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= 045690
(220 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P69732|GAG_EIAVY Gag polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=gag PE=1 SV=1
Length = 486
Score = 43.5 bits (101), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 66/168 (39%), Gaps = 27/168 (16%)
Query: 54 GDLSIQNYLSGIQNLWAKYVDMIYVQVPIES--------LADVQGVHEQSKRDQFLMK-L 104
G QN G + + ++VD + Q+ E L D + ++ + M+ L
Sbjct: 270 GKPKAQNIRQGAKEPYPEFVDRLLSQIKSEGHPQEISKFLTDTLTIQNANEECRNAMRHL 329
Query: 105 RPEYKAARSNLMNRDLSPSLDVCFKELLREEQRLATQTILQQNKMHDNAIAYAAAHGKSK 164
RPE RD+ + Q ++ K +A G K
Sbjct: 330 RPEDTLEEKMYACRDIGTT----------------KQKMMLLAKALQTGLAGPFKGGALK 373
Query: 165 GRDMRQVQ-CFSCKEYRHIIVNC-AKKFCNYCKKPGHIIKECPTRPQN 210
G ++ Q C++C + H+ C A K C CK+PGH K+C + P+N
Sbjct: 374 GGPLKAAQTCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRSVPKN 421
>sp|P69731|GAG_EIAVC Gag polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=gag PE=3 SV=1
Length = 486
Score = 43.5 bits (101), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 66/168 (39%), Gaps = 27/168 (16%)
Query: 54 GDLSIQNYLSGIQNLWAKYVDMIYVQVPIES--------LADVQGVHEQSKRDQFLMK-L 104
G QN G + + ++VD + Q+ E L D + ++ + M+ L
Sbjct: 270 GKPKAQNIRQGAKEPYPEFVDRLLSQIKSEGHPQEISKFLTDTLTIQNANEECRNAMRHL 329
Query: 105 RPEYKAARSNLMNRDLSPSLDVCFKELLREEQRLATQTILQQNKMHDNAIAYAAAHGKSK 164
RPE RD+ + Q ++ K +A G K
Sbjct: 330 RPEDTLEEKMYACRDIGTT----------------KQKMMLLAKALQTGLAGPFKGGALK 373
Query: 165 GRDMRQVQ-CFSCKEYRHIIVNC-AKKFCNYCKKPGHIIKECPTRPQN 210
G ++ Q C++C + H+ C A K C CK+PGH K+C + P+N
Sbjct: 374 GGPLKAAQTCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRSVPKN 421
>sp|P69730|GAG_EIAV9 Gag polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=gag PE=1 SV=1
Length = 486
Score = 43.5 bits (101), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 66/168 (39%), Gaps = 27/168 (16%)
Query: 54 GDLSIQNYLSGIQNLWAKYVDMIYVQVPIES--------LADVQGVHEQSKRDQFLMK-L 104
G QN G + + ++VD + Q+ E L D + ++ + M+ L
Sbjct: 270 GKPKAQNIRQGAKEPYPEFVDRLLSQIKSEGHPQEISKFLTDTLTIQNANEECRNAMRHL 329
Query: 105 RPEYKAARSNLMNRDLSPSLDVCFKELLREEQRLATQTILQQNKMHDNAIAYAAAHGKSK 164
RPE RD+ + Q ++ K +A G K
Sbjct: 330 RPEDTLEEKMYACRDIGTT----------------KQKMMLLAKALQTGLAGPFKGGALK 373
Query: 165 GRDMRQVQ-CFSCKEYRHIIVNC-AKKFCNYCKKPGHIIKECPTRPQN 210
G ++ Q C++C + H+ C A K C CK+PGH K+C + P+N
Sbjct: 374 GGPLKAAQTCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRSVPKN 421
>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 = 40.0 bits (92), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 166 RDMRQVQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKECPTRPQN 210
R R+++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 379 RGPRRIKCFNCGKEGHLAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 426
>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 = 0.015, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 60/151 (39%), Gaps = 31/151 (20%)
Query: 81 PIESLADVQGVHEQSKR--DQFLMKLRPEYKAAR------SNLMNRDLSPSLDVCFKEL- 131
P+ L QG E K D+F +R E + +L+ ++ +P V K L
Sbjct: 292 PVSVLDIRQGPKEAFKDYVDRFYKAIRAEQASGEVKQWMTESLLIQNANPDCKVILKGLG 351
Query: 132 ---LREEQRLATQTI------------LQQNKMHDNAIAYAAAHGKSKGRDMRQVQCFSC 176
EE A Q + + QN N + G +GR V+C++C
Sbjct: 352 MHPTLEEMLTACQGVGGPSYKAKVMAEMMQNMQSQNMMQ----QGGQRGRPRPPVKCYNC 407
Query: 177 KEYRHIIVNCA---KKFCNYCKKPGHIIKEC 204
++ H+ C K C C KPGH+ K+C
Sbjct: 408 GKFGHMQRQCPEPRKMRCLKCGKPGHLAKDC 438
>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 = 39.7 bits (91), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 60/151 (39%), Gaps = 31/151 (20%)
