BLASTP 2.2.23 [Feb-03-2010]
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.
Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,
Eugene V. Koonin, and Stephen F. Altschul (2001),
"Improving the accuracy of PSI-BLAST protein database searches with
composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005.
Query= P38907
(458 letters)
Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta
36,641 sequences; 10,336,785 total letters
Searching..................................................done
Results from round 1
Score E
Sequences producing significant alignments: (bits) Value
6NUW-E nrPDB 941 0.0
4JE3-B nrPDB 201 6e-52
5D1Y-A nrPDB 30 2.1
2WBK-A nrPDB 28 7.2
2E5V-A nrPDB 28 8.4
3CZQ-A nrPDB 28 9.4
>6NUW-E nrPDB
Length = 461
Score = 941 bits (2433), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 458/458 (100%), Positives = 458/458 (100%)
Query: 1 MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL 60
MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL
Sbjct: 4 MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL 63
Query: 61 LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV 120
LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV
Sbjct: 64 LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV 123
Query: 121 VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE 180
VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE
Sbjct: 124 VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE 183
Query: 181 SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF 240
SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF
Sbjct: 184 SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF 243
Query: 241 KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR 300
KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR
Sbjct: 244 KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR 303
Query: 301 EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN 360
EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN
Sbjct: 304 EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN 363
Query: 361 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 420
GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN
Sbjct: 364 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 423
Query: 421 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 458
LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL
Sbjct: 424 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 461
>4JE3-B nrPDB
Length = 101
Score = 201 bits (511), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 98/98 (100%), Positives = 98/98 (100%)
Query: 361 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 420
GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN
Sbjct: 4 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 63
Query: 421 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 458
LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL
Sbjct: 64 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 101
>5D1Y-A nrPDB
Length = 812
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 12/77 (15%)
Query: 148 KHPSLPVLITRIQLFDSNNLFLSTPNIGSINKESLYNKLDKFQGK--PLISRRPYYVAFP 205
KHP +L RI + +NL T + S E LYN ++ GK P++++ +
Sbjct: 90 KHPDYAILAARIAV---SNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLA 146
Query: 206 ----LNSPIIFHSVDKD 218
LNS II+ D+D
Sbjct: 147 NKDRLNSAIIY---DRD 160
>2WBK-A nrPDB
Length = 847
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 145 YMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKESLYNKLDKFQGKPL 194
Y K PVLI IQ DS +++L + + ++ + +L K+ F GK L
Sbjct: 645 YQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTL 694
>2E5V-A nrPDB
Length = 472
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 30 TVLYDLTLSWFAKFGGSFDGDIYLLTETL 58
T+L D+ F S DG+++LLTETL
Sbjct: 201 TILADMEFVQFHPTVTSLDGEVFLLTETL 229
>3CZQ-A nrPDB
Length = 304
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 98 ISKPEKFKWLPSKALRGDGKPYVVKLQPAKFIEN---LQTDLAKI 139
I P+ KW+ +A R D PY KL ++ E LQ +L K+
Sbjct: 32 IDDPDLPKWIDEEAFRSDDYPYKKKLDREEYEETLTKLQIELVKV 76
Searching..................................................done
Results from round 2
Score E
Sequences producing significant alignments: (bits) Value
Sequences used in model and found again:
6NUW-E nrPDB 977 0.0
4JE3-B nrPDB 210 1e-54
Sequences not found previously or not previously below threshold:
5D1Y-A nrPDB 31 0.99
3CZQ-A nrPDB 30 2.1
2WBK-A nrPDB 29 4.2
3T6J-A nrPDB 29 4.8
2E5V-A nrPDB 29 5.7
3KBB-A nrPDB 28 6.3
CONVERGED!
>6NUW-E nrPDB
Length = 461
Score = 977 bits (2527), Expect = 0.0, Method: Composition-based stats.
Identities = 458/458 (100%), Positives = 458/458 (100%)
Query: 1 MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL 60
MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL
Sbjct: 4 MSNELRLEDNYVPTSDTLVVFKQLMKLPVTVLYDLTLSWFAKFGGSFDGDIYLLTETLDL 63
Query: 61 LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV 120
LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV
Sbjct: 64 LIEKGVRRNVIVNRILYVYWPDGLNVFQLAEIDCHLMISKPEKFKWLPSKALRGDGKPYV 123
Query: 121 VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE 180
VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE
Sbjct: 124 VKLQPAKFIENLQTDLAKIYHCHVYMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKE 183
Query: 181 SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF 240
SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF
Sbjct: 184 SLYNKLDKFQGKPLISRRPYYVAFPLNSPIIFHSVDKDIYARLVLQSISRTISERETIIF 243
Query: 241 KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR 300
KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR
Sbjct: 244 KPVQKIPVKSIHNIMTLLGPSRFAESMGPWECYASANFERSPLHDYKKHQGLTGKKVMVR 303
Query: 301 EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN 360
EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN
Sbjct: 304 EFDDSFLNDDENFYGKEEPEIRRLRLEKNMIKFKGSANGVMDQKYNDLKEFNEHVHNIRN 363
Query: 361 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 420
GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN
Sbjct: 364 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 423
Query: 421 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 458
LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL
Sbjct: 424 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 461
>4JE3-B nrPDB
Length = 101
Score = 210 bits (534), Expect = 1e-54, Method: Composition-based stats.
