SEI N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1081 IVTDSQYALGIIQG--QPDTSESEIVNQIIEELIKKEKVYLSWVPAHKGIGGNEQIDKLV 1138
Query: 222 KEAL 225
+
Sbjct: 1139 SSGI 1142
>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 = 38.1 bits (87), Expect = 0.093, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1096 QYVMGIVAGQPTESESRLVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1152
>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 = 38.1 bits (87), Expect = 0.094, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 136 AELTSILFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK 195
AEL ++L A+ + Q V S + + + Q S +PI +I I E
Sbjct: 1065 AELMAVLIALQ-------DSKEQVNIVTDSQYVLGIISSQPTQSDSPIVQQI---IEELT 1114
Query: 196 SKLSIRFIWVPSHVGIAGNEEADRLAKE 223
K + WVP+H GI GNE+ D+L +
Sbjct: 1115 KKERVYLTWVPAHKGIGGNEKIDKLVSK 1142
>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 = 38.1 bits (87), Expect = 0.096, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 142 LFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSI 200
L AIH L +E I +DS AL +Q + SE+ N I+E K +
Sbjct: 1061 LQAIHLALQDSGSEVN-----IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIQKEKV 1113
Query: 201 RFIWVPSHVGIAGNEEADRLAKEAL 225
WVP+H GI GNE+ D+L +
Sbjct: 1114 YLSWVPAHKGIGGNEQVDKLVSSGI 1138
>sp|A9W185|RNH_METEP Ribonuclease H OS=Methylobacterium extorquens (strain PA1) GN=rnhA
PE=3 SV=1
Length = 228
Score = 38.1 bits (87), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 46/101 (45%), Gaps = 12/101 (11%)
Query: 137 ELTSILFAI-HFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK 195
ELT+ + A+ HF + + + +V+ S++ ++N+ L +
Sbjct: 49 ELTAAIRALEHFPEGAAIEMRCDSQYVV--KSVTEWMRGWKARGWRTATGPVKNIDLMQR 106
Query: 196 -----SKLSIRFIWVPSHVGIAGNEEADRLA----KEALTS 227
+ +R+ WV H G AGNE ADRLA +EAL+
Sbjct: 107 LDALAAARDVRWTWVRGHAGEAGNERADRLATLGRREALSG 147
>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 = 37.7 bits (86), Expect = 0.12, Method: Composition-based stats.
Identities = 24/59 (40%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRL 220
I +DS AL +Q + SEI N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1077 IVTDSQYALGIIQA--QPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGGNEQVDKL 1133
>sp|Q9QBZ1|POL_HV1M2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP257) GN=gag-pol PE=3 SV=3
Length = 1434
Score = 37.7 bits (86), Expect = 0.12, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SEI N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1081 IVTDSQYALGIIQA--HPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGGNEQVDKLV 1138
Query: 222 KEAL 225
+
Sbjct: 1139 STGI 1142
>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 = 37.7 bits (86), Expect = 0.12, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1108 QYVMGIVAGQPTESENRIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1164
>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 = 37.7 bits (86), Expect = 0.13, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1109 QYVMGIVAGQPTESENRIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1165
>sp|P20876|POL_HV2ST Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate ST) GN=gag-pol PE=3 SV=3
Length = 1463
Score = 37.7 bits (86), Expect = 0.14, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASE---IRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE + +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1110 QYVMGIVAGQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1166
>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 = 0.14, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1082 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1139
Query: 222 KEAL 225
+
Sbjct: 1140 SAGI 1143
>sp|O70338|RNH1_MOUSE Ribonuclease H1 OS=Mus musculus GN=Rnaseh1 PE=2 SV=1
Length = 285