Query: 81 PIESLADVQGVHEQSKR--DQFLMKLRPEYKAAR------SNLMNRDLSPSLDVCFKEL- 131
P+ L QG E K D+F +R E + +L+ ++ +P V K L
Sbjct: 292 PVSVLDIRQGPKEAFKDYVDRFYKAIRAEQASGEVKQWMTESLLIQNANPDCKVILKGLG 351
Query: 132 ---LREEQRLATQTI------------LQQNKMHDNAIAYAAAHGKSKGRDMRQVQCFSC 176
EE A Q + + QN N + G +GR V+C++C
Sbjct: 352 MHPTLEEMLTACQGVGGPSYKAKVMAEMMQNMQSQNMMQ----QGGQRGRPRPPVKCYNC 407
Query: 177 KEYRHIIVNCA---KKFCNYCKKPGHIIKEC 204
++ H+ C K C C KPGH+ K+C
Sbjct: 408 GKFGHMQRQCPEPRKMRCLKCGKPGHLAKDC 438
>sp|P24736|GAG_HV1U4 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate U455) GN=gag PE=1 SV=3
Length = 493
Score = 39.7 bits (91), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 166 RDMRQVQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKECPTRPQN 210
R R+++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 379 RGPRRIKCFNCGKEGHLAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 426
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 39.7 bits (91), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 146 QNKMHDNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCAKKFCNYCKKPGHIIKECP 205
+ KM A A+AA + K G R C+ C + HI +C + C C KPGH+ + C
Sbjct: 346 KQKMQFLAEAFAAINVKGDGEVQR---CYGCGKPGHIRRDCKNQKCFKCGKPGHLQRNCK 402
Query: 206 TR 207
++
Sbjct: 403 SK 404
>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 = 39.7 bits (91), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +KEC R N
Sbjct: 388 KNVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKECTERQAN 432
>sp|P19558|GAG_BIV29 Gag polyprotein OS=Bovine immunodeficiency virus (strain R29)
GN=gag PE=1 SV=2
Length = 476
Score = 39.7 bits (91), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 155 AYAA-AHGKSKGRDMRQVQCFSCKEYRHIIVNCAKKFCNYCKKPGHIIKECPTRPQNCQA 213
AYA+ G GR +C+ C + H+ NC ++ C +C KPGH + C ++ C +
Sbjct: 391 AYASQTSGPEDGR-----RCYGCGKTGHLKRNCKQQKCYHCGKPGHQARNCRSKNGKCSS 445
Query: 214 S 214
+
Sbjct: 446 A 446
>sp|P27978|GAG_SIVVG Gag polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM3) GN=gag PE=3 SV=1
Length = 521
Score = 39.3 bits (90), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 60/151 (39%), Gaps = 31/151 (20%)
Query: 81 PIESLADVQGVHEQSKR--DQFLMKLRPEYKAAR------SNLMNRDLSPSLDVCFKEL- 131
P+ L QG E K D+F +R E + +L+ ++ +P V K L
Sbjct: 292 PVSVLDIRQGPKEAFKDYVDRFYKAIRAEQASGEVKQWMTESLLIQNANPDCKVILKGLG 351
Query: 132 ---LREEQRLATQTI------------LQQNKMHDNAIAYAAAHGKSKGRDMRQVQCFSC 176
EE A Q + + QN N + G +GR V+C++C
Sbjct: 352 MHPTLEEMLTACQGVGGPSYKAKVMAEMMQNMQSQNMMQ----QGGQRGRPRPPVKCYNC 407
Query: 177 KEYRHIIVNCA---KKFCNYCKKPGHIIKEC 204
++ H+ C K C C KPGH+ K+C
Sbjct: 408 GKFGHMQRQCPEPRKMRCLKCGKPGHLAKDC 438
>sp|P20873|GAG_HV1JR Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate JRCSF) GN=gag PE=3 SV=3
Length = 504
Score = 39.3 bits (90), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +KEC R N
Sbjct: 388 KNVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKECTERQAN 432
>sp|Q82850|GAG_JEMBR Gag polyprotein OS=Jembrana disease virus GN=gag PE=3 SV=1
Length = 436
Score = 39.3 bits (90), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 146 QNKMHDNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCAKKFCNYCKKPGHIIKECP 205
+ KM A A+AA + K G R C+ C + HI +C + C C KPGH+ + C
Sbjct: 346 KQKMQFLAEAFAAINVKGDGEVQR---CYGCGKPGHIRRDCKNQKCFKCGKPGHLQRNCK 402
Query: 206 TR 207
++
Sbjct: 403 SK 404
>sp|P05960|POL_HV1C4 Gag-Pol polyprotein (Fragment) OS=Human immunodeficiency virus type
1 group M subtype B (isolate CDC-451) GN=gag-pol PE=3
SV=3
Length = 550
