Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= Dr_sW_007_J22
(889 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P10394|POL4_DROME Retrovirus-related Pol polyprotein fro... 114 5e-25
sp|P23074|POL_SFV1 Pol polyprotein [Contains: Protease ; Re... 110 5e-24
sp|P27401|POL_SFV3L Pol polyprotein [Contains: Protease ; R... 103 5e-22
sp|P14350|POL_FOAMV Pol polyprotein [Contains: Reverse tran... 100 7e-21
sp|P03355|POL_MLVMO Pol polyprotein [Contains: Protease ; R... 99 1e-20
sp|Q05654|RT21_SCHPO Retrotransposable element Tf2 155 kDa ... 97 8e-20
sp|Q9C0R2|RT22_SCHPO Retrotransposable element Tf2 155 kDa ... 97 8e-20
sp|Q9UR07|RT23_SCHPO Retrotransposable element Tf2 155 kDa ... 97 8e-20
sp|P26808|POL_MLVFP Pol polyprotein [Contains: Protease ; R... 96 1e-19
sp|P26809|POL_MLVFF Pol polyprotein [Contains: Protease ; R... 94 4e-19
>sp|P10394|POL4_DROME Retrovirus-related Pol polyprotein from transposon 412 [Contains:
Protease ; Reverse transcriptase ; Endonuclease]
Length = 1237
Score = 114 bits (284), Expect = 5e-25
Identities = 87/313 (27%), Positives = 138/313 (44%), Gaps = 26/313 (8%)
Frame = +1
Query: 28 HPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTK-PEKVNFPSSKAFETI 204
H G T + Y W NM + IK +V+ C CQK K TK+TK P + AF+ +
Sbjct: 909 HTGITKTLAKVKRHYYWKNMSKYIKEYVRKCQKCQKAKTTKHTKTPMTITETPEHAFDRV 968
Query: 205 HVDIVGPLPPND-GYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFARYGQPKVL 381
VD +GPLP ++ G +Y +T+I T + IP+ S + K I ++ +YG K
Sbjct: 969 VVDTIGPLPKSENGNEYAVTLICDLTKYLVAIPIANKSAKTVAKAIFESFILKYGPMKTF 1028
Query: 382 ITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRT-IANDRT-W 555
ITD G ++++ + LC +K + A++ Q G +ER HRTL + +R+ I+ D+T W
Sbjct: 1029 ITDMGTEYKNSIITDLCKYLKIKNITSTAHHHQTVGVVERSHRTLNEYIRSYISTDKTDW 1088
Query: 556 LAKLPQTLIGLRXXXXXXXXXXXXXLVLGK-----QXXXXXXXXXXXXGVD----KTKYC 708
L + LV G+ + +D ++KY
Sbjct: 1089 DVWLQYFVYCFNTTQSMVHNYCPYELVFGRTSNLPKHFNKLHSIEPIYNIDDYAKESKY- 1147
Query: 709 GNETRHNEPRSILKESKPQTQLTTDY------------ALVKKPFTKGFETKYLGPYKLT 852
E + R +L+ K + + D L++ + KY GPYK+
Sbjct: 1148 RLEVAYARARKLLEAHKEKNKENYDLKVKDIELEVGDKVLLRNEVGHKLDFKYTGPYKIE 1207
Query: 853 KI-DKNVATLIIN 888
I D N TL+ N
Sbjct: 1208 SIGDNNNITLLTN 1220
>sp|P23074|POL_SFV1 Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1161
Score = 110 bits (275), Expect = 5e-24
Identities = 62/198 (31%), Positives = 96/198 (48%), Gaps = 3/198 (1%)
Frame = +1
Query: 4 ISQIHNNHHPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPEKVN-FP 180
IS HN H G T+ + +KY WPN+R+D+ ++ C C T T P +
Sbjct: 820 ISTAHNIAHTGRDATFLKVSSKYWWPNLRKDVVKSIRQCKQCLVTNATNLTSPPILRPVK 879
Query: 181 SSKAFETIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFAR 360
