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_004_H05
(942 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P27401|POL_SFV3L Pol polyprotein [Contains: Protease ; R... 75 3e-13
sp|P23074|POL_SFV1 Pol polyprotein [Contains: Protease ; Re... 74 5e-13
sp|P14350|POL_FOAMV Pol polyprotein [Contains: Reverse tran... 74 8e-13
sp|P10394|POL4_DROME Retrovirus-related Pol polyprotein fro... 69 1e-11
sp|Q05654|RT21_SCHPO Retrotransposable element Tf2 155 kDa ... 52 2e-06
sp|Q9C0R2|RT22_SCHPO Retrotransposable element Tf2 155 kDa ... 52 2e-06
sp|Q9UR07|RT23_SCHPO Retrotransposable element Tf2 155 kDa ... 52 2e-06
sp|P21414|POL_GALV Pol polyprotein [Contains: Protease ; Re... 50 7e-06
sp|P31792|POL_FENV1 Pol polyprotein [Contains: Reverse tran... 50 1e-05
sp|P10272|POL_BAEVM Pol polyprotein [Contains: Protease ; R... 49 3e-05
>sp|P27401|POL_SFV3L Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1157
Score = 74.7 bits (182), Expect = 3e-13
Identities = 45/183 (24%), Positives = 85/183 (46%)
Frame = +2
Query: 2 IISECQACQKHKVLTVKTKEETASLQPSVMVADIYVNICGPLKEARQMRYILGIIDQCSK 181
+I +C+ C T+ +P +++ GPL + ++L ++D +
Sbjct: 856 VIRQCKQCLVTNAATLAAPPILRPERPVKPFDKFFIDYIGPLPPSNGYLHVLVVVDSMTG 915
Query: 182 YIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCFS 361
++ L + + + + N L PK I D G +F S +AK I+L FS
Sbjct: 916 FVWLYPTKAPSTSATVKAL--NMLTSIAVPKVIHSDQGAAFTSATFADWAKNKGIQLEFS 973
Query: 362 SPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTNF 541
+PYH ++ ++ER+ ++ LL L R + W ++LP + ALN+++ S +P
Sbjct: 974 TPYHPQSSGKVERKNSDIKRLLTKLLVGRP-AKWYDLLPVVQLALNNSYSPSSKYTPHQL 1032
Query: 542 VFG 550
+FG
Sbjct: 1033 LFG 1035
>sp|P23074|POL_SFV1 Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1161
Score = 74.3 bits (181), Expect = 5e-13
Identities = 44/182 (24%), Positives = 85/182 (46%)
Frame = +2
Query: 5 ISECQACQKHKVLTVKTKEETASLQPSVMVADIYVNICGPLKEARQMRYILGIIDQCSKY 184
I +C+ C + + ++P Y++ GPL + ++L ++D + +
Sbjct: 855 IRQCKQCLVTNATNLTSPPILRPVKPLKPFDKFYIDYIGPLPPSNGYLHVLVVVDSMTGF 914
Query: 185 IVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCFSS 364
+ L + + + + N L PK + D G +F S +AK I+L FS+
Sbjct: 915 VWLYPTKAPSTSATVKAL--NMLTSIAIPKVLHSDQGAAFTSSTFADWAKEKGIQLEFST 972
Query: 365 PYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTNFV 544
PYH ++ ++ER+ ++ LL L R + W ++LP + ALN+++ S +P +
Sbjct: 973 PYHPQSSGKVERKNSDIKRLLTKLLIGRP-AKWYDLLPVVQLALNNSYSPSSKYTPHQLL 1031
Query: 545 FG 550
FG
Sbjct: 1032 FG 1033
>sp|P14350|POL_FOAMV Pol polyprotein [Contains: Reverse transcriptase/ribonuclease H (RT);
Integrase (IN)]
Length = 886
Score = 73.6 bits (179), Expect = 8e-13