Score = 39.3 bits (90), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 166 RDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R + V+CF+C + HI NC KK C C + GH +K+C R N
Sbjct: 385 RQGKTVKCFNCGKEGHIARNCKAPRKKGCWKCGREGHQMKDCTERQAN 432
>sp|Q8AII2|GAG_SIVTN Gag polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag PE=3 SV=3
Length = 524
Score = 38.9 bits (89), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 170 QVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTR 207
Q+QCF+C + H NC KK C C + GH +K+C TR
Sbjct: 416 QLQCFNCGKVGHTARNCRAPRKKGCWRCGQEGHQMKDCTTR 456
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 161 GKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTR 207
GK Q+QCF+C + H NC KK C C + GH +K+C TR
Sbjct: 407 GKRPPLKKGQLQCFNCGKVGHTARNCRAPRKKGCWRCGQEGHQMKDCTTR 456
>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 = 38.9 bits (89), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 162 KSKGRDMRQ-VQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKEC 204
K RD R+ V+CF+C + HI NC KK C C K GH +K+C
Sbjct: 380 KGNFRDQRKIVKCFNCGKVGHIAKNCRAPRKKGCWKCGKEGHQMKDC 426
>sp|P05890|GAG_HV1RH Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate RF/HAT3) GN=gag PE=3 SV=3
Length = 501
Score = 38.9 bits (89), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 162 KSKGRDMRQ-VQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKEC 204
K RD R+ V+CF+C + HI NC KK C C K GH +K+C
Sbjct: 380 KGNFRDQRKIVKCFNCGKVGHIAKNCRAPRKKGCWKCGKEGHQMKDC 426
>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 = 38.9 bits (89), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 385 RTIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQVKDCTERQAN 429
>sp|O12157|GAG_HV192 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate 92BR025) GN=gag PE=3 SV=3
Length = 496
Score = 38.5 bits (88), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 385 RTIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQVKDCTERQAN 429
>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 = 38.5 bits (88), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 151 DNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTR 207
++A A G KG + ++CF+C + HI NC +K C C K GH +K+C R
Sbjct: 373 NSAAAVMMQRGNFKG-PRKTIKCFNCGKEGHIAKNCRAPRRKGCWKCGKEGHQLKDCTER 431
Query: 208 PQN 210
N
Sbjct: 432 QAN 434
>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 = 38.5 bits (88), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 387 RIVKCFNCGKQGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 431
>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 = 38.5 bits (88), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 387 RIVKCFNCGKQGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 431
>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 = 38.5 bits (88), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 383 RIVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 427
>sp|P05887|GAG_HV1C4 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate CDC-451) GN=gag PE=3 SV=3
Length = 500
Score = 38.5 bits (88), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 166 RDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R + V+CF+C + HI NC KK C C + GH +K+C R N
Sbjct: 385 RQGKTVKCFNCGKEGHIARNCKAPRKKGCWKCGREGHQMKDCTERQAN 432
>sp|P24106|GAG_HV2CA Gag polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate CAM2) GN=gag PE=3 SV=3
Length = 521
Score = 38.5 bits (88), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 9/62 (14%)
Query: 149 MHDNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECP 205
M I +AAA + R ++C++C + H C ++ C C KPGHI+ CP
Sbjct: 373 MGPPPIPFAAAQQR------RTIKCWNCGKEGHSARQCRAPRRQGCWKCGKPGHIMTNCP 426