Identities = 98/98 (100%), Positives = 98/98 (100%)
Query: 361 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 420
GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN
Sbjct: 4 GKKNEDSGEPVYISRYSSLVPIEKVGFTLKNEINSRIITIKLKFNGNDIFGGLHELCDKN 63
Query: 421 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 458
LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL
Sbjct: 64 LINIDKVPGWLAGENGSFSGTIMNGDFQREQVAKGGLL 101
>5D1Y-A nrPDB
Length = 812
Score = 31.1 bits (69), Expect = 0.99, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 13/91 (14%)
Query: 148 KHPSLPVLITRIQLFDSNNLFLSTPNIGSINKESLYNKLDKFQGK--PLISRRPYYVAFP 205
KHP +L RI + +NL T + S E LYN ++ GK P++++ +
Sbjct: 90 KHPDYAILAARIAV---SNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLA 146
Query: 206 ----LNSPIIFHSVDKDI-YARLVLQSISRT 231
LNS II+ D+D Y +++ R+
Sbjct: 147 NKDRLNSAIIY---DRDFSYNYFGFKTLERS 174
>3CZQ-A nrPDB
Length = 304
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 98 ISKPEKFKWLPSKALRGDGKPYVVKLQPAKFIEN---LQTDLAKI 139
I P+ KW+ +A R D PY KL ++ E LQ +L K+
Sbjct: 32 IDDPDLPKWIDEEAFRSDDYPYKKKLDREEYEETLTKLQIELVKV 76
>2WBK-A nrPDB
Length = 847
Score = 29.2 bits (64), Expect = 4.2, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 145 YMFKHPSLPVLITRIQLFDSNNLFLSTPNIGSINKESLYNKLDKFQGKPL 194
Y K PVLI IQ DS +++L + + ++ + +L K+ F GK L
Sbjct: 645 YQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTL 694
>3T6J-A nrPDB
Length = 726
Score = 28.8 bits (63), Expect = 4.8, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 6/89 (6%)
Query: 318 EPEIRRLRLEKNMIKFKGSANGVMDQK---YNDLKEFNEHVHNIRNGKKNEDSGEPVYIS 374
EP +R L L K I S N M+ + L N +N R K+ + G+P Y
Sbjct: 155 EPRLRHLGLGKEGITTYFSGNCTMEDAKLAQDFLDSQNLSAYNTRLFKEVDGEGKPYYEV 214
Query: 375 RYSSLVPIEKVGFTLKNEINSRIITIKLK 403
R +S++ E +L +E+ S++ + + +
Sbjct: 215 RLASVLGSEP---SLDSEVTSKLKSYEFR 240
>2E5V-A nrPDB
Length = 472
Score = 28.8 bits (63), Expect = 5.7, Method: Composition-based stats.
Identities = 36/115 (31%), Positives = 52/115 (45%), Gaps = 30/115 (26%)
Query: 30 TVLYDLTLSWFAKFGGSFDGDIYLLTETL-----DLLIEKGVR-------------RNVI 71
T+L D+ F S DG+++LLTETL ++ E G R R+ I
Sbjct: 201 TILADMEFVQFHPTVTSLDGEVFLLTETLRGEGAQIINENGERFLFNYDKRGELAPRD-I 259
Query: 72 VNRILYVYWPDGLNVFQLAEIDCHLMISKPEKF-KWLP--SKALRGDGKPYVVKL 123
++R +Y+ G VF ID +SK E F + P +K L G Y VK+
Sbjct: 260 LSRAIYIEMLKGHKVF----ID----LSKIEDFERKFPVVAKYLARHGHNYKVKI 306
>3KBB-A nrPDB
Length = 216
Score = 28.4 bits (62), Expect = 6.3, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 295 KKVMVREFDDSFLNDDENFYGKEEPEIRRLRLEK------NMIKFKGSANGVMDQKYNDL 348
+++ + ++ D + D+ GK +PEI L LE+ ++ F+ S +GV K +
Sbjct: 119 RRLDLEKYFDVMVFGDQVKNGKPDPEIYLLVLERLNVVPEKVVVFEDSKSGVEAAKSAGI 178
Query: 349 KEFNEHVHNIRNGKKNEDSG 368
+ VH++ +GK ++G
Sbjct: 179 ERIYGVVHSLNDGKALLEAG 198
Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta
Posted date: Jan 3, 2023 9:05 PM
Number of letters in database: 10,336,785
Number of sequences in database: 36,641
Lambda K H
0.320 0.140 0.416
Lambda K H
0.267 0.0431 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,150,538
Number of Sequences: 36641
Number of extensions: 928752
Number of successful extensions: 2062
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 2049
Number of HSP's gapped (non-prelim): 23
length of query: 458
length of database: 10,336,785
effective HSP length: 100
effective length of query: 358
effective length of database: 6,672,685
effective search space: 2388821230
effective search space used: 2388821230
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 (28.0 bits)