Score = 37.4 bits (85), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 198 LSIRFIWVPSHVGIAGNEEADRLAKEA 224
+ I+++ +P H G GNEEADRLA+E
Sbjct: 253 MDIQWMHIPGHSGFVGNEEADRLAREG 279
>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 = 37.4 bits (85), Expect = 0.14, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1094 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1151
Query: 222 KEAL 225
+
Sbjct: 1152 SAGI 1155
>sp|Q5BK46|RNH1_RAT Ribonuclease H1 OS=Rattus norvegicus GN=Rnaseh1 PE=2 SV=1
Length = 285
Score = 37.4 bits (85), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 198 LSIRFIWVPSHVGIAGNEEADRLAKEA 224
+ I+++ +P H G GNEEADRLA+E
Sbjct: 253 MDIQWMHIPGHSGFVGNEEADRLAREG 279
>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 = 37.4 bits (85), Expect = 0.14, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 142 LFAIHFLLSSCLNEHTQACFVICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSI 200
L AIH L +E I +DS AL +Q + SE+ N I+E K +
Sbjct: 1061 LQAIHLALQDSGSEVN-----IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKDRV 1113
Query: 201 RFIWVPSHVGIAGNEEADRLAKEAL 225
WVP+H GI GNE+ D+L +
Sbjct: 1114 YLSWVPAHKGIGGNEQVDKLVSSGI 1138
>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 = 37.4 bits (85), Expect = 0.14, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1094 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1151
Query: 222 KEAL 225
+
Sbjct: 1152 SAGI 1155
>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 = 37.4 bits (85), Expect = 0.14, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1094 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1151
Query: 222 KEAL 225
+
Sbjct: 1152 SAGI 1155
>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 = 37.4 bits (85), Expect = 0.15, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1082 IVTDSQYALGIIQA--QPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 1139
Query: 222 KEAL 225
+
Sbjct: 1140 SAGI 1143
>sp|P22382|POL_SIVGB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate GB1)
GN=gag-pol PE=3 SV=2
Length = 1441
Score = 37.4 bits (85), Expect = 0.15, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 181 NPIASEIRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
+PI EI L+ K K I W+P+H GI GNE+ D+L +
Sbjct: 1111 HPIVKEIIELM---KGKEKIYLSWLPAHKGIGGNEQIDKLVSSGI 1152
>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 = 37.4 bits (85), Expect = 0.15, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASE---IRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE + +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1111 QYVMGISASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 1167
>sp|P17757|POL_HV2D1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate D194) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 37.4 bits (85), Expect = 0.15, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR--NLILENK-SKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R N I+E+ K ++ WVP+H GI GN+E D L + +
Sbjct: 1109 QYVMGIVAGQPTESENRIVNQIIEDMIKKEAVYVAWVPAHKGIGGNQEVDHLVSQGI 1165
>sp|O60930|RNH1_HUMAN Ribonuclease H1 OS=Homo sapiens GN=RNASEH1 PE=1 SV=2
Length = 286
Score = 37.4 bits (85), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 198 LSIRFIWVPSHVGIAGNEEADRLAKEA 224
+ I+++ VP H G GNEEADRLA+E
Sbjct: 254 MDIQWMHVPGHSGFIGNEEADRLAREG 280
>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 = 37.4 bits (85), Expect = 0.16, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1082 IVTDSQYALGIIQA--QPDRSGSELVNQIIEQLIKKEKVYLSWVPAHKGIGGNEQVDKLV 1139
Query: 222 KEAL 225
+
Sbjct: 1140 SSGI 1143
>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 = 37.4 bits (85), Expect = 0.16, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1077 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKEKVYLSWVPAHKGIGGNEQVDKLV 1134