Query: 206 TR 207
R
Sbjct: 427 DR 428
>sp|Q9WC62|GAG_HV1S9 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9173) GN=gag PE=1 SV=3
Length = 497
Score = 38.5 bits (88), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 387 RIVKCFNCGKQGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 431
>sp|Q9WC53|GAG_HV1S2 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9280) GN=gag PE=3 SV=3
Length = 497
Score = 38.5 bits (88), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 387 RIVKCFNCGKQGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 431
>sp|Q9QBZ6|GAG_HV1MP Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP255) GN=gag PE=3 SV=2
Length = 492
Score = 38.5 bits (88), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 383 RIVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 427
>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 = 38.5 bits (88), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 9/62 (14%)
Query: 149 MHDNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECP 205
M I +AAA + R ++C++C + H C ++ C C KPGHI+ CP
Sbjct: 373 MGPPPIPFAAAQQR------RTIKCWNCGKEGHSARQCRAPRRQGCWKCGKPGHIMTNCP 426
Query: 206 TR 207
R
Sbjct: 427 DR 428
>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 = 38.5 bits (88), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>sp|P12495|GAG_HV1Z2 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate Z2/CDC-Z34) GN=gag PE=1 SV=3
Length = 501
Score = 38.5 bits (88), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 151 DNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTR 207
++A A G KG + ++CF+C + HI NC +K C C K GH +K+C R
Sbjct: 373 NSAAAVMMQRGNFKG-PRKTIKCFNCGKEGHIAKNCRAPRRKGCWKCGKEGHQLKDCTER 431
Query: 208 PQN 210
N
Sbjct: 432 QAN 434
>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 = 38.5 bits (88), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +KEC R N
Sbjct: 389 RIIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQMKECTERQAN 433
>sp|Q9NUD5|ZCHC3_HUMAN Zinc finger CCHC domain-containing protein 3 OS=Homo sapiens
GN=ZCCHC3 PE=1 SV=1
Length = 404
Score = 38.1 bits (87), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 170 QVQCFSCKEYRHIIVNCAKKF-CNYCKKPGHIIKECPTRPQNCQASQ 215
Q +CF C E H+ C K CN C K GH +CP N A+Q
Sbjct: 351 QDRCFRCGEEGHLSPYCRKGIVCNLCGKRGHAFAQCPKAVHNSVAAQ 397
>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 = 38.1 bits (87), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>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 = 38.1 bits (87), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>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 = 38.1 bits (87), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 166 RDMRQ-VQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R+ R+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 384 RNQRKIVKCFNCGKEGHIARNCKAPRKKGCWKCGKEGHQMKDCTERQAN 432
>sp|P35962|GAG_HV1Y2 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate YU-2) GN=gag PE=1 SV=2
Length = 500
Score = 38.1 bits (87), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>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 = 38.1 bits (87), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 389 RTIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 433
>sp|Q73367|GAG_HV1B9 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (strain 89.6) GN=gag PE=3 SV=3
Length = 500
Score = 38.1 bits (87), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>sp|Q9QSR4|GAG_HV1VI Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate VI850) GN=gag PE=3 SV=3
Length = 491