Identities = 49/186 (26%), Positives = 86/186 (46%), Gaps = 3/186 (1%)
Frame = +2
Query: 2 IISECQACQKHKVLTVKTKEETASLQPS---VMVADIYVNICGPLKEARQMRYILGIIDQ 172
++ + CQ+ + K L+P +++ GPL ++ Y+L ++D
Sbjct: 643 VVKQLGRCQQCLITNASNKASGPILRPDRPQKPFDKFFIDYIGPLPPSQGYLYVLVVVDG 702
Query: 173 CSKYIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIEL 352
+ + L + +T V S N L PK I D G +F S ++AK I L
Sbjct: 703 MTGFTWLYPTKAP--STSATVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHL 760
Query: 353 CFSSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSP 532
FS+PYH + ++ER+ ++ LL L R + W ++LP + ALN+T+ + +P
Sbjct: 761 EFSTPYHPQSGSKVERKNSDIKRLLTKLLVGRP-TKWYDLLPVVQLALNNTYSPVLKYTP 819
Query: 533 TNFVFG 550
+FG
Sbjct: 820 HQLLFG 825
>sp|P10394|POL4_DROME Retrovirus-related Pol polyprotein from transposon 412 [Contains:
Protease ; Reverse transcriptase ; Endonuclease]
Length = 1237
Score = 69.3 bits (168), Expect = 1e-11
Identities = 46/184 (25%), Positives = 80/184 (43%), Gaps = 1/184 (0%)
Frame = +2
Query: 5 ISECQACQKHKVLTVKTKEETASLQPSVMVADIYVNICGPL-KEARQMRYILGIIDQCSK 181
+ +CQ CQK K T + P + V+ GPL K Y + +I +K
Sbjct: 936 VRKCQKCQKAKTTKHTKTPMTITETPEHAFDRVVVDTIGPLPKSENGNEYAVTLICDLTK 995
Query: 182 YIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCFS 361
Y+V I + TV + I +++LK+G K D G +++ + K I+ S
Sbjct: 996 YLVAIPIANKSAKTVAKAIFESFILKYGPMKTFITDMGTEYKNSIITDLCKYLKIKNITS 1055
Query: 362 SPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTNF 541
+ +HH T +ER +T+ + + + + ++W L + N+T N P
Sbjct: 1056 TAHHHQTVGVVERSHRTLNEYIRSYI-STDKTDWDVWLQYFVYCFNTTQSMVHNYCPYEL 1114
Query: 542 VFGK 553
VFG+
Sbjct: 1115 VFGR 1118
>sp|Q05654|RT21_SCHPO Retrotransposable element Tf2 155 kDa protein type 1
Length = 1333
Score = 52.0 bits (123), Expect = 2e-06
Identities = 58/287 (20%), Positives = 104/287 (36%), Gaps = 38/287 (13%)
Frame = +2
Query: 5 ISECQACQKHKVLTVKTKEETASLQPSVMVAD-IYVNICGPLKEARQMRYILGIIDQCSK 181
+ C CQ +K K + PS + + ++ L E+ + ++D+ SK
Sbjct: 954 VQNCHTCQINKSRNHKPYGPLQPIPPSERPWESLSMDFITALPESSGYNALFVVVDRFSK 1013
Query: 182 YIVLTAIRRQ-DENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCF 358
+L + R+ + FG PK I D F S+ FA ++N + F
Sbjct: 1014 MAILVPCTKSITAEQTARMFDQRVIAYFGNPKEIIADNDHIFTSQTWKDFAHKYNFVMKF 1073
Query: 359 SSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTN 538
S PY T+ Q ER +TV LL + W + + + + N+ + +P
Sbjct: 1074 SLPYRPQTDGQTERTNQTVEKLLRCVCSTHP-NTWVDHISLVQQSYNNAIHSATQMTPFE 1132
Query: 539 FVFG-----K*IARENWN*QTSEKT-------------------------EMK*ESRRSF 628
V + +++ +T E + +MK + F
Sbjct: 1133 IVHRYSPALSPLELPSFSDKTDENSQETIQVFQTVKEHLNTNNIKMKKYFDMKIQEIEEF 1192
Query: 629 KVGERVLVR------TENRNKYQKRFEGPYQIIKKMHDRRYLLQRDD 751