K F+ ++D +GPLPP++GY ++L ++D T + + P K ST+ K + N
Sbjct: 880 PLKPFDKFYIDYIGPLPPSNGYLHVLVVVDSMTGFVWLYPTKAPSTSATVKAL--NMLTS 937
Query: 361 YGQPKVLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLR--T 534
PKVL +DQG F S F ++ + Y+PQ +GK+ER + +K+ L
Sbjct: 938 IAIPKVLHSDQGAAFTSSTFADWAKEKGIQLEFSTPYHPQSSGKVERKNSDIKRLLTKLL 997
Query: 535 IANDRTWLAKLPQTLIGL 588
I W LP + L
Sbjct: 998 IGRPAKWYDLLPVVQLAL 1015
>sp|P27401|POL_SFV3L Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1157
Score = 103 bits (258), Expect = 5e-22
Identities = 61/198 (30%), Positives = 95/198 (47%), Gaps = 3/198 (1%)
Frame = +1
Query: 4 ISQIHNNHHPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQ-KNKVTKNTKPEKVNFP 180
I Q HN H G T+ + +KY WPN+R+D+ ++ C C N T P
Sbjct: 822 ILQAHNIAHTGRDSTFLKVSSKYWWPNLRKDVVKVIRQCKQCLVTNAATLAAPPILRPER 881
Query: 181 SSKAFETIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFAR 360
K F+ +D +GPLPP++GY ++L ++D T + + P K ST+ K + N
Sbjct: 882 PVKPFDKFFIDYIGPLPPSNGYLHVLVVVDSMTGFVWLYPTKAPSTSATVKAL--NMLTS 939
Query: 361 YGQPKVLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTIA 540
PKV+ +DQG F S F ++ + Y+PQ +GK+ER + +K+ L +
Sbjct: 940 IAVPKVIHSDQGAAFTSATFADWAKNKGIQLEFSTPYHPQSSGKVERKNSDIKRLLTKLL 999
Query: 541 NDR--TWLAKLPQTLIGL 588
R W LP + L
Sbjct: 1000 VGRPAKWYDLLPVVQLAL 1017
>sp|P14350|POL_FOAMV Pol polyprotein [Contains: Reverse transcriptase/ribonuclease H (RT);
Integrase (IN)]
Length = 886
Score = 100 bits (248), Expect = 7e-21
Identities = 62/198 (31%), Positives = 92/198 (46%), Gaps = 3/198 (1%)
Frame = +1
Query: 4 ISQIHNNHHPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQ-KNKVTKNTKPEKVNFP 180
+ Q HN H G + T I N Y WPNMR+D+ + C C N K + P
Sbjct: 612 VLQAHNLAHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNKASGPILRPDR 671
Query: 181 SSKAFETIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFAR 360
K F+ +D +GPLPP+ GY Y+L ++D T + + P K ST+ K++ N
Sbjct: 672 PQKPFDKFFIDYIGPLPPSQGYLYVLVVVDGMTGFTWLYPTKAPSTSATVKSL--NVLTS 729
Query: 361 YGQPKVLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTIA 540
PKV+ +DQG F S F + + + Y+PQ K+ER + +K+ L +
Sbjct: 730 IAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSGSKVERKNSDIKRLLTKLL 789
Query: 541 NDR--TWLAKLPQTLIGL 588
R W LP + L
Sbjct: 790 VGRPTKWYDLLPVVQLAL 807
>sp|P03355|POL_MLVMO Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1199
Score = 99.4 bits (246), Expect = 1e-20
Identities = 55/187 (29%), Positives = 89/187 (47%), Gaps = 3/187 (1%)
Frame = +1
Query: 40 KVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPEKVNFPSSKAFETIHVDIV 219
K E H+ Y N + +KN +TC +C + +K+ + + +D
Sbjct: 859 KALLERSHSPYYMLNRDRTLKNITETCKACAQVNASKSAVKQGTRVRGHRPGTHWEIDFT 918