Score = 38.1 bits (87), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C + GH +K+C R N
Sbjct: 382 RVVKCFNCGKEGHIARNCRAPRKKGCWKCGREGHQMKDCTERQAN 426
>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 = 38.1 bits (87), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNC---AKKFCNYCKKPGHIIKECPTRPQN 210
R V+CF+C + HI NC KK C C + GH +K+C R N
Sbjct: 382 RVVKCFNCGKEGHIARNCRAPRKKGCWKCGREGHQMKDCTERQAN 426
>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 = 38.1 bits (87), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 166 RDMRQ-VQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R+ R+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 384 RNQRKIVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>sp|O89939|GAG_HV1SE Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate SE6165) GN=gag PE=3 SV=3
Length = 495
Score = 38.1 bits (87), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +K+C R N
Sbjct: 389 RTIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 433
>sp|P0C1K7|GAG_HV19N Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate 92NG083) GN=gag PE=3 SV=2
Length = 497
Score = 38.1 bits (87), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R ++CF+C + H+ NC KK C C K GH +KEC R N
Sbjct: 389 RIIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQMKECTERQAN 433
>sp|P12493|GAG_HV1N5 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate NY5) GN=gag PE=1 SV=3
Length = 500
Score = 38.1 bits (87), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 169 RQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 388 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>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 = 38.1 bits (87), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 166 RDMRQ-VQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTRPQN 210
R+ R+ V+CF+C + HI NC KK C C K GH +K+C R N
Sbjct: 384 RNQRKIVKCFNCGKEGHIARNCRAPRKKGCWKCGKEGHQMKDCTERQAN 432
>sp|P16087|GAG_FIVPE Gag polyprotein OS=Feline immunodeficiency virus (isolate Petaluma)
GN=gag PE=3 SV=1
Length = 450
Score = 38.1 bits (87), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 173 CFSCKEYRHIIVNCAK-KFCNYCKKPGHIIKEC 204
CF+CK+ H+ C + K CN C KPGH+ +C
Sbjct: 377 CFNCKKPGHLARQCREVKKCNKCGKPGHLAAKC 409
>sp|P31821|GAG_FIVT2 Gag polyprotein OS=Feline immunodeficiency virus (isolate TM2)
GN=gag PE=3 SV=1
Length = 449
Score = 37.7 bits (86), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 173 CFSCKEYRHIIVNCAK-KFCNYCKKPGHIIKEC 204
CF+CK+ H+ C + K CN C KPGH+ C
Sbjct: 377 CFNCKKPGHLARQCKEAKRCNNCGKPGHLAANC 409
>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 = 37.7 bits (86), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 151 DNAIAYAAAHGKSKGRDMRQVQCFSCKEYRHIIVNCA---KKFCNYCKKPGHIIKECPTR 207
++ A G KG+ ++++CF+C + H+ NC KK C C K GH +K+C R
Sbjct: 378 NSTAAIMMQRGNFKGQ--KRIKCFNCGKEGHLARNCRAPRKKGCWKCGKEGHQMKDCTER 435
Query: 208 PQN 210
N
Sbjct: 436 QAN 438
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 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 78,787,411
Number of Sequences: 539616
Number of extensions: 2998666
Number of successful extensions: 8341
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 176
Number of HSP's that attempted gapping in prelim test: 7929
Number of HSP's gapped (non-prelim): 368
length of query: 220
length of database: 191,569,459
effective HSP length: 113
effective length of query: 107
effective length of database: 130,592,851
effective search space: 13973435057
effective search space used: 13973435057
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: 59 (27.3 bits)