+ G+ V+V+ NK F GP+ +++K Y L D
Sbjct: 1193 QPGDLVMVKRTKTGFLHKSNKLAPSFAGPFYVLQKSGPNNYELDLPD 1239
>sp|Q9C0R2|RT22_SCHPO Retrotransposable element Tf2 155 kDa protein type 2
Length = 1333
Score = 52.0 bits (123), Expect = 2e-06
Identities = 58/287 (20%), Positives = 104/287 (36%), Gaps = 38/287 (13%)
Frame = +2
Query: 5 ISECQACQKHKVLTVKTKEETASLQPSVMVAD-IYVNICGPLKEARQMRYILGIIDQCSK 181
+ C CQ +K K + PS + + ++ L E+ + ++D+ SK
Sbjct: 954 VQNCHTCQINKSRNHKPYGPLQPIPPSERPWESLSMDFITALPESSGYNALFVVVDRFSK 1013
Query: 182 YIVLTAIRRQ-DENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCF 358
+L + R+ + FG PK I D F S+ FA ++N + F
Sbjct: 1014 MAILVPCTKSITAEQTARMFDQRVIAYFGNPKEIIADNDHIFTSQTWKDFAHKYNFVMKF 1073
Query: 359 SSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTN 538
S PY T+ Q ER +TV LL + W + + + + N+ + +P
Sbjct: 1074 SLPYRPQTDGQTERTNQTVEKLLRCVCSTHP-NTWVDHISLVQQSYNNAIHSATQMTPFE 1132
Query: 539 FVFG-----K*IARENWN*QTSEKT-------------------------EMK*ESRRSF 628
V + +++ +T E + +MK + F
Sbjct: 1133 IVHRYSPALSPLELPSFSDKTDENSQETIQVFQTVKEHLNTNNIKMKKYFDMKIQEIEEF 1192
Query: 629 KVGERVLVR------TENRNKYQKRFEGPYQIIKKMHDRRYLLQRDD 751
+ G+ V+V+ NK F GP+ +++K Y L D
Sbjct: 1193 QPGDLVMVKRTKTGFLHKSNKLAPSFAGPFYVLQKSGPNNYELDLPD 1239
>sp|Q9UR07|RT23_SCHPO Retrotransposable element Tf2 155 kDa protein type 3
Length = 1333
Score = 52.0 bits (123), Expect = 2e-06
Identities = 58/287 (20%), Positives = 104/287 (36%), Gaps = 38/287 (13%)
Frame = +2
Query: 5 ISECQACQKHKVLTVKTKEETASLQPSVMVAD-IYVNICGPLKEARQMRYILGIIDQCSK 181
+ C CQ +K K + PS + + ++ L E+ + ++D+ SK
Sbjct: 954 VQNCHTCQINKSRNHKPYGPLQPIPPSERPWESLSMDFITALPESSGYNALFVVVDRFSK 1013
Query: 182 YIVLTAIRRQ-DENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCF 358
+L + R+ + FG PK I D F S+ FA ++N + F
Sbjct: 1014 MAILVPCTKSITAEQTARMFDQRVIAYFGNPKEIIADNDHIFTSQTWKDFAHKYNFVMKF 1073
Query: 359 SSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTN 538
S PY T+ Q ER +TV LL + W + + + + N+ + +P
Sbjct: 1074 SLPYRPQTDGQTERTNQTVEKLLRCVCSTHP-NTWVDHISLVQQSYNNAIHSATQMTPFE 1132
Query: 539 FVFG-----K*IARENWN*QTSEKT-------------------------EMK*ESRRSF 628
V + +++ +T E + +MK + F
Sbjct: 1133 IVHRYSPALSPLELPSFSDKTDENSQETIQVFQTVKEHLNTNNIKMKKYFDMKIQEIEEF 1192
Query: 629 KVGERVLVR------TENRNKYQKRFEGPYQIIKKMHDRRYLLQRDD 751
+ G+ V+V+ NK F GP+ +++K Y L D
Sbjct: 1193 QPGDLVMVKRTKTGFLHKSNKLAPSFAGPFYVLQKSGPNNYELDLPD 1239
>sp|P21414|POL_GALV Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1165
Score = 50.4 bits (119), Expect = 7e-06
Identities = 55/266 (20%), Positives = 99/266 (37%), Gaps = 30/266 (11%)
Frame = +2