Query: 220 GPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFARYGQPKVLITDQGR 399
P GYKYLL ID + W E P K+ + ++ K + F R+G P+VL TD G
Sbjct: 919 EIKPGLYGYKYLLVFIDTFSGWIEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNGP 978
Query: 400 QFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI---ANDRTWLAKLP 570
F S++ + + D + AY PQ +G++ER++RT+K++L + R W+ LP
Sbjct: 979 AFVSKVSQTVADLLGIDWKLHCAYRPQSSGQVERMNRTIKETLTKLTLATGSRDWVLLLP 1038
Query: 571 QTLIGLR 591
L R
Sbjct: 1039 LALYRAR 1045
>sp|Q05654|RT21_SCHPO Retrotransposable element Tf2 155 kDa protein type 1
Length = 1333
Score = 96.7 bits (239), Expect = 8e-20
Identities = 53/183 (28%), Positives = 98/183 (53%), Gaps = 6/183 (3%)
Frame = +1
Query: 28 HPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPE---KVNFPSSKAFE 198
HPG ++ II ++ W +R+ I+ +V+ C +CQ NK ++N KP + PS + +E
Sbjct: 927 HPGIELLTNIILRRFTWKGIRKQIQEYVQNCHTCQINK-SRNHKPYGPLQPIPPSERPWE 985
Query: 199 TIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPL-KEISTAIICKNIEFNWFARYGQPK 375
++ +D + LP + GY L ++DR + ++P K I+ + + A +G PK
Sbjct: 986 SLSMDFITALPESSGYNALFVVVDRFSKMAILVPCTKSITAEQTARMFDQRVIAYFGNPK 1045
Query: 376 VLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI--ANDR 549
+I D F S+ +K +YN ++ Y PQ +G+ ER ++T+++ LR + +
Sbjct: 1046 EIIADNDHIFTSQTWKDFAHKYNFVMKFSLPYRPQTDGQTERTNQTVEKLLRCVCSTHPN 1105
Query: 550 TWL 558
TW+
Sbjct: 1106 TWV 1108
>sp|Q9C0R2|RT22_SCHPO Retrotransposable element Tf2 155 kDa protein type 2
Length = 1333
Score = 96.7 bits (239), Expect = 8e-20
Identities = 53/183 (28%), Positives = 98/183 (53%), Gaps = 6/183 (3%)
Frame = +1
Query: 28 HPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPE---KVNFPSSKAFE 198
HPG ++ II ++ W +R+ I+ +V+ C +CQ NK ++N KP + PS + +E
Sbjct: 927 HPGIELLTNIILRRFTWKGIRKQIQEYVQNCHTCQINK-SRNHKPYGPLQPIPPSERPWE 985
Query: 199 TIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPL-KEISTAIICKNIEFNWFARYGQPK 375
++ +D + LP + GY L ++DR + ++P K I+ + + A +G PK
Sbjct: 986 SLSMDFITALPESSGYNALFVVVDRFSKMAILVPCTKSITAEQTARMFDQRVIAYFGNPK 1045
Query: 376 VLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI--ANDR 549
+I D F S+ +K +YN ++ Y PQ +G+ ER ++T+++ LR + +
Sbjct: 1046 EIIADNDHIFTSQTWKDFAHKYNFVMKFSLPYRPQTDGQTERTNQTVEKLLRCVCSTHPN 1105
Query: 550 TWL 558
TW+
Sbjct: 1106 TWV 1108
>sp|Q9UR07|RT23_SCHPO Retrotransposable element Tf2 155 kDa protein type 3
Length = 1333
Score = 96.7 bits (239), Expect = 8e-20
Identities = 53/183 (28%), Positives = 98/183 (53%), Gaps = 6/183 (3%)
Frame = +1
Query: 28 HPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPE---KVNFPSSKAFE 198
HPG ++ II ++ W +R+ I+ +V+ C +CQ NK ++N KP + PS + +E