Query: 222 KEAL 225
+
Sbjct: 1135 SAGI 1138
>sp|P12451|POL_HV2SB Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate SBLISY) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 37.4 bits (85), Expect = 0.16, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K +I WVP+H GI GN+E D L + +
Sbjct: 1109 QYVMGIVTGQPAESESRIVNKIIEEMIKKEAIYVAWVPAHKGIGGNQEIDHLVSQGI 1165
>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 = 37.4 bits (85), Expect = 0.16, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1079 IVTDSQYALGIIQA--QPDKSESELVNQIIEELIKKEKVYLSWVPAHKGIGGNEQVDKLV 1136
Query: 222 KEAL 225
+
Sbjct: 1137 SSGI 1140
>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 = 37.4 bits (85), Expect = 0.16, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1079 IVTDSQYALGIIQA--QPDKSESELVNQIIEELIKKEKVYLSWVPAHKGIGGNEQVDKLV 1136
Query: 222 KEAL 225
+
Sbjct: 1137 SSGI 1140
>sp|Q89928|POL_HV2EH Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate EHO) GN=gag-pol PE=3 SV=3
Length = 1464
Score = 37.4 bits (85), Expect = 0.17, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASE---IRNLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P +E +R +I E K I WVP+H G+ GN+E D L + +
Sbjct: 1108 QYVMGIVAAQPTETESPIVREIIEEMIKKEKIYVGWVPAHKGLGGNQEVDHLVSQGI 1164
>sp|B3Q6U1|RNH_RHOPT Ribonuclease H OS=Rhodopseudomonas palustris (strain TIE-1) GN=rnhA
PE=3 SV=1
Length = 155
Score = 37.4 bits (85), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 199 SIRFIWVPSHVGIAGNEEADRLAKEALT 226
SIR+ WV H G A NE AD+LA++ LT
Sbjct: 119 SIRWHWVKGHAGHAENERADQLARDGLT 146
>sp|Q6N1Y3|RNH_RHOPA Ribonuclease H OS=Rhodopseudomonas palustris (strain ATCC BAA-98 /
CGA009) GN=rnhA PE=3 SV=1
Length = 155
Score = 37.4 bits (85), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 199 SIRFIWVPSHVGIAGNEEADRLAKEALT 226
SIR+ WV H G A NE AD+LA++ LT
Sbjct: 119 SIRWHWVKGHAGHAENERADQLARDGLT 146
>sp|O12158|POL_HV192 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate 92BR025) GN=gag-pol PE=1 SV=2
Length = 1431
Score = 37.4 bits (85), Expect = 0.18, Method: Composition-based stats.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASEIRNLILENK-SKLSIRFIWVPSHVGIAGNEEADRLA 221
I +DS AL +Q + SE+ N I+E K + WVP+H GI GNE+ D+L
Sbjct: 1078 IVTDSQYALGIIQA--QPDKSESELVNQIIEQLIKKERVYLSWVPAHKGIGGNEQVDKLV 1135
Query: 222 KEAL 225
+
Sbjct: 1136 SSGI 1139
>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 = 0.19, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 163 ICSDSLSALQTLQNVFSLNPIASE---IRNLILENKSKLSIRFIWVPSHVGIAGNEEADR 219
I +DS AL +Q P SE + +I + K + WVP+H GI GNE+ DR
Sbjct: 1083 IVTDSQYALGIIQ----AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDR 1138
Query: 220 LAKEAL 225
L +
Sbjct: 1139 LVSTGI 1144
>sp|P18096|POL_HV2BE Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate BEN) GN=gag-pol PE=3 SV=4
Length = 1550
Score = 37.0 bits (84), Expect = 0.20, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 172 QTLQNVFSLNPIASEIR---NLILENKSKLSIRFIWVPSHVGIAGNEEADRLAKEAL 225
Q + + + P SE R +I E K ++ WVP+H GI GN+E D L + +
Sbjct: 1110 QYVMGIVAGQPTESENRIVNQIIEEMIKKEAVYVAWVPAHKGIGGNQEVDHLVSQGI 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
0.319 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 121,745,909
Number of Sequences: 539616
Number of extensions: 4976279
Number of successful extensions: 12879
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 96
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 12781
Number of HSP's gapped (non-prelim): 117
length of query: 333
length of database: 191,569,459
effective HSP length: 118
effective length of query: 215
effective length of database: 127,894,771
effective search space: 27497375765
effective search space used: 27497375765
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: 61 (28.1 bits)