Query: 2 IISECQACQKHKVLTVKTKEETASLQPSVMVADIYVNICGPLKEARQ-MRYILGIIDQCS 178
+ S+CQAC +T T ET Q + +K R +Y+L ID S
Sbjct: 848 VTSQCQACAMTNAVT--TYRETGKRQRGDRPGVYWEVDFTEIKPGRYGNKYLLVFIDTFS 905
Query: 179 KYIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELCF 358
++ + + V + I L +FG PK + D G +F ++ A + I
Sbjct: 906 GWVEAFPTKTETALIVCKKILEEILPRFGIPKVLGSDNGPAFVAQVSQGLATQLGINWKL 965
Query: 359 SSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEILPEI*FALNSTWQKSINTSPTN 538
Y ++ Q+ER +T+++ L E G +W +LP +T +P
Sbjct: 966 HCAYRPQSSGQVERMNRTIKETLTKLALETGGKDWVTLLPLALLRARNT-PGRFGLTPYE 1024
Query: 539 FVFG-----------------------------K*IARENWN*QTSEKTEMK*ESRRSFK 631
++G + + + W+ F+
Sbjct: 1025 ILYGGPPPILESGETLGPDDRFLPVLFTHLKALEIVRTQIWDQIKEVYKPGTVTIPHPFQ 1084
Query: 632 VGERVLVRTENRNKYQKRFEGPYQII 709
VG++VLVR + + R++GPY ++
Sbjct: 1085 VGDQVLVRRHRPSSLEPRWKGPYLVL 1110
>sp|P31792|POL_FENV1 Pol polyprotein [Contains: Reverse transcriptase/ribonuclease H (RT);
Integrase (IN)]
Length = 1046
Score = 49.7 bits (117), Expect = 1e-05
Identities = 36/160 (22%), Positives = 66/160 (41%), Gaps = 2/160 (1%)
Frame = +2
Query: 2 IISECQACQKHKVLTVKTKE--ETASLQPSVMVADIYVNICGPLKEARQMRYILGIIDQC 175
+ S C+ CQ+ + E T +P V + + +Y+L +D
Sbjct: 733 VTSACKVCQQVNAGATRVPEGKRTRGNRPGVYWEIDFTEV---KPHYAGYKYLLVFVDTF 789
Query: 176 SKYIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQFAKRWNIELC 355
S ++ R++ + V + I +FG PK I D G +F S+ A+ I
Sbjct: 790 SGWVEAYPTRQETAHMVAKKILEEIFPRFGLPKVIGSDNGPAFVSQVSQGLARTLGINWK 849
Query: 356 FSSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEIL 475
Y ++ Q+ER +T+++ L E G+ +W +L
Sbjct: 850 LHCAYRPQSSGQVERMNRTIKETLTKLTLETGLKDWRRLL 889
>sp|P10272|POL_BAEVM Pol polyprotein [Contains: Protease ; Reverse
transcriptase/ribonuclease H (RT); Integrase (IN)]
Length = 1189
Score = 48.5 bits (114), Expect = 3e-05
Identities = 28/110 (25%), Positives = 51/110 (46%)
Frame = +2
Query: 146 RYILGIIDQCSKYIVLTAIRRQDENTVQRVISNNWLLKFGCPKRIQMDCGRSFESKAMLQ 325
+Y+L +D S ++ R++ + V + I +FG PK I D G +F S+
Sbjct: 923 KYLLVFVDTFSGWVEAFPTRQETAHIVAKKILEEIFPRFGLPKVIGSDNGPAFVSQVSQG 982
Query: 326 FAKRWNIELCFSSPYHHNTNVQIERQFKTVRDLLNTTLEERGISNWTEIL 475
A+ I Y ++ Q+ER +T+++ L E G+ +W +L
Sbjct: 983 LARILGINWKLHCAYRPQSSGQVERMNRTIKETLTKLTLETGLKDWRRLL 1032
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: 103,211,246
Number of Sequences: 369166
Number of extensions: 2053769
Number of successful extensions: 5179
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4969
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): 5170
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 9750928390
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)