Sbjct: 927 HPGIELLTNIILRRFTWKGIRKQIQEYVQNCHTCQINK-SRNHKPYGPLQPIPPSERPWE 985
Query: 199 TIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPL-KEISTAIICKNIEFNWFARYGQPK 375
++ +D + LP + GY L ++DR + ++P K I+ + + A +G PK
Sbjct: 986 SLSMDFITALPESSGYNALFVVVDRFSKMAILVPCTKSITAEQTARMFDQRVIAYFGNPK 1045
Query: 376 VLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI--ANDR 549
+I D F S+ +K +YN ++ Y PQ +G+ ER ++T+++ LR + +
Sbjct: 1046 EIIADNDHIFTSQTWKDFAHKYNFVMKFSLPYRPQTDGQTERTNQTVEKLLRCVCSTHPN 1105
Query: 550 TWL 558
TW+
Sbjct: 1106 TWV 1108
>sp|P26808|POL_MLVFP Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1204
Score = 95.9 bits (237), Expect = 1e-19
Identities = 54/200 (27%), Positives = 94/200 (47%), Gaps = 3/200 (1%)
Frame = +1
Query: 1 YISQIHNNHHPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPEKVNFP 180
++ Q+ + K E ++ Y N + +K+ +TC +C + +K+ +
Sbjct: 851 FLHQLTHLSFSKTKALLERSYSPYYMLNRDRTLKDITETCKACAQVNASKSAVKQGTRVR 910
Query: 181 SSKAFETIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFAR 360
+ +D P GYKYLL +D + W E P K+ + ++ K + F R
Sbjct: 911 GHRPGTHWEIDFTEVKPGLYGYKYLLVFVDTFSGWVEAFPTKKETAKVVTKKLLEEIFPR 970
Query: 361 YGQPKVLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI- 537
+G P+VL TD G F S++ + + D V AY PQ +G++ER++RT+K++L +
Sbjct: 971 FGMPQVLGTDNGPAFVSKVSQTVADLLGVDWKLHCAYRPQSSGQVERMNRTIKETLTKLT 1030
Query: 538 --ANDRTWLAKLPQTLIGLR 591
R W+ LP L R
Sbjct: 1031 LATGSRDWVLLLPLALYRAR 1050
>sp|P26809|POL_MLVFF Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1204
Score = 94.4 bits (233), Expect = 4e-19
Identities = 55/200 (27%), Positives = 93/200 (46%), Gaps = 3/200 (1%)
Frame = +1
Query: 1 YISQIHNNHHPGNKVTYEIIHNKYIWPNMRQDIKNFVKTCSSCQKNKVTKNTKPEKVNFP 180
++ Q+ + K E + Y N + +K+ +TC +C + +K+ +
Sbjct: 851 FLHQLTHLSFSKTKALLERNYCPYYMLNRDRTLKDITETCQACAQVNASKSAVKQGTRVR 910
Query: 181 SSKAFETIHVDIVGPLPPNDGYKYLLTMIDRKTNWFEVIPLKEISTAIICKNIEFNWFAR 360
+ +D P GYKYLL ID + W E P K+ + ++ K + F R
Sbjct: 911 GHRPGTHWEIDFTEVKPGLYGYKYLLVFIDTFSGWVEAFPTKKETAKVVTKKLLEEIFPR 970
Query: 361 YGQPKVLITDQGRQFESELFKKLCDRYNVKKSRTIAYNPQCNGKIERLHRTLKQSLRTI- 537
+G P+VL TD G F S++ + + D V AY PQ +G++ER++RT+K++L +
Sbjct: 971 FGMPQVLGTDNGPAFVSKVSQTVADLLGVDWKLHCAYRPQSSGQVERMNRTIKETLTKLT 1030
Query: 538 --ANDRTWLAKLPQTLIGLR 591
R W+ LP L R
Sbjct: 1031 LATGSRDWVLLLPLALYRAR 1050
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 101,143,491
Number of Sequences: 369166
Number of extensions: 2040580
Number of successful extensions: 7855
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 7476
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 7813
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 8886314050
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)