By Eyk Henning 

FRANKFURT-- Deutsche Bank AG settled a long-running investigation into the manipulation of interest rates with U.S. and British authorities by paying a record $2.5 billion fine, regulators said Thursday.

The giant German lender also agreed to plead guilty to U.S. criminal charges and acknowledged that its internal monitoring systems were insufficient to prevent the manipulation of the London interbank offered rate, or Libor, a benchmark for interest rates on trillions of dollars of financial contracts, according to statements from regulators Thursday.

The settlement resolves investigations by U.S. federal and New York state regulators and law-enforcement officials, as well as the U.K.'s Financial Conduct Authority. The offices have been investigating allegations that Deutsche Bank employees sought to manipulate Libor.

The FCA said "Deutsche Bank's failings were compounded by them repeatedly misleading us. The bank took far too long to produce vital documents and it moved far too slowly to fix relevant systems and controls."

The U.K. regulator also said the bank destroyed hundreds of phone recordings.

The CFTC said Deutsche Bank's "culture allowed such egregious and pervasive misconduct to thrive."

As part of the settlement, Deutsche Bank has agreed to install an independent monitor and terminate and ban individual employees who engaged in misconduct, the New York Department of Financial Services said. The authority in its verdict also quoted from email chats of Deutsche Bank traders, with one writing that a benchmark was "a corrupt fixing and DB is part of it!"

Deutsche Bank on Wednesday said it added EUR1.5 billion ($1.61 billion) in litigation reserves in the first quarter, on top of the EUR3.2 billion it had previously set aside. The lender is the latest of several large European banks to be punished by U.S. regulators in recent months. Last year, BNP Paribas SA paid nearly $9 billion and pleaded guilty to violating U.S. sanctions. Germany's second largest lender, Commerzbank AG, paid $1.45 billion in March for a similar matter.

Deutsche Bank in 2013 was among a handful of U.S. and European banks that paid billions to settle a European Union antitrust investigation involving interest-rate manipulation. As part of that deal, Deutsche Bank paid a total of about EUR725 million.

Thursday's settlement means Deutsche Bank's total tab for rate manipulation is now about $3.5 billion--roughly double the amount doled out by the No. 2 bank, UBS AG, which paid $1.5 billion in late 2012.

Worldwide, banks have paid a total of over $7 billion of penalties for Libor-rigging offenses.

Resolving Libor would end one of Deutsche Bank's largest outstanding legal issues. The bank has paid more than EUR5 billion over recent years for settlements and fines, stemming mostly from actions linked to the financial crisis.

Authorities are still investigating separate allegations that Deutsche Bank was involvement in efforts to manipulate foreign-exchange markets. People familiar with the matter say the bank is likely to face an even higher fine than for the Libor case. The investigation is expected to drag into the second half of the year. Deutsche Bank is also being probed for alleged violations of U.S. sanctions on Iran and other countries.

Write to Eyk Henning at eyk.henning@wsj.com

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